[English] 日本語
Yorodumi
- EMDB-3915: Substrate processing state 26S proteasome (SPS2) -

+
Open data


ID or keywords:

Loading...

-
Basic information

Entry
Database: EMDB / ID: EMD-3915
TitleSubstrate processing state 26S proteasome (SPS2)
Map datain situ reconstruction of Rat proteasome in substrate processing states 2
Sample
  • Complex: Substrate processing state 26S proteasome (SPS2)
    • Protein or peptide: x 32 types
KeywordsUPS / Substrate processing state / Neuron degeneration / HYDROLASE
Function / homology
Function and homology information


nuclear proteasome complex / Cross-presentation of soluble exogenous antigens (endosomes) / N-glycan trimming in the ER and Calnexin/Calreticulin cycle / Regulation of ornithine decarboxylase (ODC) / Metalloprotease DUBs / Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha / Autodegradation of Cdh1 by Cdh1:APC/C / SCF-beta-TrCP mediated degradation of Emi1 / APC/C:Cdc20 mediated degradation of Securin / APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1 ...nuclear proteasome complex / Cross-presentation of soluble exogenous antigens (endosomes) / N-glycan trimming in the ER and Calnexin/Calreticulin cycle / Regulation of ornithine decarboxylase (ODC) / Metalloprotease DUBs / Oxygen-dependent proline hydroxylation of Hypoxia-inducible Factor Alpha / Autodegradation of Cdh1 by Cdh1:APC/C / SCF-beta-TrCP mediated degradation of Emi1 / APC/C:Cdc20 mediated degradation of Securin / APC/C:Cdh1 mediated degradation of Cdc20 and other APC/C:Cdh1 targeted proteins in late mitosis/early G1 / Cdc20:Phospho-APC/C mediated degradation of Cyclin A / SCF(Skp2)-mediated degradation of p27/p21 / Autodegradation of the E3 ubiquitin ligase COP1 / Asymmetric localization of PCP proteins / Degradation of DVL / Hedgehog ligand biogenesis / Dectin-1 mediated noncanonical NF-kB signaling / Degradation of GLI1 by the proteasome / Hedgehog 'on' state / TNFR2 non-canonical NF-kB pathway / NIK-->noncanonical NF-kB signaling / UCH proteinases / Assembly of the pre-replicative complex / CDK-mediated phosphorylation and removal of Cdc6 / G2/M Checkpoints / Ubiquitin Mediated Degradation of Phosphorylated Cdc25A / Ubiquitin-dependent degradation of Cyclin D / The role of GTSE1 in G2/M progression after G2 checkpoint / FBXL7 down-regulates AURKA during mitotic entry and in early mitosis / RUNX1 regulates transcription of genes involved in differentiation of HSCs / Regulation of RUNX3 expression and activity / GSK3B and BTRC:CUL1-mediated-degradation of NFE2L2 / GLI3 is processed to GLI3R by the proteasome / Activation of NF-kappaB in B cells / Degradation of beta-catenin by the destruction complex / Degradation of AXIN / Regulation of RAS by GAPs / Orc1 removal from chromatin / Neddylation / AUF1 (hnRNP D0) binds and destabilizes mRNA / MAPK6/MAPK4 signaling / Regulation of PTEN stability and activity / KEAP1-NFE2L2 pathway / Separation of Sister Chromatids / fluid transport / Antigen processing: Ubiquitination & Proteasome degradation / regulation of protein catabolic process at postsynapse, modulating synaptic transmission / ABC-family proteins mediated transport / Ub-specific processing proteases / positive regulation of inclusion body assembly / thyrotropin-releasing hormone receptor binding / modulation by host of viral transcription / meiosis I / proteasome accessory complex / integrator complex / proteasome regulatory particle / cytosolic proteasome complex / proteasome regulatory particle, lid subcomplex / proteasome-activating activity / proteasome regulatory particle, base subcomplex / metal-dependent deubiquitinase activity / proteasome core complex / Neutrophil degranulation / myofibril / immune system process / proteasome binding / regulation of protein catabolic process / proteasome storage granule / blastocyst development / general transcription initiation factor binding / NF-kappaB binding / endopeptidase activator activity / polyubiquitin modification-dependent protein binding / proteasome assembly / protein deubiquitination / positive regulation of RNA polymerase II transcription preinitiation complex assembly / proteasome endopeptidase complex / proteasome core complex, beta-subunit complex / proteasome core complex, alpha-subunit complex / threonine-type endopeptidase activity / mRNA export from nucleus / regulation of proteasomal protein catabolic process / enzyme regulator activity / inclusion body / ERAD pathway / TBP-class protein binding / sarcomere / proteasome complex / ciliary basal body / proteolysis involved in protein catabolic process / stem cell differentiation / negative regulation of inflammatory response to antigenic stimulus / lipopolysaccharide binding / double-strand break repair via homologous recombination / P-body / modulation of chemical synaptic transmission / response to virus / response to organic cyclic compound / double-strand break repair via nonhomologous end joining / nuclear matrix
Similarity search - Function
: / Ubiquitin interaction motif / : / 26S proteasome regulatory subunit RPN7/PSMD6 C-terminal helix / 26S proteasome non-ATPase regulatory subunit Rpn12 / 26S proteasome regulatory subunit, C-terminal / Proteasome regulatory subunit C-terminal / DSS1/SEM1 / 26S proteasome regulatory subunit RPN5, C-terminal domain / : ...: / Ubiquitin interaction motif / : / 26S proteasome regulatory subunit RPN7/PSMD6 C-terminal helix / 26S proteasome non-ATPase regulatory subunit Rpn12 / 26S proteasome regulatory subunit, C-terminal / Proteasome regulatory subunit C-terminal / DSS1/SEM1 / 26S proteasome regulatory subunit RPN5, C-terminal domain / : / DSS1/SEM1 family / 26S proteasome regulatory subunit RPN5 C-terminal domain / PSD13 N-terminal repeats / DSS1_SEM1 / 26S proteasome regulatory subunit Rpn6, N-terminal / 6S proteasome subunit Rpn6, C-terminal helix domain / 26S proteasome regulatory subunit RPN6 N-terminal domain / 26S proteasome subunit RPN6 C-terminal helix domain / 26S Proteasome non-ATPase regulatory subunit 13 / : / 26S proteasome subunit RPN2, N-terminal domain / 26S proteasome regulatory complex, non-ATPase subcomplex, Rpn2/Psmd1 subunit / 26S proteasome regulatory subunit RPN2, C-terminal / 26S proteasome regulatory subunit RPN2 C-terminal domain / 26S Proteasome non-ATPase regulatory subunit 7/8 / 26S proteasome regulatory complex, non-ATPase subcomplex, Rpn1 subunit / RPN1, N-terminal / 26S proteasome non-ATPase regulatory subunit RPN1, C-terminal / : / RPN1 N-terminal domain / 26S proteasome non-ATPase regulatory subunit RPN1 C-terminal / 26S proteasome regulatory subunit 7, OB domain / : / : / PSMD12/CSN4, N-terminal / 26S proteasome regulatory subunit Rpn7/COP9 signalosome complex subunit 1 / 26S proteasome regulatory subunit Rpn7, N-terminal / 26S proteasome subunit RPN7 / 26S Proteasome non-ATPase regulatory subunit 12/COP9 signalosome complex subunit 4 / Proteasome/cyclosome repeat / Ubiquitin-interacting motif. / Proteasome/cyclosome repeat / PCI/PINT associated module / : / von Willebrand factor type A domain / Proteasome subunit alpha 1 / HEAT repeats / Proteasomal ATPase OB C-terminal domain / Proteasomal ATPase OB C-terminal domain / CSN8/PSMD8/EIF3K / CSN8/PSMD8/EIF3K family / Rpn11/EIF3F, C-terminal / Maintenance of mitochondrial structure and function / : / motif in proteasome subunits, Int-6, Nip-1 and TRIP-15 / PCI domain / Proteasome component (PCI) domain / PCI domain profile. / Ubiquitin interacting motif / Ubiquitin-interacting motif (UIM) domain profile. / JAB1/Mov34/MPN/PAD-1 ubiquitin protease / Proteasome beta subunit, C-terminal / Proteasome beta subunits C terminal / Proteasome subunit beta 4 / Proteasome subunit beta 2 / Proteasome beta 3 subunit / Proteasome subunit alpha6 / Proteasome subunit alpha5 / Proteasome beta-type subunits signature. / Peptidase T1A, proteasome beta-subunit / Proteasome beta-type subunit, conserved site / Proteasome subunit A N-terminal signature / Proteasome alpha-type subunits signature. / Proteasome alpha-subunit, N-terminal domain / Proteasome subunit A N-terminal signature Add an annotation / von Willebrand factor (vWF) type A domain / : / Proteasome alpha-type subunit / Proteasome alpha-type subunit profile. / VWFA domain profile. / Proteasome B-type subunit / Proteasome beta-type subunit profile. / Proteasome subunit / Proteasome, subunit alpha/beta / von Willebrand factor, type A / AAA ATPase, AAA+ lid domain / AAA+ lid domain / ATPase, AAA-type, conserved site / AAA-protein family signature. / JAB/MPN domain / JAB1/MPN/MOV34 metalloenzyme domain / MPN domain / MPN domain profile. / Nucleophile aminohydrolases, N-terminal / von Willebrand factor A-like domain superfamily / ATPase family associated with various cellular activities (AAA) / ATPase, AAA-type, core / Armadillo-like helical / Tetratricopeptide-like helical domain superfamily / Armadillo-type fold
Similarity search - Domain/homology
26S proteasome non-ATPase regulatory subunit 13 / 26S proteasome complex subunit SEM1 / Proteasome 26S subunit, non-ATPase 7 / 26S proteasome non-ATPase regulatory subunit 8 / 26S proteasome non-ATPase regulatory subunit 11 / Proteasome 26S subunit, ATPase 6 / 26S proteasome non-ATPase regulatory subunit 1 / Proteasome subunit alpha type-2 / Proteasome subunit alpha type-1 / Proteasome subunit beta type-1 ...26S proteasome non-ATPase regulatory subunit 13 / 26S proteasome complex subunit SEM1 / Proteasome 26S subunit, non-ATPase 7 / 26S proteasome non-ATPase regulatory subunit 8 / 26S proteasome non-ATPase regulatory subunit 11 / Proteasome 26S subunit, ATPase 6 / 26S proteasome non-ATPase regulatory subunit 1 / Proteasome subunit alpha type-2 / Proteasome subunit alpha type-1 / Proteasome subunit beta type-1 / Proteasome subunit alpha type-3 / Proteasome subunit alpha type-4 / Proteasome subunit beta type-6 / Proteasome subunit beta type-5 / Proteasome subunit alpha type-5 / Proteasome subunit beta type-4 / Proteasome subunit beta type-3 / Proteasome subunit beta type-2 / Proteasome subunit alpha type-7 / Proteasome subunit alpha type-6 / 26S proteasome regulatory subunit 4 / 26S proteasome regulatory subunit 8 / 26S proteasome non-ATPase regulatory subunit 2 / Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 14 / Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 3 / Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 12 / 26S proteasome regulatory subunit 7 / 26S proteasome regulatory subunit 6A / 26S proteasome regulatory subunit 6B / Proteasome (Prosome, macropain) 26S subunit, ATPase 3 / 26S proteasome non-ATPase regulatory subunit 6 / 26S proteasome non-ATPase regulatory subunit 4 / Proteasome subunit beta type-7
Similarity search - Component
Biological speciesRattus norvegicus (Norway rat)
Methodsubtomogram averaging / cryo EM / Resolution: 12.8 Å
AuthorsGuo Q / Lehmer C
Funding support Germany, United States, 4 items
OrganizationGrant numberCountry
European CommissionFP7 GA ERC-2012-SyG_318987-ToPAG Germany
European CommissionFP7 GA ERC-2013-CoG_617198 DPR-MODELS Germany
German Research FoundationSFB-1035/Project A01 Germany
National Institutes of Health9P41GM104601 United States
CitationJournal: Cell / Year: 2018
Title: In Situ Structure of Neuronal C9orf72 Poly-GA Aggregates Reveals Proteasome Recruitment.
Authors: Qiang Guo / Carina Lehmer / Antonio Martínez-Sánchez / Till Rudack / Florian Beck / Hannelore Hartmann / Manuela Pérez-Berlanga / Frédéric Frottin / Mark S Hipp / F Ulrich Hartl / ...Authors: Qiang Guo / Carina Lehmer / Antonio Martínez-Sánchez / Till Rudack / Florian Beck / Hannelore Hartmann / Manuela Pérez-Berlanga / Frédéric Frottin / Mark S Hipp / F Ulrich Hartl / Dieter Edbauer / Wolfgang Baumeister / Rubén Fernández-Busnadiego /
Abstract: Protein aggregation and dysfunction of the ubiquitin-proteasome system are hallmarks of many neurodegenerative diseases. Here, we address the elusive link between these phenomena by employing cryo- ...Protein aggregation and dysfunction of the ubiquitin-proteasome system are hallmarks of many neurodegenerative diseases. Here, we address the elusive link between these phenomena by employing cryo-electron tomography to dissect the molecular architecture of protein aggregates within intact neurons at high resolution. We focus on the poly-Gly-Ala (poly-GA) aggregates resulting from aberrant translation of an expanded GGGGCC repeat in C9orf72, the most common genetic cause of amyotrophic lateral sclerosis and frontotemporal dementia. We find that poly-GA aggregates consist of densely packed twisted ribbons that recruit numerous 26S proteasome complexes, while other macromolecules are largely excluded. Proximity to poly-GA ribbons stabilizes a transient substrate-processing conformation of the 26S proteasome, suggesting stalled degradation. Thus, poly-GA aggregates may compromise neuronal proteostasis by driving the accumulation and functional impairment of a large fraction of cellular proteasomes.
History
DepositionOct 11, 2017-
Header (metadata) releaseDec 20, 2017-
Map releaseFeb 7, 2018-
UpdateMay 15, 2024-
Current statusMay 15, 2024Processing site: PDBe / Status: Released

-
Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.4
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by radius
  • Surface level: 0.4
  • Imaged by UCSF Chimera
  • Download
  • Surface view with fitted model
  • Atomic models: PDB-6epe
  • Surface level: 0.4
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_3915.png

Downloads & links

-
Map

FileDownload / File: emd_3915.map.gz / Format: CCP4 / Size: 2.8 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationin situ reconstruction of Rat proteasome in substrate processing states 2
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
3.42 Å/pix.
x 90 pix.
= 307.8 Å		3.42 Å/pix.
x 90 pix.
= 307.8 Å		3.42 Å/pix.
x 90 pix.
= 307.8 Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 3.42 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.4 / Movie #1: 0.4
Minimum - Maximum-0.3624924 - 0.74848866
Average (Standard dev.)-0.0053123855 (±0.16168733)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin-44-44-44
Dimensions909090
Spacing909090
CellA=B=C: 307.80002 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z3.423.423.42
M x/y/z909090
origin x/y/z0.0000.0000.000
length x/y/z307.800307.800307.800
α/β/γ90.00090.00090.000
start NX/NY/NZ-128-128-128
NX/NY/NZ256256256
MAP C/R/S123
start NC/NR/NS-44-44-44
NC/NR/NS909090
D min/max/mean-0.3620.748-0.005

-
Supplemental data

-
Sample components

+
Entire : Substrate processing state 26S proteasome (SPS2)

EntireName: Substrate processing state 26S proteasome (SPS2)
Components
  • Complex: Substrate processing state 26S proteasome (SPS2)
    • Protein or peptide: Proteasome subunit alpha type-6
    • Protein or peptide: Proteasome subunit alpha type-2
    • Protein or peptide: Proteasome subunit alpha type-4
    • Protein or peptide: Proteasome subunit alpha type-7
    • Protein or peptide: Proteasome subunit alpha type-5
    • Protein or peptide: Proteasome subunit alpha type-1
    • Protein or peptide: Proteasome subunit alpha type-3
    • Protein or peptide: Proteasome subunit beta type-6
    • Protein or peptide: Proteasome subunit beta type-7
    • Protein or peptide: Proteasome subunit beta type-3
    • Protein or peptide: Proteasome subunit beta type-2
    • Protein or peptide: Proteasome subunit beta type-5
    • Protein or peptide: Proteasome subunit beta type-1
    • Protein or peptide: Proteasome subunit beta type-4
    • Protein or peptide: 26S proteasome subunit S5a
    • Protein or peptide: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 14
    • Protein or peptide: Proteasome 26S subunit, non-ATPase 8
    • Protein or peptide: RCG28037
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 2
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 1
    • Protein or peptide: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 3
    • Protein or peptide: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 12
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 11
    • Protein or peptide: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 6
    • Protein or peptide: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 7 (Predicted)
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 13
    • Protein or peptide: 26S proteasome regulatory subunit 7
    • Protein or peptide: 26S proteasome regulatory subunit 4
    • Protein or peptide: 26S proteasome regulatory subunit 6B
    • Protein or peptide: Proteasome 26S subunit, ATPase 6
    • Protein or peptide: 26S proteasome regulatory subunit 6A
    • Protein or peptide: 26S proteasome regulatory subunit 8

+
Supramolecule #1: Substrate processing state 26S proteasome (SPS2)

SupramoleculeName: Substrate processing state 26S proteasome (SPS2) / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Details: in situ proteasome structure generated by subtomogram averaging
Source (natural)Organism: Rattus norvegicus (Norway rat)

+
Macromolecule #1: Proteasome subunit alpha type-6

MacromoleculeName: Proteasome subunit alpha type-6 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 27.432459 KDa
SequenceString: MSRGSSAGFD RHITIFSPEG RLYQVEYAFK AINQGGLTSV AVRGKDCAVI VTQKKVPDKL LDSSTVTHLF KITENIGCVM TGMTADSRS QVQRARYEAA NWKYKYGYEI PVDMLCKRIA DISQVYTQNA EMRPLGCCMI LIGIDEEQGP QVYKCDPAGY Y CGFKATAA ...String:
MSRGSSAGFD RHITIFSPEG RLYQVEYAFK AINQGGLTSV AVRGKDCAVI VTQKKVPDKL LDSSTVTHLF KITENIGCVM TGMTADSRS QVQRARYEAA NWKYKYGYEI PVDMLCKRIA DISQVYTQNA EMRPLGCCMI LIGIDEEQGP QVYKCDPAGY Y CGFKATAA GVKQTESTSF LEKKVKKKFD WTFEQTVETA ITCLSTVLSI DFKPSEIEVG VVTVENPKFR ILTEAEIDAH LV ALAERD

UniProtKB: Proteasome subunit alpha type-6

+
Macromolecule #2: Proteasome subunit alpha type-2

MacromoleculeName: Proteasome subunit alpha type-2 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 25.955549 KDa
SequenceString: MAERGYSFSL TTFSPSGKLV QIEYALAAVA GGAPSVGIKA ANGVVLATEK KQKSILYDER SVHKVEPITK HIGLVYSGMG PDYRVLVHR ARKLAQQYYL VYQEPIPTAQ LVQRVASVMQ EYTQSGGVRP FGVSLLICGW NEGRPYLFQS DPSGAYFAWK A TAMGKNYV ...String:
MAERGYSFSL TTFSPSGKLV QIEYALAAVA GGAPSVGIKA ANGVVLATEK KQKSILYDER SVHKVEPITK HIGLVYSGMG PDYRVLVHR ARKLAQQYYL VYQEPIPTAQ LVQRVASVMQ EYTQSGGVRP FGVSLLICGW NEGRPYLFQS DPSGAYFAWK A TAMGKNYV NGKTFLEKRY NEDLELEDAI HTAILTLKES FEGQMTEDNI EVGICNEAGF RRLTPTEVRD YLAAIA

UniProtKB: Proteasome subunit alpha type-2

+
Macromolecule #3: Proteasome subunit alpha type-4

MacromoleculeName: Proteasome subunit alpha type-4 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 29.53983 KDa
SequenceString: MSRRYDSRTT IFSPEGRLYQ VEYAMEAIGH AGTCLGILAN DGVLLAAERR NIHKLLDEVF FSEKIYKLNE DMACSVAGIT SDANVLTNE LRLIAQRYLL QYQEPIPCEQ LVTALCDIKQ AYTQFGGKRP FGVSLLYIGW DKHYGFQLYQ SDPSGNYGGW K ATCIGNNS ...String:
MSRRYDSRTT IFSPEGRLYQ VEYAMEAIGH AGTCLGILAN DGVLLAAERR NIHKLLDEVF FSEKIYKLNE DMACSVAGIT SDANVLTNE LRLIAQRYLL QYQEPIPCEQ LVTALCDIKQ AYTQFGGKRP FGVSLLYIGW DKHYGFQLYQ SDPSGNYGGW K ATCIGNNS AAAVSMLKQD YKEGEMTLKS ALALAVKVLN KTMDVSKLSA EKVEIATLTR ENGKTVIRVL KQKEVEQLIK KH EEEEAKA EREKKEKEQR EKDK

UniProtKB: Proteasome subunit alpha type-4

+
Macromolecule #4: Proteasome subunit alpha type-7

MacromoleculeName: Proteasome subunit alpha type-7 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 28.369439 KDa
SequenceString: MSYDRAITVF SPDGHLFQVE YAQEAVKKGS TAVGVRGRDI VVLGVEKKSV AKLQDERTVR KICALDDNVC MAFAVVASVS GLTADARIV INRARVECQS HRLTVGDPVT VEYITRYIAS LKQRYTQSNG RRPFGISALI VGFDFDGTPR LYQTDPSGTY H AWKANAIG ...String:
MSYDRAITVF SPDGHLFQVE YAQEAVKKGS TAVGVRGRDI VVLGVEKKSV AKLQDERTVR KICALDDNVC MAFAVVASVS GLTADARIV INRARVECQS HRLTVGDPVT VEYITRYIAS LKQRYTQSNG RRPFGISALI VGFDFDGTPR LYQTDPSGTY H AWKANAIG RGAKSVREFL EKNYTDDAIE TDDLTIKLVI KALLEVVQSG GKNIELAVMR RDQPLKILSP EEIEKYVAEI EK EKEENEK KKQKKAS

UniProtKB: Proteasome subunit alpha type-7

+
Macromolecule #5: Proteasome subunit alpha type-5

MacromoleculeName: Proteasome subunit alpha type-5 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 26.41685 KDa
SequenceString: MFLTRSEYDR GVNTFSPEGR LFQVEYAIEG HKLGSTAIGI QTSEGVCLAV EKRITSPLME PSSIEKIVEI DAHIGCAMSG LIADAKTLI DKARVETQNH WFTYNETMTV ESVTQAVSNL ALQFGEEDAD PGAMSRPFGV ALLFGGVDEK GPQLFHMDPS G TFVQCDAR ...String:
MFLTRSEYDR GVNTFSPEGR LFQVEYAIEG HKLGSTAIGI QTSEGVCLAV EKRITSPLME PSSIEKIVEI DAHIGCAMSG LIADAKTLI DKARVETQNH WFTYNETMTV ESVTQAVSNL ALQFGEEDAD PGAMSRPFGV ALLFGGVDEK GPQLFHMDPS G TFVQCDAR AIGSASEGAQ SSLQEVYHKS TTLKEAIKSS LIILKQVMEE KLNATNIELA TVQPGQNFHM FTKEELEEVI KD I

UniProtKB: Proteasome subunit alpha type-5

+
Macromolecule #6: Proteasome subunit alpha type-1

MacromoleculeName: Proteasome subunit alpha type-1 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 29.557541 KDa
SequenceString: MFRNQYDNDV TVWSPQGRIH QIEYAMEAVK QGSATVGLKS KTHAVLVALK RAQSELAAHQ KKILHVDNHI GISIAGLTAD ARLLCNFMR QECLDSRFVF DRPLPVSRLV SLIGSKTQIP TQRYGRRPYG VGLLIAGYDD MGPHVFQTCP SANYFDCRAM S IGARSQSA ...String:
MFRNQYDNDV TVWSPQGRIH QIEYAMEAVK QGSATVGLKS KTHAVLVALK RAQSELAAHQ KKILHVDNHI GISIAGLTAD ARLLCNFMR QECLDSRFVF DRPLPVSRLV SLIGSKTQIP TQRYGRRPYG VGLLIAGYDD MGPHVFQTCP SANYFDCRAM S IGARSQSA RTYLERHMSE FMQCNLDELV KHGLRALRET LPAEQDLTTK NVSIGIVGKD LEFTIYDDDD VSPFLDGLEE RP QRKAQPS QAADEPAEKA DEPMEH

UniProtKB: Proteasome subunit alpha type-1

+
Macromolecule #7: Proteasome subunit alpha type-3

MacromoleculeName: Proteasome subunit alpha type-3 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 28.456275 KDa
SequenceString: MSSIGTGYDL SASTFSPDGR VFQVEYAMKA VENSSTAIGI RCKDGVVFGV EKLVLSKLYE EGSNKRLFNV DRHVGMAVAG LLADARSLA DIAREEASNF RSNFGYNIPL KHLADRVAMY VHAYTLYSAV RPFGCSFMLG SYSVNDGAQL YMIDPSGVSY G YWGCAIGK ...String:
MSSIGTGYDL SASTFSPDGR VFQVEYAMKA VENSSTAIGI RCKDGVVFGV EKLVLSKLYE EGSNKRLFNV DRHVGMAVAG LLADARSLA DIAREEASNF RSNFGYNIPL KHLADRVAMY VHAYTLYSAV RPFGCSFMLG SYSVNDGAQL YMIDPSGVSY G YWGCAIGK ARQAAKTEIE KLQMKEMTCR DVVKEVAKII YIVHDEVKDK AFELELSWVG ELTKGRHEIV PKDVREEAEK YA KESLKEE DESDDDNM

UniProtKB: Proteasome subunit alpha type-3

+
Macromolecule #8: Proteasome subunit beta type-6

MacromoleculeName: Proteasome subunit beta type-6 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 25.309576 KDa
SequenceString: MAAALAVRGA VSAPAFGPEA LTPDWENREV STGTTIMAVQ FDGGVVLGAD SRTTTGSYIA NRVTDKLTPI HDHIFCCRSG SAADTQAVA DAVTYQLGFH SIELNEPPLV HTAASLFKEM CYRYREDLMA GIIIAGWDPQ EGGQVYSVPM GGMMVRQSFA I GGSGSSYI ...String:
MAAALAVRGA VSAPAFGPEA LTPDWENREV STGTTIMAVQ FDGGVVLGAD SRTTTGSYIA NRVTDKLTPI HDHIFCCRSG SAADTQAVA DAVTYQLGFH SIELNEPPLV HTAASLFKEM CYRYREDLMA GIIIAGWDPQ EGGQVYSVPM GGMMVRQSFA I GGSGSSYI YGYVDATYRE GMTKDECLQF TANALALAME RDGSSGGVIR LAAIQQSGVE RQVLLGDQIP KVTISTLPPP

UniProtKB: Proteasome subunit beta type-6

+
Macromolecule #9: Proteasome subunit beta type-7

MacromoleculeName: Proteasome subunit beta type-7 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 29.963461 KDa
SequenceString: MAAVSVFQAP VGGFSFDNCR RNAVLEADFA KKGFKLPKAR KTGTTIAGVV YKDGIVLGAD TRATEGMVVA DKNCSKIHFI SPNIYCCGA GTAADTDMTT QLISSNLELH SLTTGRLPRV VTANRMLKQM LFRYQGYIGA ALVLGGVDVT GPHLYSIYPH G STDKLPYV ...String:
MAAVSVFQAP VGGFSFDNCR RNAVLEADFA KKGFKLPKAR KTGTTIAGVV YKDGIVLGAD TRATEGMVVA DKNCSKIHFI SPNIYCCGA GTAADTDMTT QLISSNLELH SLTTGRLPRV VTANRMLKQM LFRYQGYIGA ALVLGGVDVT GPHLYSIYPH G STDKLPYV TMGSGSLAAM AVFEDKFRPD MEEEEAKKLV SEAIAAGIFN DLGSGSNIDL CVISKSKLDF LRPYSVPNKK GT RFGRYRC EKGTTAVLTE KVTPLELEVL EEIVQTMDTS

UniProtKB: Proteasome subunit beta type-7

+
Macromolecule #10: Proteasome subunit beta type-3

MacromoleculeName: Proteasome subunit beta type-3 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 22.988895 KDa
SequenceString: MSVMSYNGGA VMAMKGKNCV AIAADRRFGI QAQMVTTDFQ KIFPMGDRLY IGLAGLATDV QTVAQRLKFR LNLYELKEGR QIKPYTLMS MVANLLYEKR FGPYYTEPVI AGLDPKTFKP FICSLDLIGC PMVTDDFVVS GTCSEQMYGM CESLWEPNMD P EHLFETIS ...String:
MSVMSYNGGA VMAMKGKNCV AIAADRRFGI QAQMVTTDFQ KIFPMGDRLY IGLAGLATDV QTVAQRLKFR LNLYELKEGR QIKPYTLMS MVANLLYEKR FGPYYTEPVI AGLDPKTFKP FICSLDLIGC PMVTDDFVVS GTCSEQMYGM CESLWEPNMD P EHLFETIS QAMLNAVDRD AVSGMGVIVH IIEKDKITTR TLKARMD

UniProtKB: Proteasome subunit beta type-3

+
Macromolecule #11: Proteasome subunit beta type-2

MacromoleculeName: Proteasome subunit beta type-2 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 22.941381 KDa
SequenceString: MEYLIGIQGP DYVLVASDRV AASNIVQMKD DHDKMFKMSE KILLLCVGEA GDTVQFAEYI QKNVQLYKMR NGYELSPTAA ANFTRRNLA DCLRSRTPYH VNLLLAGYDE HEGPALYYMD YLAALAKAPF AAHGYGAFLT LSILDRYYTP TISRERAVEL L RKCLEELQ ...String:
MEYLIGIQGP DYVLVASDRV AASNIVQMKD DHDKMFKMSE KILLLCVGEA GDTVQFAEYI QKNVQLYKMR NGYELSPTAA ANFTRRNLA DCLRSRTPYH VNLLLAGYDE HEGPALYYMD YLAALAKAPF AAHGYGAFLT LSILDRYYTP TISRERAVEL L RKCLEELQ KRFILNLPTF SVRVIDKDGI HNLENITFTK RSS

UniProtKB: Proteasome subunit beta type-2

+
Macromolecule #12: Proteasome subunit beta type-5

MacromoleculeName: Proteasome subunit beta type-5 / type: protein_or_peptide / ID: 12 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 28.615408 KDa
SequenceString: MALASVLQRP MPVNQHGFFG LGGRADLLDL GPGSPGDGLS LAAPSWGVPE EPRIEMLHGT TTLAFKFQHG VIVAADSRAT AGPYIASQT VKKVIEINPY LLGTMAGGAA DCSFWERLLA RQCRIYELRN KERISVAAAS KLLANMVYQY KGMGLSMGTM I CGWDKRGP ...String:
MALASVLQRP MPVNQHGFFG LGGRADLLDL GPGSPGDGLS LAAPSWGVPE EPRIEMLHGT TTLAFKFQHG VIVAADSRAT AGPYIASQT VKKVIEINPY LLGTMAGGAA DCSFWERLLA RQCRIYELRN KERISVAAAS KLLANMVYQY KGMGLSMGTM I CGWDKRGP GLYYVDSEGN RISGTAFSVG SGSVYAFGVM DRGYSYDLQV EEAYDLARRA IYQATYRDAY SGGAVNLYHV RE DGWIRVS SDNVADLHDK YTSSIP

UniProtKB: Proteasome subunit beta type-5

+
Macromolecule #13: Proteasome subunit beta type-1

MacromoleculeName: Proteasome subunit beta type-1 / type: protein_or_peptide / ID: 13 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 26.511301 KDa
SequenceString: MLSTAAYRDP DRELVMGPQG SAGPVQMRFS PYAFNGGTVL AIAGEDFSIV ASDTRLSEGF SIHTRDSPKC YKLTDKTVIG CSGFHGDCL TLTKIIEARL KMYKHSNNKA MTTGAIAAML STILYSRRFF PYYVYNIIEG LDEEGKGAVY SFDPVGSYQR D SFKAGGSA ...String:
MLSTAAYRDP DRELVMGPQG SAGPVQMRFS PYAFNGGTVL AIAGEDFSIV ASDTRLSEGF SIHTRDSPKC YKLTDKTVIG CSGFHGDCL TLTKIIEARL KMYKHSNNKA MTTGAIAAML STILYSRRFF PYYVYNIIEG LDEEGKGAVY SFDPVGSYQR D SFKAGGSA SAMLQPLLDN QVGFKNMQNV EHVPLTLDRA MRLVKDVFIS AAERDVYTGD ALRICIVTKE GIREETVPLR KD

UniProtKB: Proteasome subunit beta type-1

+
Macromolecule #14: Proteasome subunit beta type-4

MacromoleculeName: Proteasome subunit beta type-4 / type: protein_or_peptide / ID: 14 / Number of copies: 1 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 29.226248 KDa
SequenceString: MEAFWESRTG HWAGGPAPGQ FYRVPSTPSC LMDPMSAPAR PITRTQNPMV TGTSVLGVKF DCGVVIAADM LGSYGSLARF RNISRIMRV NDSTMLGASG DYADFQYLKQ VLGQMVIDEE LFGDGHSYSP RAIHSWLTRA MYSRRSKMNP LWNTKVIGGY A GGESFLGY ...String:
MEAFWESRTG HWAGGPAPGQ FYRVPSTPSC LMDPMSAPAR PITRTQNPMV TGTSVLGVKF DCGVVIAADM LGSYGSLARF RNISRIMRV NDSTMLGASG DYADFQYLKQ VLGQMVIDEE LFGDGHSYSP RAIHSWLTRA MYSRRSKMNP LWNTKVIGGY A GGESFLGY VDMLGVAYEA PSLATGYGAY LAQPLLREVL EKQPVLSQTE ARELVERCMR VLYYRDARSY NRFQVATVTE KG VEIEGPL SAQTNWDIAH MISGFE

UniProtKB: Proteasome subunit beta type-4

+
Macromolecule #15: 26S proteasome subunit S5a

MacromoleculeName: 26S proteasome subunit S5a / type: protein_or_peptide / ID: 15 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 40.775629 KDa
SequenceString: MVLESTMVCV DNSEYMRNGD FLPTRLQAQQ DAVNIVCHSK TRSNPENNVG LITLANDCEV LTTLTPDTGR ILSKLHTVQP KGKITFCTG IRVAHLALKH RQGKNHKMRI IAFVGSPVED NEKDLVKLAK RLKKEKVNVD IINFGEEEVN TEKLTAFVNT L NGKDGTGS ...String:
MVLESTMVCV DNSEYMRNGD FLPTRLQAQQ DAVNIVCHSK TRSNPENNVG LITLANDCEV LTTLTPDTGR ILSKLHTVQP KGKITFCTG IRVAHLALKH RQGKNHKMRI IAFVGSPVED NEKDLVKLAK RLKKEKVNVD IINFGEEEVN TEKLTAFVNT L NGKDGTGS HLVTVPPGPS LADALISSPI LAGEGGAMLG LGASDFEFGV DPSADPELAL ALRVSMEEQR QRQEEEARRA AA ASAAEAG IATPGTEDSD DALLKMTISQ QEFGRAGLPD LSSMTEEEQI AYAMQMSLQG AEFGQAESGD IDASSAMDTS EPV KEEDDY DVMQDPEFLQ SVLENLPGVD PNNEAIRNAM GSLASQATKD GKKDKKEEEK K

UniProtKB: 26S proteasome non-ATPase regulatory subunit 4

+
Macromolecule #16: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 14

MacromoleculeName: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 14
type: protein_or_peptide / ID: 16 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 34.620023 KDa
SequenceString: MDRLLRLGGG MPGLGQGPPT DAPAVDTAEQ VYISSLALLK MLKHGRAGVP MEVMGLMLGE FVDDYTVRVI DVFAMPQSGT GVSVEAVDP VFQAKMLDML KQTGRPEMVV GWYHSHPGFG CWLSGVDINT QQSFEALSER AVAVVVDPIQ SVKGKVVIDA F RLINANMM ...String:
MDRLLRLGGG MPGLGQGPPT DAPAVDTAEQ VYISSLALLK MLKHGRAGVP MEVMGLMLGE FVDDYTVRVI DVFAMPQSGT GVSVEAVDP VFQAKMLDML KQTGRPEMVV GWYHSHPGFG CWLSGVDINT QQSFEALSER AVAVVVDPIQ SVKGKVVIDA F RLINANMM VLGHEPRQTT SNLGHLNKPS IQALIHGLNR HYYSITINYR KNELEQKMLL NLHKKSWMEG LTLQDYSEHC KH NESVVKE MLELAKNYNK AVEEEDKMTP EQLAIKNVGK QDPKRHLEEH VDVLMTSNIV QCLAAMLDTV VFK

UniProtKB: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 14

+
Macromolecule #17: Proteasome 26S subunit, non-ATPase 8

MacromoleculeName: Proteasome 26S subunit, non-ATPase 8 / type: protein_or_peptide / ID: 17 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 39.932082 KDa
SequenceString: MFIKGRTAKA PRGEPRRSSR RGQKLAVVAP PPALGSTSRP HFRRESIARR RCRKSGRLFA ASRKMAAAAA TVNGTTGVSS SGPAATSGG ILQAAAGMYE QLKDEWNRKS PNLSKCGEEL GRLKLVLLEL NFLPTTGTKL TKQQLILARD ILEIGAQWSI L CKDIPSFE ...String:
MFIKGRTAKA PRGEPRRSSR RGQKLAVVAP PPALGSTSRP HFRRESIARR RCRKSGRLFA ASRKMAAAAA TVNGTTGVSS SGPAATSGG ILQAAAGMYE QLKDEWNRKS PNLSKCGEEL GRLKLVLLEL NFLPTTGTKL TKQQLILARD ILEIGAQWSI L CKDIPSFE RYMAQLKCYY FDYKEQLPES AYMHQLLGLN LLFLLSQNRV AEFHTELERL PAKDIQTNVY IKHPVSLEQY LM EGSYNKV FLAKGNIPAE SYTFFIDILL DTIRDEIAGC IEKAYEKILF AEATRILFFS TPKKMTDYAK KRGWLLGPNN YYS FASQQQ KPEDSTIPST ELARQVIEYA RQLEMIV

UniProtKB: 26S proteasome non-ATPase regulatory subunit 8

+
Macromolecule #18: RCG28037

MacromoleculeName: RCG28037 / type: protein_or_peptide / ID: 18 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 8.284611 KDa
SequenceString:
MSEKKQPVDL GLLEEDDEFE EFPAEDWAGL DEDEDAHVWE DNWDDDNVED DFSNQLRAEL EKHGYKMETS

UniProtKB: 26S proteasome complex subunit SEM1

+
Macromolecule #19: 26S proteasome non-ATPase regulatory subunit 2

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 2 / type: protein_or_peptide / ID: 19 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 100.300547 KDa
SequenceString: MEEGGRDKTP VQSQQPSATA PSGADEKSSG KERRDAGEKD KEQELSEEDK QLQDELEMLV ERLGEKDTSL YRPALEELRR QIRSSTTSM TSVPKPLKFL RPHYGKLKEI YENMAPGENK CFAADIISVL AMTMSGEREC LKYRLVGSQE ELASWGHEYV R HLAGEVAK ...String:
MEEGGRDKTP VQSQQPSATA PSGADEKSSG KERRDAGEKD KEQELSEEDK QLQDELEMLV ERLGEKDTSL YRPALEELRR QIRSSTTSM TSVPKPLKFL RPHYGKLKEI YENMAPGENK CFAADIISVL AMTMSGEREC LKYRLVGSQE ELASWGHEYV R HLAGEVAK EWQELDDAEK AQREPLLTLV KEIVPYNMAH NAEHEACDLL MEIEQVDMLE KDIDENAYSK VCLYLTSCVN YV PEPENSA LLRCALGVFR KFSRFPEALR LALMLNDMEL VEDIFTSCKD VVVQKQMAFM LGRHGVFLEL SEDVEEYEDL TEI MSNVQL NSNFLALARE LDIMEPKVPD DIYKTHLENN RFGGSGSQVD SARMNLASSF VNGFVNAAFG QDKLLTDDGN KWLY KNKDH GMLSAAASLG MILLWDVDGG LTQIDKYLYS SEDYIKSGAL LACGIVNSGV RNECDPALAL LSDYVLHNSN TMRLG SIFG LGLAYAGSNR EDVLTLLLPV MGDSKSSMEV AGVTALACGM IAVGSCNGDV TSTILQTIME KSETELKDTY ARWLPL GLG LNHLGKGEAI EAILAALEVV SEPFRSFANT LVDVCAYAGS GNVLKVQQLL HICSEHFDSK EKEEDKDKKE KKDKDKK EA PADMGAHQGV AVLGIALIAM GEEIGAEMAL RTFGHLLRYG EPTLRRAVPL ALALISVSNP RLNILDTLSK FSHDADPE V SYNSIFAMGM VGSGTNNARL AAMLRQLAQY HAKDPNNLFM VRLAQGLTHL GKGTLTLCPY HSDRQLMSQV AVAGLLTVL VSFLDVRNII LGKSHYVLYG LVAAMQPRML VTFDEELRPL PVSVRVGQAV DVVGQAGKPK TITGFQTHTT PVLLAHGERA ELATEEFLP VTPILEGFVI LRKNPNYNL

UniProtKB: 26S proteasome non-ATPase regulatory subunit 2

+
Macromolecule #20: 26S proteasome non-ATPase regulatory subunit 1

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 1 / type: protein_or_peptide / ID: 20 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 105.870117 KDa
SequenceString: MITSAAGIIS LLDEEEPQLK EFALHKLNAV VNDFWAEISE SVDKIEVLYE DEGFRSRQFA ALVASKVFYH LGAFEESLNY ALGAGDLFN VNDNSEYVET IIAKCIDHYT KQCVENADLP EGEKKPIDQR LEGIVNKMFQ RCLDDHKYKQ AIGIALETRR L DVFEKTIL ...String:
MITSAAGIIS LLDEEEPQLK EFALHKLNAV VNDFWAEISE SVDKIEVLYE DEGFRSRQFA ALVASKVFYH LGAFEESLNY ALGAGDLFN VNDNSEYVET IIAKCIDHYT KQCVENADLP EGEKKPIDQR LEGIVNKMFQ RCLDDHKYKQ AIGIALETRR L DVFEKTIL ESNDVPGMLA YSLKLCMSLM QNKQFRNKVL RVLVKIYMNL EKPDFINVCQ CLIFLDDTQA VSDILEKLVK ED NLLMAYQ ICFDLYESAS QQFLSSVIQN LRTVGTPIAS VPGSTNTGTV PGPEKDSDSM ETEEKTAGAV AGKTPDASPE PKD QTLKMI KILSGEMAIE LHLQFLIRNN NTDLMILKNT KDAVRNSVCH TATVIANSFM HCGTTSDQFL RDNLEWLARA TNWA KFTAT ASLGVIHKGH EKEALQLMAT YLPKDTSPGS AYQEGGGLYA LGLIHANHGG DIIDYLLNQL KNASNDIVRH GGSLG LGLA AMGTARQDVY DLLKTNLYQD DAVTGEAAGL ALGLVMLGSK NTQAIEDMVG YAQETQHEKI LRGLAVGIAL VMYGRM EEA DALIESLCRD KDPILRRSGM YTVAMAYCGS GNNKAIRRLL HVAVSDVNDD VRRAAVESLG FILFRTPEQC PSVVSLL SE SYNPHVRYGA AMALGVCCAG TGNKEAINLL EPMTNDPVNY VRQGALIASA LIMIQQTEIT CPKVNQFRQL YSKVINDK H DDVMAKFGAI LAQGILDAGG HNVTISLQSR TGHTHMPSVV GVLVFTQFWF WFPLSHFLSL AYTPTCIIGL NKDLKMPKV QYKSNCKPST FAYPAPLEVP KEKEKEKVST AVLSITAKAK KKEKEKEKKE EEKMEVDEAE KKEEKEKKKE PEPNFQLLDN PARVMPAQL KVLSMTETCR YQPFKPLSIG GIIILKDTSE DIEELVEPVA AHGPKIEEEE QEPEPPEPFE YIDD

UniProtKB: 26S proteasome non-ATPase regulatory subunit 1

+
Macromolecule #21: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 3

MacromoleculeName: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 3
type: protein_or_peptide / ID: 21 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 60.77818 KDa
SequenceString: MKQEGSARRR GADKAKPPPG GEQEPPPPAP QDVEMKEEAA AGSGSAGEGD GKAAATEHSQ RELDTVTLED IKEHVRQLEK AVSGKEPRF VLRALRMLPS TSRRLNHYVL YKAVHGFFTS NNATRDFLLP FLEEPMDTEA DLQFRPRTGK AASAPLLPEV E AYLQLLMV ...String:
MKQEGSARRR GADKAKPPPG GEQEPPPPAP QDVEMKEEAA AGSGSAGEGD GKAAATEHSQ RELDTVTLED IKEHVRQLEK AVSGKEPRF VLRALRMLPS TSRRLNHYVL YKAVHGFFTS NNATRDFLLP FLEEPMDTEA DLQFRPRTGK AASAPLLPEV E AYLQLLMV IFLMNSKRYK EAQKISDDLM QKISTQNRRA LDLVAAKCYY YHARVYEFLD KLDVVRSFLH ARLRTATLRH DA DGQATLL NLLLRNYLHY SLYDQAEKLV SKSVFPEQAN NNEWARYLYY TGRIKAIQLE YSEARRTMTN ALRKAPQHTA VGF KQTVHK LLIVVELLLG EIPDRLQFRQ PSLKRSLMPY FLLTQAVRTG NLAKFNQVLD QFGEKFQTDG TYTLIIRLRH NVIK TGVRM ISLSYSRISL ADIAQKLQLD SPEDAEFIVA KAIRDGVIEA SINHEKGYVQ SKEMIDIYST REPQLAFHQR ISFCL DIHN MSVKAMRFPP KSYNKDLESA EERREREQQD LEFAKEMAED DDDSFP

UniProtKB: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 3

+
Macromolecule #22: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 12

MacromoleculeName: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 12
type: protein_or_peptide / ID: 22 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 53.011246 KDa
SequenceString: MADGGSERAD GRIVKMEVDY SATVDQRLPE CEKLAKEGRL QEVIETLLSL EKQTRTASDM VSTSRILVAV VKMCYEAKEW DLLNENIML LSKRRSQLKQ AVAKMVQQCC TYVEEITDLP VKLRLIDTLR MVTEGKIYVE IERARLTKTL ATIKEQNGDV K EAASILQE ...String:
MADGGSERAD GRIVKMEVDY SATVDQRLPE CEKLAKEGRL QEVIETLLSL EKQTRTASDM VSTSRILVAV VKMCYEAKEW DLLNENIML LSKRRSQLKQ AVAKMVQQCC TYVEEITDLP VKLRLIDTLR MVTEGKIYVE IERARLTKTL ATIKEQNGDV K EAASILQE LQVETYGSME KKERVEFILE QMRLCLAVKD YIRTQIISKK INTKFFQEEN TEKLKLKYYN LMIQLDQHEG SY LSICKHY RAIYDTPCIQ AESDKWQQAL KSVVLYVILA PFDNEQSDLV HRISSDKKLE EIPKYKDLLK LFTTMELMRW STL VEDYGV ELRKGSSETP ATDVFSSTEE GEKRWKDLKN RVVEHNIRIM AKYYTRITMK RMAQLLDLSV DESEAFLSNL VVNK TIFAK VDRLAGVINF QRPKDPNNLL NDWSQKLNSL MSLVNKTTHL IAKEEMIHNL Q

UniProtKB: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 12

+
Macromolecule #23: 26S proteasome non-ATPase regulatory subunit 11

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 11 / type: protein_or_peptide / ID: 23 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 47.526688 KDa
SequenceString: MAAAAVVEFQ RAQSLLSTDR EASIDILHSI VKRDIQENDE EAVQVKEQSI LELGSLLAKT GQAAELGGLL KYVRPFLNSI SKAKAARLV RSLLDLFLDM EAATGQEVEL CLECIEWAKS EKRTFLRQAL EARLVSLYFD TKRYQEALHL GSQLLRELKK M DDKALLVE ...String:
MAAAAVVEFQ RAQSLLSTDR EASIDILHSI VKRDIQENDE EAVQVKEQSI LELGSLLAKT GQAAELGGLL KYVRPFLNSI SKAKAARLV RSLLDLFLDM EAATGQEVEL CLECIEWAKS EKRTFLRQAL EARLVSLYFD TKRYQEALHL GSQLLRELKK M DDKALLVE VQLLESKTYH ALSNLPKARA ALTSARTTAN AIYCPPKLQA TLDMQSGIIH AAEEKDWKTA YSYFYEAFEG YD SIDSPKA ITSLKYMLLC KIMLNTPEDV QALVSGKLAL RYAGRQTEAL KCVAQASKNR SLADFEKALT DYRAELRDDP IIS THLAKL YDNLLEQNLI RVIEPFSRVQ IEHISSLIKL SKADVERKLS QMILDKKFHG ILDQGEGVLI IFDEPPVDKT YEAA LETIQ NMSKVVDSLY NKAKKLT

UniProtKB: 26S proteasome non-ATPase regulatory subunit 11

+
Macromolecule #24: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 6

MacromoleculeName: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 6
type: protein_or_peptide / ID: 24 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 45.658398 KDa
SequenceString: MPLENLEEEG LPKNPDLRIA QLRFLLSLPE HRGDTAVREE LMAAVRENNM APYYEALCKS LDWQMDMDLL SKMKKANEEE LKRLDEELE DAEKNLGESE IRDAMMAKAE YLCQIGDKEG ALTAFRKTYD KTVALGHRLD IVFYLLRIGL FYMDNDLITR N TEKAKSLI ...String:
MPLENLEEEG LPKNPDLRIA QLRFLLSLPE HRGDTAVREE LMAAVRENNM APYYEALCKS LDWQMDMDLL SKMKKANEEE LKRLDEELE DAEKNLGESE IRDAMMAKAE YLCQIGDKEG ALTAFRKTYD KTVALGHRLD IVFYLLRIGL FYMDNDLITR N TEKAKSLI EEGGDWDRRN RLKVYQGLYC VAIRDFKQAA ELFLDTVSTF TSYELMDYKT FVTYTVYVSM IALERPDLRE KV IKGAEIL EVLHSLPAVR QYLFSLYECR YSVFFQSLAV VEQEMKKDWL FAPHYRYYVR EMRIHAYSQL LESYRSLTLG YMA EAFGVG VEFIDQELSR FIAAGRLHCK IDKVNEIVET NRPDSKNWQY QETIKKGDLL LNRVQKLSRV INM

UniProtKB: 26S proteasome non-ATPase regulatory subunit 6

+
Macromolecule #25: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 7 (Predicted)

MacromoleculeName: Proteasome (Prosome, macropain) 26S subunit, non-ATPase, 7 (Predicted)
type: protein_or_peptide / ID: 25 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 36.551824 KDa
SequenceString: MPELAVQKVV VHPLVLLSVV DHFNRIGKVG NQKRVVGVLL GSWQKKVLDV SNSFAVPFDE DDKDDSVWFL DHDYLENMYG MFKKVNARE RIVGWYHTGP KLHKNDIAIN ELMKRYCPNS VLVIIDVKPK DLGLPTEAYI SVEEVHDDGT PTSKTFEHVT S EIGAEEAE ...String:
MPELAVQKVV VHPLVLLSVV DHFNRIGKVG NQKRVVGVLL GSWQKKVLDV SNSFAVPFDE DDKDDSVWFL DHDYLENMYG MFKKVNARE RIVGWYHTGP KLHKNDIAIN ELMKRYCPNS VLVIIDVKPK DLGLPTEAYI SVEEVHDDGT PTSKTFEHVT S EIGAEEAE EVGVEHLLRD IKDTTVGTLS QRITNQVHGL KGLNSKLLDI RTYLEKVASG KLPINHHIIY QLQDVFNLLP DA SLQEFVK AFYLKTNDQM VVVYLASLIR SVVALHNLIN NKIANRDAEK KEGQEKEESK KERKDDKEKE KSDAKKEEKK EKK

UniProtKB: Proteasome 26S subunit, non-ATPase 7

+
Macromolecule #26: 26S proteasome non-ATPase regulatory subunit 13

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 13 / type: protein_or_peptide / ID: 26 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 42.867223 KDa
SequenceString: MKDVPAFLQQ SQSSGPGQAA VWHRLEELYT KKLWHQLTLQ VLDFVQDPCF AQGDGLIKLY ENFISEFEHR VNPLSLVEII LHVVRQMTD PNVALTFLEK TREKVKSSDE AVILCKTAIG ALKLNIGDLQ ATKETIEDVE EMLNNLPGVT SVHSRFYDLS S KYYQTIGN ...String:
MKDVPAFLQQ SQSSGPGQAA VWHRLEELYT KKLWHQLTLQ VLDFVQDPCF AQGDGLIKLY ENFISEFEHR VNPLSLVEII LHVVRQMTD PNVALTFLEK TREKVKSSDE AVILCKTAIG ALKLNIGDLQ ATKETIEDVE EMLNNLPGVT SVHSRFYDLS S KYYQTIGN HASYYKDALR FLGCVDIKDL PVSEQQERAF TLGLAGLLGE GVFNFGELLM HPVLESLRNT DRQWLIDTLY AF NSGDVDR FQTLKSAWGQ QPDLAANEAQ LLRKIQLLCL MEMTFTRPAN HRQLTFEEIA KSAKITVNKV ELLVMKALSV GLV RGSIDE VDKRVHMTWV QPRVLDLQQI KGMKDRLELW CTDVKSMELL VEHQAQDILT

UniProtKB: 26S proteasome non-ATPase regulatory subunit 13

+
Macromolecule #27: 26S proteasome regulatory subunit 7

MacromoleculeName: 26S proteasome regulatory subunit 7 / type: protein_or_peptide / ID: 27 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 48.640727 KDa
SequenceString: MPDYLGADQR KTKEDEKDDK PIRALDEGDI ALLKTYGQST YSRQIKQVED DIQQLLKKIN ELTGIKESDT GLAPPALWDL AADKQTLQS EQPLQVARCT KIINADSEDP KYIINVKQFA KFVVDLSDQV APTDIEEGMR VGVDRNKYQI HIPLPPKIDP T VTMMQVEE ...String:
MPDYLGADQR KTKEDEKDDK PIRALDEGDI ALLKTYGQST YSRQIKQVED DIQQLLKKIN ELTGIKESDT GLAPPALWDL AADKQTLQS EQPLQVARCT KIINADSEDP KYIINVKQFA KFVVDLSDQV APTDIEEGMR VGVDRNKYQI HIPLPPKIDP T VTMMQVEE KPDVTYSDVG GCKEQIEKLR EVVETPLLHP ERFVNLGIEP PKGVLLFGPP GTGKTLCARA VANRTDACFI PV IGSELVQ KYVGEGARMV RELFEMARTK KACLIFFDEI DAIGGARFDD GAGGDNEVQR TMLELINQLD GFDPRGNIKV LMA TNRPDT LDPALMRPGR LDRKIEFSLP DLEGRTHIFK IHARSMSVER DIRFELLARL CPNSTGAEIR SVCTEAGMFA IRAR RKIAT EKDFLEAVNK VIKSYAKFSA TPRYMTYN

UniProtKB: 26S proteasome regulatory subunit 7

+
Macromolecule #28: 26S proteasome regulatory subunit 4

MacromoleculeName: 26S proteasome regulatory subunit 4 / type: protein_or_peptide / ID: 28 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 49.260504 KDa
SequenceString: MGQSQSGGHG PGGGKKDDKD KKKKYEPPVP TRVGKKKKKT KGPDAASKLP LVTPHTQCRL KLLKLERIKD YLLMEEEFIR NQEQMKPLE EKQEEERSKV DDLRGTPMSV GTLEEIIDDN HAIVSTSVGS EHYVSILSFV DKDLLEPGCS VLLNHKVHAV I GVLMDDTD ...String:
MGQSQSGGHG PGGGKKDDKD KKKKYEPPVP TRVGKKKKKT KGPDAASKLP LVTPHTQCRL KLLKLERIKD YLLMEEEFIR NQEQMKPLE EKQEEERSKV DDLRGTPMSV GTLEEIIDDN HAIVSTSVGS EHYVSILSFV DKDLLEPGCS VLLNHKVHAV I GVLMDDTD PLVTVMKVEK APQETYADIG GLDNQIQEIK ESVELPLTHP EYYEEMGIKP PKGVILYGPP GTGKTLLAKA VA NQTSATF LRVVGSELIQ KYLGDGPKLV RELFRVAEEH APSIVFIDEI DAIGTKRYDS NSGGEREIQR TMLELLNQLD GFD SRGDVK VIMATNRIET LDPALIRPGR IDRKIEFPLP DEKTKKRIFQ IHTSRMTLAD DVTLDDLIMA KDDLSGADIK AICT EAGLM ALRERRMKVT NEDFKKSKEN VLYKKQEGTP EGLYL

UniProtKB: 26S proteasome regulatory subunit 4

+
Macromolecule #29: 26S proteasome regulatory subunit 6B

MacromoleculeName: 26S proteasome regulatory subunit 6B / type: protein_or_peptide / ID: 29 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 47.468223 KDa
SequenceString: MEEIGILVEK IQDEIPALSV SRPQTGLSFL GPEPEDLEDL YSRYKKLQQE LEFLEVQEEY IKDEQKNLKK EFLHAQEEVK RIQSIPLVI GQFLEAVDQN TAIVGSTTGS NYYVRILSTI DRELLKPNAS VALHKHSNAL VDVLPPEADS SIMMLTSDQK P DVMYADIG ...String:
MEEIGILVEK IQDEIPALSV SRPQTGLSFL GPEPEDLEDL YSRYKKLQQE LEFLEVQEEY IKDEQKNLKK EFLHAQEEVK RIQSIPLVI GQFLEAVDQN TAIVGSTTGS NYYVRILSTI DRELLKPNAS VALHKHSNAL VDVLPPEADS SIMMLTSDQK P DVMYADIG GMDIQKQEVR EAVELPLTHF ELYKQIGIDP PRGVLMYGPP GCGKTMLAKA VAHHTTAAFI RVVGSEFVQK YL GEGPRMV RDVFRLAKEN APAIIFIDEI DAIATKRFDA QTGADREVQR ILLELLNQMD GFDQNVNVKV IMATNRADTL DPA LLRPGR LDRKIEFPLP DRRQKRLIFS TITSKMNLSE EVDLEDYVAR PDKISGADIN SICQESGMLA VRENRYIVLA KDFE KAYKT VIKKDEQEHE FYK

UniProtKB: 26S proteasome regulatory subunit 6B

+
Macromolecule #30: Proteasome 26S subunit, ATPase 6

MacromoleculeName: Proteasome 26S subunit, ATPase 6 / type: protein_or_peptide / ID: 30 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 45.867027 KDa
SequenceString: MALPGIPYER RLLIMADPRD KALQDYRKKL LEHKEIDGRL KELREQLKEL TKQYEKSEND LKALQSVGQI VGEVLKQLTE EKFIVKATN GPRYVVGCRR QLDKSKLKPG TRVALDMTTL TIMRYLPREV DPLVYNMSHE DPGNVSYSEI GGLSEQIREL R EVIELPLT ...String:
MALPGIPYER RLLIMADPRD KALQDYRKKL LEHKEIDGRL KELREQLKEL TKQYEKSEND LKALQSVGQI VGEVLKQLTE EKFIVKATN GPRYVVGCRR QLDKSKLKPG TRVALDMTTL TIMRYLPREV DPLVYNMSHE DPGNVSYSEI GGLSEQIREL R EVIELPLT NPELFQRVGI IPPKGCLLYG PPGTGKTLLA RAVASQLDCN FLKVVSSSIV DKYIGESARL IREMFNYARD HQ PCIIFMD EIDAIGGRRF SEGTSADREI QRTLMELLNQ MDGFDTLHRV KMIMATNRPD TLDPALLRPG RLDRKIHIDL PNE QARLDI LKIHAGPITK HGEIDYEAIV KLSDGFNGAD LRNVCTEAGM FAIRADHDFV VQEDFMKAVR KVADSKKLES KLDY KPV

UniProtKB: Proteasome 26S subunit, ATPase 6

+
Macromolecule #31: 26S proteasome regulatory subunit 6A

MacromoleculeName: 26S proteasome regulatory subunit 6A / type: protein_or_peptide / ID: 31 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 49.611824 KDa
SequenceString: MQEMNLLPTP ESPVTRQEKM ATVWDEAEQD GIGEEVLKMS TEEIVQRTRL LDSEIKIMKS EVLRVTHELQ AMKDKIKENS EKIKVNKTL PYLVSNVIEL LDVDPNDQEE DGANIDLDSQ RKGKCAVIKT STRQTYFLPV IGLVDAEKLK PGDLVGVNKD S YLILETLP ...String:
MQEMNLLPTP ESPVTRQEKM ATVWDEAEQD GIGEEVLKMS TEEIVQRTRL LDSEIKIMKS EVLRVTHELQ AMKDKIKENS EKIKVNKTL PYLVSNVIEL LDVDPNDQEE DGANIDLDSQ RKGKCAVIKT STRQTYFLPV IGLVDAEKLK PGDLVGVNKD S YLILETLP TEYDSRVKAM EVDERPTEQY SDIGGLDKQI QELVEAIVLP MNHKEKFENL GIQPPKGVLM YGPPGTGKTL LA RACAAQT KATFLKLAGP QLVQMFIGDG AKLVRDAFAL AKEKAPSIIF IDELDAIGTK RFDSEKAGDR EVQRTMLELL NQL DGFQPN TQVKVIAATN RVDILDPALL RSGRLDRKIE FPMPNEEARA RIMQIHSRKM NVSPDVNYEE LARCTDDFNG AQCK AVCVE AGMIALRRGA TELTHEDYME GILEVQAKKK ANLQYYA

UniProtKB: Proteasome (Prosome, macropain) 26S subunit, ATPase 3

+
Macromolecule #32: 26S proteasome regulatory subunit 8

MacromoleculeName: 26S proteasome regulatory subunit 8 / type: protein_or_peptide / ID: 32 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Rattus norvegicus (Norway rat)
Molecular weightTheoretical: 45.694047 KDa
SequenceString: MALDGPEQME LEEGKAGSGL RQYYLSKIEE LQLIVNDKSQ NLRRLQAQRN ELNAKVRLLR EELQLLQEQG SYVGEVVRAM DKKKVLVKV HPEGKFVVDV DKNIDINDVT PNCRVALRND SYTLHKILPN KVDPLVSLMM VEKVPDSTYE MIGGLDKQIK E IKEVIELP ...String:
MALDGPEQME LEEGKAGSGL RQYYLSKIEE LQLIVNDKSQ NLRRLQAQRN ELNAKVRLLR EELQLLQEQG SYVGEVVRAM DKKKVLVKV HPEGKFVVDV DKNIDINDVT PNCRVALRND SYTLHKILPN KVDPLVSLMM VEKVPDSTYE MIGGLDKQIK E IKEVIELP VKHPELFEAL GIAQPKGVLL YGPPGTGKTL LARAVAHHTD CTFIRVSGSE LVQKFIGEGA RMVRELFVMA RE HAPSIIF MDEIDSIGSS RLEGGSGGDS EVQRTMLELL NQLDGFEATK NIKVIMATNR IDILDSALLR PGRIDRKIEF PPP NEEARL DILKIHSRKM NLTRGINLRK IAELMPGASG AEVKGVCTEA GMYALRERRV HVTQEDFEMA VAKVMQKDSE KNMS IKKLW K

UniProtKB: 26S proteasome regulatory subunit 8

-
Experimental details

-
Structure determination

Methodcryo EM
Processingsubtomogram averaging
Aggregation statecell

-
Sample preparation

BufferpH: 7
GridModel: Quantifoil R2/1 / Material: GOLD / Mesh: 200 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 30 sec. / Pretreatment - Atmosphere: AIR / Details: The grid was coated with C prior to use
VitrificationCryogen name: ETHANE-PROPANE / Chamber humidity: 100 % / Chamber temperature: 298 K / Instrument: FEI VITROBOT MARK IV
DetailsFIB milled rat primary neurons

-
Electron microscopy

MicroscopeFEI TITAN KRIOS
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Digitization - Dimensions - Width: 3838 pixel / Digitization - Dimensions - Height: 3710 pixel / Average exposure time: 2.4 sec. / Average electron dose: 1.8 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsC2 aperture diameter: 70.0 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Cs: 2.7 mm / Nominal defocus max: 7.0 µm / Nominal defocus min: 5.0 µm / Nominal magnification: 42000
Sample stageSpecimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

-
Image processing

Final reconstructionApplied symmetry - Point group: C1 (asymmetric) / Resolution.type: BY AUTHOR / Resolution: 12.8 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 1.4) / Number subtomograms used: 3482
ExtractionNumber tomograms: 9 / Number images used: 10367 / Reference model: average of manual picked subtomograms / Method: Template matching / Software: (Name: PyTom, TOM Toolbox, RELION (ver. 1.4))
Final 3D classificationNumber classes: 4 / Software - Name: RELION (ver. 1.4)
Final angle assignmentType: PROJECTION MATCHING / Software - Name: RELION (ver. 1.4)

-
Atomic model buiding 1

RefinementProtocol: FLEXIBLE FIT
Output model

PDB-6epe:
Substrate processing state 26S proteasome (SPS2)

+
About Yorodumi

-
News

-
Feb 9, 2022. New format data for meta-information of EMDB entries

New format data for meta-information of EMDB entries

  • Version 3 of the EMDB header file is now the official format.
  • The previous official version 1.9 will be removed from the archive.

Related info.:EMDB header

External links:wwPDB to switch to version 3 of the EMDB data model

-
Aug 12, 2020. Covid-19 info

Covid-19 info

URL: https://pdbj.org/emnavi/covid19.php

New page: Covid-19 featured information page in EM Navigator.

Related info.:Covid-19 info / Mar 5, 2020. Novel coronavirus structure data

+
Mar 5, 2020. Novel coronavirus structure data

Novel coronavirus structure data

Related info.:Yorodumi Speices / Aug 12, 2020. Covid-19 info

External links:COVID-19 featured content - PDBj / Molecule of the Month (242)：Coronavirus Proteases

+
Jan 31, 2019. EMDB accession codes are about to change! (news from PDBe EMDB page)

EMDB accession codes are about to change! (news from PDBe EMDB page)

  • The allocation of 4 digits for EMDB accession codes will soon come to an end. Whilst these codes will remain in use, new EMDB accession codes will include an additional digit and will expand incrementally as the available range of codes is exhausted. The current 4-digit format prefixed with “EMD-” (i.e. EMD-XXXX) will advance to a 5-digit format (i.e. EMD-XXXXX), and so on. It is currently estimated that the 4-digit codes will be depleted around Spring 2019, at which point the 5-digit format will come into force.
  • The EM Navigator/Yorodumi systems omit the EMD- prefix.

Related info.:Q: What is EMD? / ID/Accession-code notation in Yorodumi/EM Navigator

External links:EMDB Accession Codes are Changing Soon! / Contact to PDBj

+
Jul 12, 2017. Major update of PDB

Major update of PDB

  • wwPDB released updated PDB data conforming to the new PDBx/mmCIF dictionary.
  • This is a major update changing the version number from 4 to 5, and with Remediation, in which all the entries are updated.
  • In this update, many items about electron microscopy experimental information are reorganized (e.g. em_software).
  • Now, EM Navigator and Yorodumi are based on the updated data.

External links:wwPDB Remediation / Enriched Model Files Conforming to OneDep Data Standards Now Available in the PDB FTP Archive

-
Yorodumi

Thousand views of thousand structures

  • Yorodumi is a browser for structure data from EMDB, PDB, SASBDB, etc.
  • This page is also the successor to EM Navigator detail page, and also detail information page/front-end page for Omokage search.
  • The word "yorodu" (or yorozu) is an old Japanese word meaning "ten thousand". "mi" (miru) is to see.

Related info.:EMDB / PDB / SASBDB / Comparison of 3 databanks / Yorodumi Search / Aug 31, 2016. New EM Navigator & Yorodumi / Yorodumi Papers / Jmol/JSmol / Function and homology information / Changes in new EM Navigator and Yorodumi

Read more