[English] 日本語
Yorodumi
- EMDB-21696: SD-like state of human 26S Proteasome with non-cleavable M1-linke... -

+
Open data


ID or keywords:

Loading...

-
Basic information

Entry
Database: EMDB / ID: EMD-21696
TitleSD-like state of human 26S Proteasome with non-cleavable M1-linked hexaubiquitin and E3 ubiquitin ligase E6AP/UBE3A
Map dataSD-like state of human 26S Proteasome with non-cleavable M1-linked hexaubiquitin and E3 ubiquitin ligase E6AP/UBE3A
Sample
  • Complex: SD-like state of human 26S Proteasome with non-cleavable M1-linked hexaubiquitin and E3 ubiquitin ligase E6AP/UBE3A
    • Protein or peptide: x 32 types
  • Ligand: x 2 types
Keywords26S protease / ubiquitin / complex / subunit / HYDROLASE-PROTEIN BINDING complex
Function / homology
Function and homology information


positive regulation of inclusion body assembly / Impaired BRCA2 translocation to the nucleus / Impaired BRCA2 binding to SEM1 (DSS1) / thyrotropin-releasing hormone receptor binding / modulation by host of viral transcription / Hydrolases; Acting on peptide bonds (peptidases); Omega peptidases / proteasome accessory complex / meiosis I / purine ribonucleoside triphosphate binding / positive regulation of proteasomal protein catabolic process ...positive regulation of inclusion body assembly / Impaired BRCA2 translocation to the nucleus / Impaired BRCA2 binding to SEM1 (DSS1) / thyrotropin-releasing hormone receptor binding / modulation by host of viral transcription / Hydrolases; Acting on peptide bonds (peptidases); Omega peptidases / proteasome accessory complex / meiosis I / purine ribonucleoside triphosphate binding / positive regulation of proteasomal protein catabolic process / metal-dependent deubiquitinase activity / proteasome regulatory particle / cytosolic proteasome complex / proteasome regulatory particle, lid subcomplex / proteasome-activating activity / proteasome regulatory particle, base subcomplex / protein K63-linked deubiquitination / negative regulation of programmed cell death / regulation of endopeptidase activity / Defective homologous recombination repair (HRR) due to BRCA1 loss of function / Defective HDR through Homologous Recombination Repair (HRR) due to PALB2 loss of BRCA1 binding function / Defective HDR through Homologous Recombination Repair (HRR) due to PALB2 loss of BRCA2/RAD51/RAD51C binding function / Homologous DNA Pairing and Strand Exchange / Regulation of ornithine decarboxylase (ODC) / Resolution of D-loop Structures through Synthesis-Dependent Strand Annealing (SDSA) / proteasome core complex / Resolution of D-loop Structures through Holliday Junction Intermediates / Cross-presentation of soluble exogenous antigens (endosomes) / Somitogenesis / Impaired BRCA2 binding to RAD51 / K63-linked deubiquitinase activity / immune system process / myofibril / proteasome binding / regulation of protein catabolic process / proteasome storage granule / Presynaptic phase of homologous DNA pairing and strand exchange / blastocyst development / transcription factor binding / polyubiquitin modification-dependent protein binding / general transcription initiation factor binding / endopeptidase activator activity / NF-kappaB binding / proteasome assembly / 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 / regulation of proteasomal protein catabolic process / enzyme regulator activity / mRNA export from nucleus / : / inclusion body / SARS-CoV-1 targets host intracellular signalling and regulatory pathways / negative regulation of inflammatory response to antigenic stimulus / response to organonitrogen compound / proteasome complex / proteolysis involved in protein catabolic process / sarcomere / Regulation of activated PAK-2p34 by proteasome mediated degradation / ciliary basal body / N-glycan trimming in the ER and Calnexin/Calreticulin cycle / Autodegradation of Cdh1 by Cdh1:APC/C / APC/C:Cdc20 mediated degradation of Securin / Asymmetric localization of PCP proteins / SCF-beta-TrCP mediated degradation of Emi1 / NIK-->noncanonical NF-kB signaling / Ubiquitin-dependent degradation of Cyclin D / AUF1 (hnRNP D0) binds and destabilizes mRNA / TNFR2 non-canonical NF-kB pathway / Assembly of the pre-replicative complex / Vpu mediated degradation of CD4 / Degradation of DVL / proteasomal protein catabolic process / P-body / stem cell differentiation / Ubiquitin Mediated Degradation of Phosphorylated Cdc25A / Dectin-1 mediated noncanonical NF-kB signaling / Hh mutants are degraded by ERAD / Cdc20:Phospho-APC/C mediated degradation of Cyclin A / Degradation of AXIN / Defective CFTR causes cystic fibrosis / Degradation of GLI1 by the proteasome / lipopolysaccharide binding / Activation of NF-kappaB in B cells / Hedgehog ligand biogenesis / Negative regulation of NOTCH4 signaling / G2/M Checkpoints / GSK3B and BTRC:CUL1-mediated-degradation of NFE2L2 / double-strand break repair via homologous recombination / Autodegradation of the E3 ubiquitin ligase COP1 / Vif-mediated degradation of APOBEC3G / Hedgehog 'on' state / Regulation of RUNX3 expression and activity / Degradation of GLI2 by the proteasome / GLI3 is processed to GLI3R by the proteasome / MAPK6/MAPK4 signaling / FBXL7 down-regulates AURKA during mitotic entry and in early mitosis / response to virus
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 / 26S proteasome subunit RPN2, N-terminal domain / 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 regulatory complex, non-ATPase subcomplex, Rpn2/Psmd1 subunit / 26S Proteasome non-ATPase regulatory subunit 13 / 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 subunit 7, OB domain / 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 Rpn7, N-terminal / 26S proteasome regulatory subunit Rpn7/COP9 signalosome complex subunit 1 / 26S proteasome subunit RPN7 / 26S Proteasome non-ATPase regulatory subunit 12/COP9 signalosome complex subunit 4 / Proteasome/cyclosome repeat / Proteasome/cyclosome repeat / Ubiquitin-interacting motif. / PCI/PINT associated module / von Willebrand factor type A domain / Proteasome subunit alpha 1 / CSN8/PSMD8/EIF3K / CSN8/PSMD8/EIF3K family / HEAT repeats / Rpn11/EIF3F, C-terminal / Maintenance of mitochondrial structure and function / Proteasomal ATPase OB C-terminal domain / Proteasomal ATPase OB C-terminal domain / 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 / Proteasome alpha-type subunit / Proteasome alpha-type subunit profile. / von Willebrand factor (vWF) type A domain / Proteasome B-type subunit / Proteasome beta-type subunit profile. / VWFA domain 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 / Winged helix DNA-binding domain superfamily / Winged helix-like DNA-binding domain superfamily / ATPases associated with a variety of cellular activities / AAA+ ATPase domain / Nucleic acid-binding, OB-fold / P-loop containing nucleoside triphosphate hydrolase
Similarity search - Domain/homology
26S proteasome non-ATPase regulatory subunit 11 / 26S proteasome non-ATPase regulatory subunit 12 / 26S proteasome non-ATPase regulatory subunit 14 / Proteasome subunit alpha type-7 / 26S proteasome non-ATPase regulatory subunit 3 / 26S proteasome regulatory subunit 6A / Proteasome subunit beta type-1 / Proteasome subunit alpha type-1 / Proteasome subunit alpha type-2 / Proteasome subunit alpha type-3 ...26S proteasome non-ATPase regulatory subunit 11 / 26S proteasome non-ATPase regulatory subunit 12 / 26S proteasome non-ATPase regulatory subunit 14 / Proteasome subunit alpha type-7 / 26S proteasome non-ATPase regulatory subunit 3 / 26S proteasome regulatory subunit 6A / Proteasome subunit beta type-1 / Proteasome subunit alpha type-1 / Proteasome subunit alpha type-2 / Proteasome subunit alpha type-3 / Proteasome subunit alpha type-4 / Proteasome subunit alpha type-5 / Proteasome subunit beta type-4 / Proteasome subunit beta type-6 / Proteasome subunit beta type-5 / 26S proteasome regulatory subunit 7 / 26S proteasome regulatory subunit 6B / 26S proteasome non-ATPase regulatory subunit 8 / Proteasome subunit beta type-3 / Proteasome subunit beta type-2 / 26S proteasome non-ATPase regulatory subunit 7 / 26S proteasome non-ATPase regulatory subunit 4 / 26S proteasome complex subunit SEM1 / Proteasome subunit alpha type-6 / 26S proteasome regulatory subunit 4 / 26S proteasome regulatory subunit 8 / 26S proteasome regulatory subunit 10B / 26S proteasome non-ATPase regulatory subunit 2 / 26S proteasome non-ATPase regulatory subunit 6 / Proteasome subunit beta type-7 / 26S proteasome non-ATPase regulatory subunit 1 / 26S proteasome non-ATPase regulatory subunit 13
Similarity search - Component
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 5.7 Å
AuthorsChen X / Walters KJ
Funding support United States, 3 items
OrganizationGrant numberCountry
National Institutes of Health/National Cancer Institute (NIH/NCI)1 ZIA BC011490 United States
National Institutes of Health/National Cancer Institute (NIH/NCI)CCR FLEX program United States
National Science Foundation (NSF, United States)1531991 United States
CitationJournal: Structure / Year: 2020
Title: Cryo-EM Reveals Unanchored M1-Ubiquitin Chain Binding at hRpn11 of the 26S Proteasome.
Authors: Xiang Chen / Zachary Dorris / Dan Shi / Rick K Huang / Htet Khant / Tara Fox / Natalia de Val / Dewight Williams / Ping Zhang / Kylie J Walters /
Abstract: The 26S proteasome is specialized for regulated protein degradation and formed by a dynamic regulatory particle (RP) that caps a hollow cylindrical core particle (CP) where substrates are proteolyzed. ...The 26S proteasome is specialized for regulated protein degradation and formed by a dynamic regulatory particle (RP) that caps a hollow cylindrical core particle (CP) where substrates are proteolyzed. Its diverse substrates unify as proteasome targets by ubiquitination. We used cryogenic electron microscopy (cryo-EM) to study how human 26S proteasome interacts with M1-linked hexaubiquitin (M1-Ub) unanchored to a substrate and E3 ubiquitin ligase E6AP/UBE3A. Proteasome structures are available with model substrates extending through the RP ATPase ring and substrate-conjugated K63-linked ubiquitin chains present at inhibited deubiquitinating enzyme hRpn11 and the nearby ATPase hRpt4/hRpt5 coiled coil. In this study, we find M1-Ub at the hRpn11 site despite the absence of conjugated substrate, indicating that ubiquitin binding at this location does not require substrate interaction with the RP. Moreover, unanchored M1-Ub binds to this hRpn11 site of the proteasome with the CP gating residues in both the closed and opened conformational states.
History
DepositionApr 14, 2020-
Header (metadata) releaseAug 5, 2020-
Map releaseAug 5, 2020-
UpdateMar 6, 2024-
Current statusMar 6, 2024Processing site: RCSB / Status: Released

-
Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.004
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by cylindrical radius
  • Surface level: 0.004
  • Imaged by UCSF Chimera
  • Download
  • Surface view with fitted model
  • Atomic models: PDB-6wjn
  • Surface level: 0.006
  • Imaged by UCSF Chimera
  • Download
  • Simplified surface model + fitted atomic model
  • Atomic modelsPDB-6wjn
  • Imaged by Jmol
  • Download
Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_21696.png

Downloads & links

-
Map

FileDownload / File: emd_21696.map.gz / Format: CCP4 / Size: 347.6 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
AnnotationSD-like state of human 26S Proteasome with non-cleavable M1-linked hexaubiquitin and E3 ubiquitin ligase E6AP/UBE3A
Voxel sizeX=Y=Z: 1.365 Å
Density
Contour LevelBy AUTHOR: 0.004 / Movie #1: 0.004
Minimum - Maximum-0.017954675 - 0.048693825
Average (Standard dev.)0.00009383185 (±0.001229972)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions450450450
Spacing450450450
CellA=B=C: 614.25 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.3651.3651.365
M x/y/z450450450
origin x/y/z0.0000.0000.000
length x/y/z614.250614.250614.250
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS450450450
D min/max/mean-0.0180.0490.000

-
Supplemental data

-
Sample components

+
Entire : SD-like state of human 26S Proteasome with non-cleavable M1-linke...

EntireName: SD-like state of human 26S Proteasome with non-cleavable M1-linked hexaubiquitin and E3 ubiquitin ligase E6AP/UBE3A
Components
  • Complex: SD-like state of human 26S Proteasome with non-cleavable M1-linked hexaubiquitin and E3 ubiquitin ligase E6AP/UBE3A
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 1
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 3
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 12
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 11
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 6
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 7
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 13
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 4
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 14
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 8
    • Protein or peptide: 26S proteasome complex subunit SEM1Proteasome
    • 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-3PSMB3
    • Protein or peptide: Proteasome subunit beta type-2PSMB2
    • Protein or peptide: Proteasome subunit beta type-5PSMB5
    • Protein or peptide: Proteasome subunit beta type-1PSMB1
    • Protein or peptide: Proteasome subunit beta type-4PSMB4
    • Protein or peptide: 26S proteasome regulatory subunit 7
    • Protein or peptide: 26S proteasome regulatory subunit 4
    • Protein or peptide: 26S proteasome regulatory subunit 8
    • Protein or peptide: 26S proteasome regulatory subunit 6B
    • Protein or peptide: 26S proteasome regulatory subunit 10B
    • Protein or peptide: 26S proteasome regulatory subunit 6A
    • Protein or peptide: 26S proteasome non-ATPase regulatory subunit 2
  • Ligand: ZINC ION
  • Ligand: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER

+
Supramolecule #1: SD-like state of human 26S Proteasome with non-cleavable M1-linke...

SupramoleculeName: SD-like state of human 26S Proteasome with non-cleavable M1-linked hexaubiquitin and E3 ubiquitin ligase E6AP/UBE3A
type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#32
Source (natural)Organism: Homo sapiens (human)

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

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 1 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 101.26318 KDa
SequenceString: GIISLLDEDE PQLKEFALHK LNAVVNDFWA EISESVDKIE VLYEDEGFRS RQFAALVASK VFYHLGAFEE SLNYALGAGD LFNVNDNSE YVETIIAKCI DHYTKQCVEN ADLPEGEKKP IDQRLEGIVN KMFQRCLDDH KYKQAIGIAL ETRRLDVFEK T ILESNDVP ...String:
GIISLLDEDE PQLKEFALHK LNAVVNDFWA EISESVDKIE VLYEDEGFRS RQFAALVASK VFYHLGAFEE SLNYALGAGD LFNVNDNSE YVETIIAKCI DHYTKQCVEN ADLPEGEKKP IDQRLEGIVN KMFQRCLDDH KYKQAIGIAL ETRRLDVFEK T ILESNDVP GMLAYSLKLC MSLMQNKQFR NKVLRVLVKI YMNLEKPDFI NVCQCLIFLD DPQAVSDILE KLVKEDNLLM AY QICFDLY ESASQQFLSS VIQNLRTVGT PIASVPGSTN TGTVPGSEKD SDSMETEEKT SSAFVGKTPE ASPEPKDQTL KMI KILSGE MAIELHLQFL IRNNNTDLMI LKNTKDAVRN SVCHTATVIA NSFMHCGTTS DQFLRDNLEW LARATNWAKF TATA SLGVI HKGHEKEALQ LMATYLPKDT SPGSAYQEGG GLYALGLIHA NHGGDIIDYL LNQLKNASND IVRHGGSLGL GLAAM GTAR QDVYDLLKTN LYQDDAVTGE AAGLALGLVM LGSKNAQAIE DMVGYAQETQ HEKILRGLAV GIALVMYGRM EEADAL IES LCRDKDPILR RSGMYTVAMA YCGSGNNKAI RRLLHVAVSD VNDDVRRAAV ESLGFILFRT PEQCPSVVSL LSESYNP HV RYGAAMALGI CCAGTGNKEA INLLEPMTND PVNYVRQGAL IASALIMIQQ TEITCPKVNQ FRQLYSKVIN DKHDDVMA K FGAILAQGIL DAGGHNVTIS LQSRTGHTHM PSVVGVLVFT QFWFWFPLSH FLSLAYTPTC VIGLNKDLKM PKVQYKSNC KPSTFAYPAP LEVPKEKEKE KVSTAVLSIT AKAKKKEKEK EKKEEEKMEV DEAEKKEEKE KKKEPEPNFQ LLDNPARVMP AQLKVLTMP ETCRYQPFKP LSIGGIIILK DT

UniProtKB: 26S proteasome non-ATPase regulatory subunit 1

+
Macromolecule #2: 26S proteasome non-ATPase regulatory subunit 3

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 3 / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 54.755656 KDa
SequenceString: PPGGGEQEPP PPPAPQDVEM KEEAATGGGS TGEADGKTAA AAAEHSQREL DTVTLEDIKE HVKQLEKAVS GKEPRFVLRA LRMLPSTSR RLNHYVLYKA VQGFFTSNNA TRDFLLPFLE EPMDTEADLQ FRPRTGKAAS TPLLPEVEAY LQLLVVIFMM N SKRYKEAQ ...String:
PPGGGEQEPP PPPAPQDVEM KEEAATGGGS TGEADGKTAA AAAEHSQREL DTVTLEDIKE HVKQLEKAVS GKEPRFVLRA LRMLPSTSR RLNHYVLYKA VQGFFTSNNA TRDFLLPFLE EPMDTEADLQ FRPRTGKAAS TPLLPEVEAY LQLLVVIFMM N SKRYKEAQ KISDDLMQKI STQNRRALDL VAAKCYYYHA RVYEFLDKLD VVRSFLHARL RTATLRHDAD GQATLLNLLL RN YLHYSLY DQAEKLVSKS VFPEQANNNE WARYLYYTGR IKAIQLEYSE ARRTMTNALR KAPQHTAVGF KQTVHKLLIV VEL LLGEIP DRLQFRQPSL KRSLMPYFLL TQAVRTGNLA KFNQVLDQFG EKFQADGTYT LIIRLRHNVI KTGVRMISLS YSRI SLADI AQKLQLDSPE DAEFIVAKAI RDGVIEASIN HEKGYVQSKE MIDIYSTREP QLAFHQRISF CLDIHNMSVK AMRFP

UniProtKB: 26S proteasome non-ATPase regulatory subunit 3

+
Macromolecule #3: 26S proteasome non-ATPase regulatory subunit 12

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 12 / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 52.979359 KDa
SequenceString: MADGGSERAD GRIVKMEVDY SATVDQRLPE CAKLAKEGRL QEVIETLLSL EKQTRTASDM VSTSRILVAV VKMCYEAKEW DLLNENIML LSKRRSQLKQ AVAKMVQQCC TYVEEITDLP IKLRLIDTLR MVTEGKIYVE IERARLTKTL ATIKEQNGDV K EAASILQE ...String:
MADGGSERAD GRIVKMEVDY SATVDQRLPE CAKLAKEGRL QEVIETLLSL EKQTRTASDM VSTSRILVAV VKMCYEAKEW DLLNENIML LSKRRSQLKQ AVAKMVQQCC TYVEEITDLP IKLRLIDTLR MVTEGKIYVE IERARLTKTL ATIKEQNGDV K EAASILQE LQVETYGSME KKERVEFILE QMRLCLAVKD YIRTQIISKK INTKFFQEEN TEKLKLKYYN LMIQLDQHEG SY LSICKHY RAIYDTPCIQ AESEKWQQAL KSVVLYVILA PFDNEQSDLV HRISGDKKLE EIPKYKDLLK LFTTMELMRW STL VEDYGM ELRKGSLESP ATDVFGSTEE GEKRWKDLKN RVVEHNIRIM AKYYTRITMK RMAQLLDLSV DESEAFLSNL VVNK TIFAK VDRLAGIINF QRPKDPNNLL NDWSQKLNSL MSLVNKTTHL IAKEEMIHNL Q

UniProtKB: 26S proteasome non-ATPase regulatory subunit 12

+
Macromolecule #4: 26S proteasome non-ATPase regulatory subunit 11

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 11 / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 42.868555 KDa
SequenceString: VQVKEQSILE LGSLLAKTGQ AAELGGLLKY VRPFLNSISK AKAARLVRSL LDLFLDMEAA TGQEVELCLE CIEWAKSEKR TFLRQALEA RLVSLYFDTK RYQEALHLGS QLLRELKKMD DKALLVEVQL LESKTYHALS NLPKARAALT SARTTANAIY C PPKLQATL ...String:
VQVKEQSILE LGSLLAKTGQ AAELGGLLKY VRPFLNSISK AKAARLVRSL LDLFLDMEAA TGQEVELCLE CIEWAKSEKR TFLRQALEA RLVSLYFDTK RYQEALHLGS QLLRELKKMD DKALLVEVQL LESKTYHALS NLPKARAALT SARTTANAIY C PPKLQATL DMQSGIIHAA EEKDWKTAYS YFYEAFEGYD SIDSPKAITS LKYMLLCKIM LNTPEDVQAL VSGKLALRYA GR QTEALKC VAQASKNRSL ADFEKALTDY RAELRDDPII STHLAKLYDN LLEQNLIRVI EPFSRVQIEH ISSLIKLSKA DVE RKLSQM ILDKKFHGIL DQGEGVLIIF DEPPVDKTYE AALETIQNMS KVVDSLYNKA KKLT

UniProtKB: 26S proteasome non-ATPase regulatory subunit 11

+
Macromolecule #5: 26S proteasome non-ATPase regulatory subunit 6

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 6 / type: protein_or_peptide / ID: 5 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 44.336906 KDa
SequenceString: PKNPDLRIAQ LRFLLSLPEH RGDAAVRDEL MAAVRDNNMA PYYEALCKSL DWQIDVDLLN KMKKANEDEL KRLDEELEDA EKNLGESEI RDAMMAKAEY LCRIGDKEGA LTAFRKTYDK TVALGHRLDI VFYLLRIGLF YMDNDLITRN TEKAKSLIEE G GDWDRRNR ...String:
PKNPDLRIAQ LRFLLSLPEH RGDAAVRDEL MAAVRDNNMA PYYEALCKSL DWQIDVDLLN KMKKANEDEL KRLDEELEDA EKNLGESEI RDAMMAKAEY LCRIGDKEGA LTAFRKTYDK TVALGHRLDI VFYLLRIGLF YMDNDLITRN TEKAKSLIEE G GDWDRRNR LKVYQGLYCV AIRDFKQAAE LFLDTVSTFT SYELMDYKTF VTYTVYVSMI ALERPDLREK VIKGAEILEV LH SLPAVRQ YLFSLYECRY SVFFQSLAVV EQEMKKDWLF APHYRYYVRE MRIHAYSQLL ESYRSLTLGY MAEAFGVGVE FID QELSRF IAAGRLHCKI DKVNEIVETN RPDSKNWQYQ ETIKKGDLLL NRVQKLSRVI NM

UniProtKB: 26S proteasome non-ATPase regulatory subunit 6

+
Macromolecule #6: 26S proteasome non-ATPase regulatory subunit 7

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 7 / type: protein_or_peptide / ID: 6 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 32.382094 KDa
SequenceString: AVQKVVVHPL VLLSVVDHFN RIGKVGNQKR VVGVLLGSWQ KKVLDVSNSF AVPFDEDDKD DSVWFLDHDY LENMYGMFKK VNARERIVG WYHTGPKLHK NDIAINELMK RYCPNSVLVI IDVKPKDLGL PTEAYISVEE VHDDGTPTSK TFEHVTSEIG A EEAEEVGV ...String:
AVQKVVVHPL VLLSVVDHFN RIGKVGNQKR VVGVLLGSWQ KKVLDVSNSF AVPFDEDDKD DSVWFLDHDY LENMYGMFKK VNARERIVG WYHTGPKLHK NDIAINELMK RYCPNSVLVI IDVKPKDLGL PTEAYISVEE VHDDGTPTSK TFEHVTSEIG A EEAEEVGV EHLLRDIKDT TVGTLSQRIT NQVHGLKGLN SKLLDIRSYL EKVATGKLPI NHQIIYQLQD VFNLLPDVSL QE FVKAFYL KTNDQMVVVY LASLIRSVVA LHNLINNKIA NRDAEKKEG

UniProtKB: 26S proteasome non-ATPase regulatory subunit 7

+
Macromolecule #7: 26S proteasome non-ATPase regulatory subunit 13

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 13 / type: protein_or_peptide / ID: 7 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 42.619898 KDa
SequenceString: VPGFLQQSQN SGPGQPAVWH RLEELYTKKL WHQLTLQVLD FVQDPCFAQG DGLIKLYENF ISEFEHRVNP LSLVEIILHV VRQMTDPNV ALTFLEKTRE KVKSSDEAVI LCKTAIGALK LNIGDLQVTK ETIEDVEEML NNLPGVTSVH SRFYDLSSKY Y QTIGNHAS ...String:
VPGFLQQSQN SGPGQPAVWH RLEELYTKKL WHQLTLQVLD FVQDPCFAQG DGLIKLYENF ISEFEHRVNP LSLVEIILHV VRQMTDPNV ALTFLEKTRE KVKSSDEAVI LCKTAIGALK LNIGDLQVTK ETIEDVEEML NNLPGVTSVH SRFYDLSSKY Y QTIGNHAS YYKDALRFLG CVDIKDLPVS EQQERAFTLG LAGLLGEGVF NFGELLMHPV LESLRNTDRQ WLIDTLYAFN SG NVERFQT LKTAWGQQPD LAANEAQLLR KIQLLCLMEM TFTRPANHRQ LTFEEIAKSA KITVNEVELL VMKALSVGLV KGS IDEVDK RVHMTWVQPR VLDLQQIKGM KDRLEFWCTD VKSMEMLVEH QAHDILT

UniProtKB: 26S proteasome non-ATPase regulatory subunit 13

+
Macromolecule #8: 26S proteasome non-ATPase regulatory subunit 4

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 4 / type: protein_or_peptide / ID: 8 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 20.866023 KDa
SequenceString:
MVLESTMVCV DNSEYMRNGD FLPTRLQAQQ DAVNIVCHSK TRSNPENNVG LITLANDCEV LTTLTPDTGR ILSKLHTVQP KGKITFCTG IRVAHLALKH RQGKNHKMRI IAFVGSPVED NEKDLVKLAK RLKKEKVNVD IINFGEEEVN TEKLTAFVNT L NGKDGTGS HLVTVPPGPS LADALISSPI LAG

UniProtKB: 26S proteasome non-ATPase regulatory subunit 4

+
Macromolecule #9: 26S proteasome non-ATPase regulatory subunit 14

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 14 / type: protein_or_peptide / ID: 9 / Number of copies: 1 / Enantiomer: LEVO
EC number: Hydrolases; Acting on peptide bonds (peptidases); Omega peptidases
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 32.329355 KDa
SequenceString: AVDTAEQVYI SSLALLKMLK HGRAGVPMEV MGLMLGEFVD DYTVRVIDVF AMPQSGTGVS VEAVDPVFQA KMLDMLKQTG RPEMVVGWY HSHPGFGCWL SGVDINTQQS FEALSERAVA VVVDPIQSVK GKVVIDAFRL INANMMVLGH EPRQTTSNLG H LNKPSIQA ...String:
AVDTAEQVYI SSLALLKMLK HGRAGVPMEV MGLMLGEFVD DYTVRVIDVF AMPQSGTGVS VEAVDPVFQA KMLDMLKQTG RPEMVVGWY HSHPGFGCWL SGVDINTQQS FEALSERAVA VVVDPIQSVK GKVVIDAFRL INANMMVLGH EPRQTTSNLG H LNKPSIQA LIHGLNRHYY SITINYRKNE LEQKMLLNLH KKSWMEGLTL QDYSEHCKHN ESVVKEMLEL AKNYNKAVEE ED KMTPEQL AIKNVGKQDP KRHLEEHVDV LMTSNIVQCL AAMLDTVVFK

UniProtKB: 26S proteasome non-ATPase regulatory subunit 14

+
Macromolecule #10: 26S proteasome non-ATPase regulatory subunit 8

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 8 / type: protein_or_peptide / ID: 10 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 30.039699 KDa
SequenceString: MYEQLKGEWN RKSPNLSKCG EELGRLKLVL LELNFLPTTG TKLTKQQLIL ARDILEIGAQ WSILRKDIPS FERYMAQLKC YYFDYKEQL PESAYMHQLL GLNLLFLLSQ NRVAEFHTEL ERLPAKDIQT NVYIKHPVSL EQYLMEGSYN KVFLAKGNIP A ESYTFFID ...String:
MYEQLKGEWN RKSPNLSKCG EELGRLKLVL LELNFLPTTG TKLTKQQLIL ARDILEIGAQ WSILRKDIPS FERYMAQLKC YYFDYKEQL PESAYMHQLL GLNLLFLLSQ NRVAEFHTEL ERLPAKDIQT NVYIKHPVSL EQYLMEGSYN KVFLAKGNIP A ESYTFFID ILLDTIRDEI AGCIEKAYEK ILFTEATRIL FFNTPKKMTD YAKKRGWVLG PNNYYSFASQ QQKPEDTTIP ST ELAKQVI EYARQLEMIV

UniProtKB: 26S proteasome non-ATPase regulatory subunit 8

+
Macromolecule #11: 26S proteasome complex subunit SEM1

MacromoleculeName: 26S proteasome complex subunit SEM1 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 8.284611 KDa
SequenceString:
MSEKKQPVDL GLLEEDDEFE EFPAEDWAGL DEDEDAHVWE DNWDDDNVED DFSNQLRAEL EKHGYKMETS

UniProtKB: 26S proteasome complex subunit SEM1

+
Macromolecule #12: Proteasome subunit alpha type-6

MacromoleculeName: Proteasome subunit alpha type-6 / type: protein_or_peptide / ID: 12 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 26.727658 KDa
SequenceString: SSAGFDRHIT IFSPEGRLYQ VEYAFKAINQ GGLTSVAVRG KDCAVIVTQK KVPDKLLDSS TVTHLFKITE NIGCVMTGMT ADSRSQVQR ARYEAANWKY KYGYEIPVDM LCKRIADISQ VYTQNAEMRP LGCCMILIGI DEEQGPQVYK CDPAGYYCGF K ATAAGVKQ ...String:
SSAGFDRHIT IFSPEGRLYQ VEYAFKAINQ GGLTSVAVRG KDCAVIVTQK KVPDKLLDSS TVTHLFKITE NIGCVMTGMT ADSRSQVQR ARYEAANWKY KYGYEIPVDM LCKRIADISQ VYTQNAEMRP LGCCMILIGI DEEQGPQVYK CDPAGYYCGF K ATAAGVKQ TESTSFLEKK VKKKFDWTFE QTVETAITCL STVLSIDFKP SEIEVGVVTV ENPKFRILTE AEIDAHLVAL AE

UniProtKB: Proteasome subunit alpha type-6

+
Macromolecule #13: Proteasome subunit alpha type-2

MacromoleculeName: Proteasome subunit alpha type-2 / type: protein_or_peptide / ID: 13 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 25.72526 KDa
SequenceString: ERGYSFSLTT FSPSGKLVQI EYALAAVAGG APSVGIKAAN GVVLATEKKQ KSILYDERSV HKVEPITKHI GLVYSGMGPD YRVLVHRAR KLAQQYYLVY QEPIPTAQLV QRVASVMQEY TQSGGVRPFG VSLLICGWNE GRPYLFQSDP SGAYFAWKAT A MGKNYVNG ...String:
ERGYSFSLTT FSPSGKLVQI EYALAAVAGG APSVGIKAAN GVVLATEKKQ KSILYDERSV HKVEPITKHI GLVYSGMGPD YRVLVHRAR KLAQQYYLVY QEPIPTAQLV QRVASVMQEY TQSGGVRPFG VSLLICGWNE GRPYLFQSDP SGAYFAWKAT A MGKNYVNG KTFLEKRYNE DLELEDAIHT AILTLKESFE GQMTEDNIEV GICNEAGFRR LTPTEVKDYL AAIA

UniProtKB: Proteasome subunit alpha type-2

+
Macromolecule #14: Proteasome subunit alpha type-4

MacromoleculeName: Proteasome subunit alpha type-4 / type: protein_or_peptide / ID: 14 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 28.118189 KDa
SequenceString: SRRYDSRTTI FSPEGRLYQV EYAMEAIGHA GTCLGILAND GVLLAAERRN IHKLLDEVFF SEKIYKLNED MACSVAGITS DANVLTNEL RLIAQRYLLQ YQEPIPCEQL VTALCDIKQA YTQFGGKRPF GVSLLYIGWD KHYGFQLYQS DPSGNYGGWK A TCIGNNSA ...String:
SRRYDSRTTI FSPEGRLYQV EYAMEAIGHA GTCLGILAND GVLLAAERRN IHKLLDEVFF SEKIYKLNED MACSVAGITS DANVLTNEL RLIAQRYLLQ YQEPIPCEQL VTALCDIKQA YTQFGGKRPF GVSLLYIGWD KHYGFQLYQS DPSGNYGGWK A TCIGNNSA AAVSMLKQDY KEGEMTLKSA LALAIKVLNK TMDVSKLSAE KVEIATLTRE NGKTVIRVLK QKEVEQLIKK HE EEEAKAE REK

UniProtKB: Proteasome subunit alpha type-4

+
Macromolecule #15: Proteasome subunit alpha type-7

MacromoleculeName: Proteasome subunit alpha type-7 / type: protein_or_peptide / ID: 15 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 27.382178 KDa
SequenceString: SYDRAITVFS PDGHLFQVEY AQEAVKKGST AVGVRGRDIV VLGVEKKSVA KLQDERTVRK ICALDDNVCM AFAGLTADAR IVINRARVE CQSHRLTVED PVTVEYITRY IASLKQRYTQ SNGRRPFGIS ALIVGFDFDG TPRLYQTDPS GTYHAWKANA I GRGAKSVR ...String:
SYDRAITVFS PDGHLFQVEY AQEAVKKGST AVGVRGRDIV VLGVEKKSVA KLQDERTVRK ICALDDNVCM AFAGLTADAR IVINRARVE CQSHRLTVED PVTVEYITRY IASLKQRYTQ SNGRRPFGIS ALIVGFDFDG TPRLYQTDPS GTYHAWKANA I GRGAKSVR EFLEKNYTDE AIETDDLTIK LVIKALLEVV QSGGKNIELA VMRRDQSLKI LNPEEIEKYV AEIEKEKEEN EK KKQ

UniProtKB: Proteasome subunit alpha type-7

+
Macromolecule #16: Proteasome subunit alpha type-5

MacromoleculeName: Proteasome subunit alpha type-5 / type: protein_or_peptide / ID: 16 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 25.569957 KDa
SequenceString: YDRGVNTFSP EGRLFQVEYA IEAIKLGSTA IGIQTSEGVC LAVEKRITSP LMEPSSIEKI VEIDAHIGCA MSGLIADAKT LIDKARVET QNHWFTYNET MTVESVTQAV SNLALQFGEE DADPGAMSRP FGVALLFGGV DEKGPQLFHM DPSGTFVQCD A RAIGSASE ...String:
YDRGVNTFSP EGRLFQVEYA IEAIKLGSTA IGIQTSEGVC LAVEKRITSP LMEPSSIEKI VEIDAHIGCA MSGLIADAKT LIDKARVET QNHWFTYNET MTVESVTQAV SNLALQFGEE DADPGAMSRP FGVALLFGGV DEKGPQLFHM DPSGTFVQCD A RAIGSASE GAQSSLQEVY HKSMTLKEAI KSSLIILKQV MEEKLNATNI ELATVQPGQN FHMFTKEELE EVIKDI

UniProtKB: Proteasome subunit alpha type-5

+
Macromolecule #17: Proteasome subunit alpha type-1

MacromoleculeName: Proteasome subunit alpha type-1 / type: protein_or_peptide / ID: 17 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 26.728428 KDa
SequenceString: NQYDNDVTVW SPQGRIHQIE YAMEAVKQGS ATVGLKSKTH AVLVALKRAQ SELAAHQKKI LHVDNHIGIS IAGLTADARL LCNFMRQEC LDSRFVFDRP LPVSRLVSLI GSKTQIPTQR YGRRPYGVGL LIAGYDDMGP HIFQTCPSAN YFDCRAMSIG A RSQSARTY ...String:
NQYDNDVTVW SPQGRIHQIE YAMEAVKQGS ATVGLKSKTH AVLVALKRAQ SELAAHQKKI LHVDNHIGIS IAGLTADARL LCNFMRQEC LDSRFVFDRP LPVSRLVSLI GSKTQIPTQR YGRRPYGVGL LIAGYDDMGP HIFQTCPSAN YFDCRAMSIG A RSQSARTY LERHMSEFME CNLNELVKHG LRALRETLPA EQDLTTKNVS IGIVGKDLEF TIYDDDDVSP FLEGLEERPQ

UniProtKB: Proteasome subunit alpha type-1

+
Macromolecule #18: Proteasome subunit alpha type-3

MacromoleculeName: Proteasome subunit alpha type-3 / type: protein_or_peptide / ID: 18 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 27.2871 KDa
SequenceString: SSIGTGYDLS ASTFSPDGRV FQVEYAMKAV ENSSTAIGIR CKDGVVFGVE KLVLSKLYEE GSNKRLFNVD RHVGMAVAGL LADARSLAD IAREEASNFR SNFGYNIPLK HLADRVAMYV HAYTLYSAVR PFGCSFMLGS YSVNDGAQLY MIDPSGVSYG Y WGCAIGKA ...String:
SSIGTGYDLS ASTFSPDGRV FQVEYAMKAV ENSSTAIGIR CKDGVVFGVE KLVLSKLYEE GSNKRLFNVD RHVGMAVAGL LADARSLAD IAREEASNFR SNFGYNIPLK HLADRVAMYV HAYTLYSAVR PFGCSFMLGS YSVNDGAQLY MIDPSGVSYG Y WGCAIGKA RQAAKTEIEK LQMKEMTCRD IVKEVAKIIY IVHDEVKDKA FELELSWVGE LTNGRHEIVP KDIREEAEKY AK ESLKE

UniProtKB: Proteasome subunit alpha type-3

+
Macromolecule #19: Proteasome subunit beta type-6

MacromoleculeName: Proteasome subunit beta type-6 / type: protein_or_peptide / ID: 19 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 20.471129 KDa
SequenceString:
TTIMAVQFDG GVVLGADSRT TTGSYIANRV TDKLTPIHDR IFCCRSGSAA DTQAVADAVT YQLGFHSIEL NEPPLVHTAA SLFKEMCYR YREDLMAGII IAGWDPQEGG QVYSVPMGGM MVRQSFAIGG SGSSYIYGYV DATYREGMTK EECLQFTANA L ALAMERDG SSGGVIRLAA IAESGVERQV LLG

UniProtKB: Proteasome subunit beta type-6

+
Macromolecule #20: Proteasome subunit beta type-7

MacromoleculeName: Proteasome subunit beta type-7 / type: protein_or_peptide / ID: 20 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.745256 KDa
SequenceString: TTIAGVVYKD GIVLGADTRA TEGMVVADKN CSKIHFISPN IYCCGAGTAA DTDMTTQLIS SNLELHSLST GRLPRVVTAN RMLKQMLFR YQGYIGAALV LGGVDVTGPH LYSIYPHGST DKLPYVTMGS GSLAAMAVFE DKFRPDMEEE EAKNLVSEAI A AGIFNDLG ...String:
TTIAGVVYKD GIVLGADTRA TEGMVVADKN CSKIHFISPN IYCCGAGTAA DTDMTTQLIS SNLELHSLST GRLPRVVTAN RMLKQMLFR YQGYIGAALV LGGVDVTGPH LYSIYPHGST DKLPYVTMGS GSLAAMAVFE DKFRPDMEEE EAKNLVSEAI A AGIFNDLG SGSNIDLCVI SKNKLDFLRP YTVPNKKGTR LGRYRCEKGT TAVLTEKITP LE

UniProtKB: Proteasome subunit beta type-7

+
Macromolecule #21: Proteasome subunit beta type-3

MacromoleculeName: Proteasome subunit beta type-3 / type: protein_or_peptide / ID: 21 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 22.841701 KDa
SequenceString: SIMSYNGGAV MAMKGKNCVA IAADRRFGIQ AQMVTTDFQK IFPMGDRLYI GLAGLATDVQ TVAQRLKFRL NLYELKEGRQ IKPYTLMSM VANLLYEKRF GPYYTEPVIA GLDPKTFKPF ICSLDLIGCP MVTDDFVVSG TCAEQMYGMC ESLWEPNMDP D HLFETISQ ...String:
SIMSYNGGAV MAMKGKNCVA IAADRRFGIQ AQMVTTDFQK IFPMGDRLYI GLAGLATDVQ TVAQRLKFRL NLYELKEGRQ IKPYTLMSM VANLLYEKRF GPYYTEPVIA GLDPKTFKPF ICSLDLIGCP MVTDDFVVSG TCAEQMYGMC ESLWEPNMDP D HLFETISQ AMLNAVDRDA VSGMGVIVHI IEKDKITTRT LKARMD

UniProtKB: Proteasome subunit beta type-3

+
Macromolecule #22: Proteasome subunit beta type-2

MacromoleculeName: Proteasome subunit beta type-2 / type: protein_or_peptide / ID: 22 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 22.720146 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 SVRIIDKNGI HDLDNISFPK Q

UniProtKB: Proteasome subunit beta type-2

+
Macromolecule #23: Proteasome subunit beta type-5

MacromoleculeName: Proteasome subunit beta type-5 / type: protein_or_peptide / ID: 23 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 22.199072 KDa
SequenceString: TTTLAFKFRH GVIVAADSRA TAGAYIASQT VKKVIEINPY LLGTMAGGAA DCSFWERLLA RQCRIYELRN KERISVAAAS KLLANMVYQ YKGMGLSMGT MICGWDKRGP GLYYVDSEGN RISGATFSVG SGSVYAYGVM DRGYSYDLEV EQAYDLARRA I YQATYRDA ...String:
TTTLAFKFRH GVIVAADSRA TAGAYIASQT VKKVIEINPY LLGTMAGGAA DCSFWERLLA RQCRIYELRN KERISVAAAS KLLANMVYQ YKGMGLSMGT MICGWDKRGP GLYYVDSEGN RISGATFSVG SGSVYAYGVM DRGYSYDLEV EQAYDLARRA I YQATYRDA YSGGAVNLYH VREDGWIRVS SDNVADLHEK YSG

UniProtKB: Proteasome subunit beta type-5

+
Macromolecule #24: Proteasome subunit beta type-1

MacromoleculeName: Proteasome subunit beta type-1 / type: protein_or_peptide / ID: 24 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.578986 KDa
SequenceString: RFSPYVFNGG TILAIAGEDF AIVASDTRLS EGFSIHTRDS PKCYKLTDKT VIGCSGFHGD CLTLTKIIEA RLKMYKHSNN KAMTTGAIA AMLSTILYSR RFFPYYVYNI IGGLDEEGKG AVYSFDPVGS YQRDSFKAGG SASAMLQPLL DNQVGFKNMQ N VEHVPLSL ...String:
RFSPYVFNGG TILAIAGEDF AIVASDTRLS EGFSIHTRDS PKCYKLTDKT VIGCSGFHGD CLTLTKIIEA RLKMYKHSNN KAMTTGAIA AMLSTILYSR RFFPYYVYNI IGGLDEEGKG AVYSFDPVGS YQRDSFKAGG SASAMLQPLL DNQVGFKNMQ N VEHVPLSL DRAMRLVKDV FISAAERDVY TGDALRICIV TKEGIREETV SLRKD

UniProtKB: Proteasome subunit beta type-1

+
Macromolecule #25: Proteasome subunit beta type-4

MacromoleculeName: Proteasome subunit beta type-4 / type: protein_or_peptide / ID: 25 / Number of copies: 2 / Enantiomer: LEVO / EC number: proteasome endopeptidase complex
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 23.994324 KDa
SequenceString: TQNPMVTGTS VLGVKFEGGV VIAADMLGSY GSLARFRNIS RIMRVNNSTM LGASGDYADF QYLKQVLGQM VIDEELLGDG HSYSPRAIH SWLTRAMYSR RSKMNPLWNT MVIGGYADGE SFLGYVDMLG VAYEAPSLAT GYGAYLAQPL LREVLEKQPV L SQTEARDL ...String:
TQNPMVTGTS VLGVKFEGGV VIAADMLGSY GSLARFRNIS RIMRVNNSTM LGASGDYADF QYLKQVLGQM VIDEELLGDG HSYSPRAIH SWLTRAMYSR RSKMNPLWNT MVIGGYADGE SFLGYVDMLG VAYEAPSLAT GYGAYLAQPL LREVLEKQPV L SQTEARDL VERCMRVLYY RDARSYNRFQ IATVTEKGVE IEGPLSTETN WDIAHMI

UniProtKB: Proteasome subunit beta type-4

+
Macromolecule #26: 26S proteasome regulatory subunit 7

MacromoleculeName: 26S proteasome regulatory subunit 7 / type: protein_or_peptide / ID: 26 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 44.823457 KDa
SequenceString: TYGQSTYSRQ IKQVEDDIQQ LLKKINELTG IKESDTGLAP PALWDLAADK QTLQSEQPLQ VARCTKIINA DSEDPKYIIN VKQFAKFVV DLSDQVAPTD IEEGMRVGVD RNKYQIHIPL PPKIDPTVTM MQVEEKPDVT YSDVGGCKEQ IEKLREVVET P LLHPERFV ...String:
TYGQSTYSRQ IKQVEDDIQQ LLKKINELTG IKESDTGLAP PALWDLAADK QTLQSEQPLQ VARCTKIINA DSEDPKYIIN VKQFAKFVV DLSDQVAPTD IEEGMRVGVD RNKYQIHIPL PPKIDPTVTM MQVEEKPDVT YSDVGGCKEQ IEKLREVVET P LLHPERFV NLGIEPPKGV LLFGPPGTGK TLCARAVANR TDACFIRVIG SELVQKYVGE GARMVRELFE MARTKKACLI FF DEIDAIG GARFDDGAGG DNEVQRTMLE LINQLDGFDP RGNIKVLMAT NRPDTLDPAL MRPGRLDRKI EFSLPDLEGR THI FKIHAR SMSVERDIRF ELLARLCPNS TGAEIRSVCT EAGMFAIRAR RKIATEKDFL EAVNKVIKSY AKFSATPRYM TYN

UniProtKB: 26S proteasome regulatory subunit 7

+
Macromolecule #27: 26S proteasome regulatory subunit 4

MacromoleculeName: 26S proteasome regulatory subunit 4 / type: protein_or_peptide / ID: 27 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 43.890246 KDa
SequenceString: VTPHTQCRLK LLKLERIKDY LLMEEEFIRN QEQMKPLEEK QEEERSKVDD LRGTPMSVGT LEEIIDDNHA IVSTSVGSEH YVSILSFVD KDLLEPGCSV LLNHKVHAVI GVLMDDTDPL VTVMKVEKAP QETYADIGGL DNQIQEIKES VELPLTHPEY Y EEMGIKPP ...String:
VTPHTQCRLK LLKLERIKDY LLMEEEFIRN QEQMKPLEEK QEEERSKVDD LRGTPMSVGT LEEIIDDNHA IVSTSVGSEH YVSILSFVD KDLLEPGCSV LLNHKVHAVI GVLMDDTDPL VTVMKVEKAP QETYADIGGL DNQIQEIKES VELPLTHPEY Y EEMGIKPP KGVILYGPPG TGKTLLAKAV ANQTSATFLR VVGSELIQKY LGDGPKLVRE LFRVAEEHAP SIVFIDEIDA IG TKRYDSN SGGEREIQRT MLELLNQLDG FDSRGDVKVI MATNRIETLD PALIRPGRID RKIEFPLPDE KTKKRIFQIH TSR MTLADD VTLDDLIMAK DDLSGADIKA ICTEAGLMAL RERRMKVTNE DFKKSKENVL YKKQEGTPEG LYL

UniProtKB: 26S proteasome regulatory subunit 4

+
Macromolecule #28: 26S proteasome regulatory subunit 8

MacromoleculeName: 26S proteasome regulatory subunit 8 / type: protein_or_peptide / ID: 28 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 44.034086 KDa
SequenceString: LEEGKAGSGL RQYYLSKIEE LQLIVNDKSQ NLRRLQAQRN ELNAKVRLLR EELQLLQEQG SYVGEVVRAM DKKKVLVKVH PEGKFVVDV DKNIDINDVT PNCRVALRND SYTLHKILPN KVDPLVSLMM VEKVPDSTYE MIGGLDKQIK EIKEVIELPV K HPELFEAL ...String:
LEEGKAGSGL RQYYLSKIEE LQLIVNDKSQ NLRRLQAQRN ELNAKVRLLR EELQLLQEQG SYVGEVVRAM DKKKVLVKVH PEGKFVVDV DKNIDINDVT PNCRVALRND SYTLHKILPN KVDPLVSLMM VEKVPDSTYE MIGGLDKQIK EIKEVIELPV K HPELFEAL GIAQPKGVLL YGPPGTGKTL LARAVAHHTD CTFIRVSGSE LVQKFIGEGA RMVRELFVMA REHAPSIIFM DE IDSIGSS RLEGGSGGDS EVQRTMLELL NQLDGFEATK NIKVIMATNR IDILDSALLR PGRIDRKIEF PPPNEEARLD ILK IHSRKM NLTRGINLRK IAELMPGASG AEVKGVCTEA GMYALRERRV HVTQEDFEMA VAKVMQKDSE KNMSIK

UniProtKB: 26S proteasome regulatory subunit 8

+
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: Homo sapiens (human)
Molecular weightTheoretical: 43.303543 KDa
SequenceString: DLYSRYKKLQ QELEFLEVQE EYIKDEQKNL KKEFLHAQEE VKRIQSIPLV IGQFLEAVDQ NTAIVGSTTG SNYYVRILST IDRELLKPN ASVALHKHSN ALVDVLPPEA DSSIMMLTSD QKPDVMYADI GGMDIQKQEV REAVELPLTH FELYKQIGID P PRGVLMYG ...String:
DLYSRYKKLQ QELEFLEVQE EYIKDEQKNL KKEFLHAQEE VKRIQSIPLV IGQFLEAVDQ NTAIVGSTTG SNYYVRILST IDRELLKPN ASVALHKHSN ALVDVLPPEA DSSIMMLTSD QKPDVMYADI GGMDIQKQEV REAVELPLTH FELYKQIGID P PRGVLMYG PPGCGKTMLA KAVAHHTTAA FIRVVGSEFV QKYLGEGPRM VRDVFRLAKE NAPAIIFIDE IDAIATKRFD AQ TGADREV QRILLELLNQ MDGFDQNVNV KVIMATNRAD TLDPALLRPG RLDRKIEFPL PDRRQKRLIF STITSKMNLS EEV DLEDYV ARPDKISGAD INSICQESGM LAVRENRYIV LAKDFEKAYK TVIKKDEQEH EFYK

UniProtKB: 26S proteasome regulatory subunit 6B

+
Macromolecule #30: 26S proteasome regulatory subunit 10B

MacromoleculeName: 26S proteasome regulatory subunit 10B / type: protein_or_peptide / ID: 30 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 42.548078 KDa
SequenceString: KLLEHKEIDG RLKELREQLK ELTKQYEKSE NDLKALQSVG QIVGEVLKQL TEEKFIVKAT NGPRYVVGCR RQLDKSKLKP GTRVALDMT TLTIMRYLPR EVDPLVYNMS HEDPGNVSYS EIGGLSEQIR ELREVIELPL TNPELFQRVG IIPPKGCLLY G PPGTGKTL ...String:
KLLEHKEIDG RLKELREQLK ELTKQYEKSE NDLKALQSVG QIVGEVLKQL TEEKFIVKAT NGPRYVVGCR RQLDKSKLKP GTRVALDMT TLTIMRYLPR EVDPLVYNMS HEDPGNVSYS EIGGLSEQIR ELREVIELPL TNPELFQRVG IIPPKGCLLY G PPGTGKTL LARAVASQLD CNFLKVVSSS IVDKYIGESA RLIREMFNYA RDHQPCIIFM DEIDAIGGRR FSEGTSADRE IQ RTLMELL NQMDGFDTLH RVKMIMATNR PDTLDPALLR PGRLDRKIHI DLPNEQARLD ILKIHAGPIT KHGEIDYEAI VKL SDGFNG ADLRNVCTEA GMFAIRADHD FVVQEDFMKA VRKVADSKKL ESKLDYKPV

UniProtKB: 26S proteasome regulatory subunit 10B

+
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: Homo sapiens (human)
Molecular weightTheoretical: 44.378 KDa
SequenceString: RTRLLDSEIK IMKSEVLRVT HELQAMKDKI KENSEKIKVN KTLPYLVSNV IELLDVDPND QEEDGANIDL DSQRKGKCAV IKTSTRQTY FLPVIGLVDA EKLKPGDLVG VNKDSYLILE TLPTEYDSRV KAMEVDERPT EQYSDIGGLD KQIQELVEAI V LPMNHKEK ...String:
RTRLLDSEIK IMKSEVLRVT HELQAMKDKI KENSEKIKVN KTLPYLVSNV IELLDVDPND QEEDGANIDL DSQRKGKCAV IKTSTRQTY FLPVIGLVDA EKLKPGDLVG VNKDSYLILE TLPTEYDSRV KAMEVDERPT EQYSDIGGLD KQIQELVEAI V LPMNHKEK FENLGIQPPK GVLMYGPPGT GKTLLARACA AQTKATFLKL AGPQLVQMFI GDGAKLVRDA FALAKEKAPS II FIDELDA IGTKRFDSEK AGDREVQRTM LELLNQLDGF QPNTQVKVIA ATNRVDILDP ALLRSGRLDR KIEFPMPNEE ARA RIMQIH SRKMNVSPDV NYEELARCTD DFNGAQCKAV CVEAGMIALR RGATELTHED YMEGILEVQA KKKANLQYYA

UniProtKB: 26S proteasome regulatory subunit 6A

+
Macromolecule #32: 26S proteasome non-ATPase regulatory subunit 2

MacromoleculeName: 26S proteasome non-ATPase regulatory subunit 2 / type: protein_or_peptide / ID: 32 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 100.313625 KDa
SequenceString: MEEGGRDKAP VQPQQSPAAA PGGTDEKPSG KERRDAGDKD KEQELSEEDK QLQDELEMLV ERLGEKDTSL YRPALEELRR QIRSSTTSM TSVPKPLKFL RPHYGKLKEI YENMAPGENK RFAADIISVL AMTMSGEREC LKYRLVGSQE ELASWGHEYV R HLAGEVAK ...String:
MEEGGRDKAP VQPQQSPAAA PGGTDEKPSG KERRDAGDKD KEQELSEEDK QLQDELEMLV ERLGEKDTSL YRPALEELRR QIRSSTTSM TSVPKPLKFL RPHYGKLKEI YENMAPGENK RFAADIISVL AMTMSGEREC LKYRLVGSQE ELASWGHEYV R HLAGEVAK EWQELDDAEK VQREPLLTLV KEIVPYNMAH NAEHEACDLL MEIEQVDMLE KDIDENAYAK 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 LRKNPNYDL

UniProtKB: 26S proteasome non-ATPase regulatory subunit 2

+
Macromolecule #33: ZINC ION

MacromoleculeName: ZINC ION / type: ligand / ID: 33 / Number of copies: 1 / Formula: ZN
Molecular weightTheoretical: 65.409 Da

+
Macromolecule #34: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER

MacromoleculeName: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER / type: ligand / ID: 34 / Number of copies: 4 / Formula: AGS
Molecular weightTheoretical: 523.247 Da
Chemical component information

ChemComp-AGS:
PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER / ATP-gamma-S, energy-carrying molecule analogue*YM

-
Experimental details

-
Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

-
Sample preparation

Concentration1 mg/mL
BufferpH: 7.5
Component:
ConcentrationFormulaName
50.0 mMTris(hydroxymethyl) aminomethane
50.0 mMNaClSodium chloridesodium chloride
1.5 mMATP-gamma-SATP-gamma-S
5.0 mMMgCl2Magnesium chloride
2.0 mMDTTDithiothreitol
10.0 uMZnSO4Zinc sulphate

Details: 50 mM Tris, pH 7.5, 50 mM NaCl, 1.5 mM ATP-gamma-S, 5 mM MgCl2, 2 mM DTT, 10 uM zinc sulfate
GridModel: Quantifoil R1.2/1.3 / Material: COPPER / Mesh: 200 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 30 sec.
VitrificationCryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 291.15 K / Instrument: FEI VITROBOT MARK IV

-
Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy
Sample stageCooling holder cryogen: NITROGEN
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 36.64 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

-
Image processing

Particle selectionNumber selected: 1050369
Startup modelType of model: NONE
Initial angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 3.0.8)
Final 3D classificationSoftware - Name: RELION (ver. 3.0.8)
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: RELION (ver. 3.0.8)
Final reconstructionResolution.type: BY AUTHOR / Resolution: 5.7 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.0.8) / Number images used: 52593
FSC plot (resolution estimation)

-
Atomic model buiding 1

Initial modelPDB ID:

5vfr


Chain - Source name: PDB / Chain - Initial model type: experimental model
RefinementSpace: REAL / Protocol: RIGID BODY FIT
Output model

PDB-6wjn:
SD-like state of human 26S Proteasome with non-cleavable M1-linked hexaubiquitin and E3 ubiquitin ligase E6AP/UBE3A

+
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