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- EMDB-32056: Cryo-EM structure of Xenopus laevis nuclear pore complex cytoplas... -

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Basic information

Entry
Database: EMDB / ID: EMD-32056
TitleCryo-EM structure of Xenopus laevis nuclear pore complex cytoplasmic ring subunit
Map data
Sample
  • Complex: nuclear pore complex cytoplasmic ring
    • Protein or peptide: x 15 types
Function / homology
Function and homology information


GATOR2 complex / nephron development / nuclear pore organization / nuclear pore outer ring / nuclear pore complex assembly / attachment of mitotic spindle microtubules to kinetochore / structural constituent of nuclear pore / mitotic metaphase chromosome alignment / cellular response to nutrient levels / ribosomal small subunit export from nucleus ...GATOR2 complex / nephron development / nuclear pore organization / nuclear pore outer ring / nuclear pore complex assembly / attachment of mitotic spindle microtubules to kinetochore / structural constituent of nuclear pore / mitotic metaphase chromosome alignment / cellular response to nutrient levels / ribosomal small subunit export from nucleus / ribosomal large subunit export from nucleus / intracellular transport / mRNA transport / nuclear pore / positive regulation of TORC1 signaling / nuclear periphery / kinetochore / protein transport / nuclear membrane / lysosomal membrane / cell division / structural molecule activity / metal ion binding / nucleus / cytosol
Similarity search - Function
Nucleoporin Nup88 / Nuclear pore component / Nucleoporin NUP88/NUP82 / Nuclear pore complex protein NUP98-NUP96 / Nucleoporin Nup37 / Nucleoporin, NSP1-like, C-terminal / Nucleoporin NSP1/NUP62 / Nsp1-like C-terminal region / Nucleoporin Nup85-like / Nucleoporin Nup120/160 ...Nucleoporin Nup88 / Nuclear pore component / Nucleoporin NUP88/NUP82 / Nuclear pore complex protein NUP98-NUP96 / Nucleoporin Nup37 / Nucleoporin, NSP1-like, C-terminal / Nucleoporin NSP1/NUP62 / Nsp1-like C-terminal region / Nucleoporin Nup85-like / Nucleoporin Nup120/160 / Nup85 Nucleoporin / Nuclear pore protein 84/107 / Nuclear pore protein 84 / 107 / Nuclear pore complex protein Nup133-like / Nup358/RanBP2 E3 ligase domain / Nup358/RanBP2 E3 ligase domain / Nucleoporin Nup186/Nup192/Nup205 / Nuclear pore complex protein / Nuclear pore complex scaffold, nucleoporins 186/192/205 / Nucleoporin interacting component Nup93/Nic96 / Nup93/Nic96 / Nucleoporin, Nup133/Nup155-like, C-terminal / Nucleoporin FG repeat / Nucleoporin FG repeat region / Non-repetitive/WGA-negative nucleoporin C-terminal / Nucleoporin, Nup133/Nup155-like, N-terminal / Nup133 N terminal like / Sec13/Seh1 family / Nuclear pore complex protein NUP96, C-terminal domain / Nuclear protein 96 / Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domain / Nuclear pore complex protein Nup98-Nup96-like, autopeptidase S59 domain superfamily / Nucleoporin autopeptidase / NUP C-terminal domain profile. / Nucleoporin peptidase S59-like / Ran binding protein RanBP1-like / Ran binding domain / RanBP1 domain / Ran binding domain type 1 profile. / Ran-binding domain / Zinc finger domain / Zn-finger in Ran binding protein and others / Zinc finger RanBP2 type profile. / Zinc finger RanBP2-type signature. / Zinc finger, RanBP2-type superfamily / Zinc finger, RanBP2-type / TPR repeat profile. / Tetratricopeptide repeats / Tetratricopeptide repeat / Tetratricopeptide-like helical domain superfamily / PH-like domain superfamily / G-protein beta WD-40 repeat / WD40 repeat, conserved site / Trp-Asp (WD) repeats signature. / WD domain, G-beta repeat / WD40 repeats / WD40 repeat / Trp-Asp (WD) repeats profile. / Trp-Asp (WD) repeats circular profile. / WD40-repeat-containing domain superfamily / WD40/YVTN repeat-like-containing domain superfamily
Similarity search - Domain/homology
Nuclear pore complex protein Nup98-Nup96 / Nuclear pore complex protein Nup133 / RANBP2-like and GRIP domain-containing protein 3 isoform X2 / Nucleoporin 160kDa / Nuclear pore complex protein / MGC154553 protein / Nucleoporin SEH1-A / Nup88A protein / MGC83295 protein / MGC83926 protein ...Nuclear pore complex protein Nup98-Nup96 / Nuclear pore complex protein Nup133 / RANBP2-like and GRIP domain-containing protein 3 isoform X2 / Nucleoporin 160kDa / Nuclear pore complex protein / MGC154553 protein / Nucleoporin SEH1-A / Nup88A protein / MGC83295 protein / MGC83926 protein / Nuclear pore complex protein Nup85 / Nuclear pore complex protein Nup93 / Protein SEC13 homolog / IL4I1 protein / Nucleoporin CAN
Similarity search - Component
Biological speciesXenopus laevis (African clawed frog) / African clawed frog (African clawed frog)
Methodsingle particle reconstruction / cryo EM / Resolution: 8.7 Å
AuthorsTai L / Zhu Y / Sun F
Funding support1 items
OrganizationGrant numberCountry
Not funded
CitationJournal: Protein Cell / Year: 2022
Title: 8 Å structure of the outer rings of the Xenopus laevis nuclear pore complex obtained by cryo-EM and AI.
Authors: Linhua Tai / Yun Zhu / He Ren / Xiaojun Huang / Chuanmao Zhang / Fei Sun /
Abstract: The nuclear pore complex (NPC), one of the largest protein complexes in eukaryotes, serves as a physical gate to regulate nucleocytoplasmic transport. Here, we determined the 8 Å resolution cryo- ...The nuclear pore complex (NPC), one of the largest protein complexes in eukaryotes, serves as a physical gate to regulate nucleocytoplasmic transport. Here, we determined the 8 Å resolution cryo-electron microscopic (cryo-EM) structure of the outer rings containing nuclear ring (NR) and cytoplasmic ring (CR) from the Xenopus laevis NPC, with local resolutions reaching 4.9 Å. With the aid of AlphaFold2, we managed to build a pseudoatomic model of the outer rings, including the Y complexes and flanking components. In this most comprehensive and accurate model of outer rings to date, the almost complete Y complex structure exhibits much tighter interaction in the hub region. In addition to two copies of Y complexes, each asymmetric subunit in CR contains five copies of Nup358, two copies of the Nup214 complex, two copies of Nup205 and one copy of newly identified Nup93, while that in NR contains one copy of Nup205, one copy of ELYS and one copy of Nup93. These in-depth structural features represent a great advance in understanding the assembly of NPCs.
History
DepositionOct 14, 2021-
Header (metadata) releaseFeb 2, 2022-
Map releaseFeb 2, 2022-
UpdateJul 13, 2022-
Current statusJul 13, 2022Processing site: PDBj / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 0.505
  • Imaged by UCSF Chimera
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  • Surface view colored by radius
  • Surface level: 0.505
  • Imaged by UCSF Chimera
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  • Surface view with fitted model
  • Atomic models: PDB-7vop
  • Surface level: 0.505
  • Imaged by UCSF Chimera
  • Download
  • Simplified surface model + fitted atomic model
  • Atomic modelsPDB-7vop
  • Imaged by Jmol
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_32056.png

Downloads & links

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Map

FileDownload / File: emd_32056.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Voxel sizeX=Y=Z: 2.24 Å
Density
Contour LevelBy AUTHOR: 0.505 / Movie #1: 0.505
Minimum - Maximum-2.3686743 - 3.58172
Average (Standard dev.)0.009624445 (±0.111747354)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 716.8 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z2.242.242.24
M x/y/z320320320
origin x/y/z0.0000.0000.000
length x/y/z716.800716.800716.800
α/β/γ90.00090.00090.000
start NX/NY/NZ000
NX/NY/NZ400400400
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS320320320
D min/max/mean-2.3693.5820.010

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Supplemental data

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Mask #1

Fileemd_32056_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_32056_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #1

Fileemd_32056_half_map_2.map
Projections & Slices
AxesZYX

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Slices (1/2)
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Histogram

Histogram (log scale)

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Sample components

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Entire : nuclear pore complex cytoplasmic ring

EntireName: nuclear pore complex cytoplasmic ring
Components
  • Complex: nuclear pore complex cytoplasmic ring
    • Protein or peptide: Nuclear pore complex protein Nup85Nuclear pore
    • Protein or peptide: MGC154553 protein
    • Protein or peptide: Nucleoporin SEH1-A
    • Protein or peptide: Nucleoporin 160kDa
    • Protein or peptide: MGC83926 protein
    • Protein or peptide: Nuclear pore complex protein Nup96Nuclear pore
    • Protein or peptide: GATOR complex protein SEC13
    • Protein or peptide: Nuclear pore complex proteinNuclear pore
    • Protein or peptide: outer Nup133
    • Protein or peptide: MGC83295 protein
    • Protein or peptide: Nuclear pore complex protein Nup93Nuclear pore
    • Protein or peptide: Nup358RANBP2
    • Protein or peptide: Nucleoporin CAN
    • Protein or peptide: Nup88A protein
    • Protein or peptide: IL4I1 protein

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Supramolecule #1: nuclear pore complex cytoplasmic ring

SupramoleculeName: nuclear pore complex cytoplasmic ring / type: complex / Chimera: Yes / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Xenopus laevis (African clawed frog)

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Macromolecule #1: Nuclear pore complex protein Nup85

MacromoleculeName: Nuclear pore complex protein Nup85 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 75.160047 KDa
SequenceString: MEELDVDPAE TPIPGLGQQN RHIGFSWGPG DLLLYETLYQ KQGNSETAAR CPFMYLVRSD EDIYSPVLRK LFNESHSIFV GLQKSAEEA SGKSRKAQLV QVSRNYRSVL RACMEEMHTL SESTRETAQK YISQISILSA MELSWNLCEI LFIESAPAGP L LILLLEWV ...String:
MEELDVDPAE TPIPGLGQQN RHIGFSWGPG DLLLYETLYQ KQGNSETAAR CPFMYLVRSD EDIYSPVLRK LFNESHSIFV GLQKSAEEA SGKSRKAQLV QVSRNYRSVL RACMEEMHTL SESTRETAQK YISQISILSA MELSWNLCEI LFIESAPAGP L LILLLEWV RLHVCEVDNI VQDVLRSEKP TEHEKFWDGV TGYVLQGRMN EARQLLAKEA STSASARSMC RVLDDLLKKM PM LHTGGTQ TLTEFELKWQ HWREECERHL QNGTFSSNVH MEAVCRVLLG DEEVLLEKRD LMTTWYHFLV SRLLFKHPTV KPT ELHFYA QSSLDMFLAG DSCPEPLDNI LLAAFEFDIH QVIKEFSIVS SNWWFVAHLT DLLDHCQLFQ AHNLYFGANM REFL LLDYA SGLFSHHSLW QLGVDYFDYC PNLGREYLKL HMERIPLSTE KKALKALRIC EQRQMTEQVR SICKTMAMQS LCNRR LGSA LSWSIRAKDA AFATLISDRF LKEYCERGNF TDLDLIDNLG SAMLLSDRLT FLGKYREFHR MYSQEQFSEA ASLLLS LMT ARIAPCSFWL TLLLDALPLL EQKQVIFSAE QTYELMRCLE DRMAAKLEST SPDEIQKQDS SIDNTKVEML RLALARN LA RAIVTEGALQ E

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Macromolecule #2: MGC154553 protein

MacromoleculeName: MGC154553 protein / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 41.744512 KDa
SequenceString: MADKFAAKFV SHKISRTRWR PVSASSLQQP DVFATGSWDN EENKVCVWAT SDFGATSLDE EYQGDPKQLC DIKHPGDVMD MQFLDKERI VTGSSTGTVT IFRHHENNQT LSVNQRWEQA HYHVGSNMRA PCTAIVCSSP EIVSVGEDGR INCFRAESRD V LRTIDDAD ...String:
MADKFAAKFV SHKISRTRWR PVSASSLQQP DVFATGSWDN EENKVCVWAT SDFGATSLDE EYQGDPKQLC DIKHPGDVMD MQFLDKERI VTGSSTGTVT IFRHHENNQT LSVNQRWEQA HYHVGSNMRA PCTAIVCSSP EIVSVGEDGR INCFRAESRD V LRTIDDAD SSTMHGVTFL RTTEILTVNS VGQLKLWDLR KQGNDPTQIF SVTGERVPLH CVDRHPNQQH VVATGGQDGM LC IWDVRHG KMPMSLLNAH EAEMWEVHFH PSNPDHLFTC SEDGSLWHWD ASADSEKPTF LLGGRSTFNI SRSSIAPPNA NQS LACAWL STDPTKGQLE ITNLLPSSTL SVNSLDVLGQ NLVCGTDAEA IYVTRRLFS

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Macromolecule #3: Nucleoporin SEH1-A

MacromoleculeName: Nucleoporin SEH1-A / type: protein_or_peptide / ID: 3 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 39.777566 KDa
SequenceString: MFVARSIAAD HKDLIHDVSF DFHGRRMATC SSDQSVKVWD KSENGNWHCT ASWKTHSGSV WRVTWAHPEF GQVLASCSFD RTAAVWEEI VGESNDKLRG QSHWVKRTTL VDSRTSVTDV KFAPKHMGLM LATCSADGVV RIYEAPDVMN LSQWSLQHEI S CKLSCSCI ...String:
MFVARSIAAD HKDLIHDVSF DFHGRRMATC SSDQSVKVWD KSENGNWHCT ASWKTHSGSV WRVTWAHPEF GQVLASCSFD RTAAVWEEI VGESNDKLRG QSHWVKRTTL VDSRTSVTDV KFAPKHMGLM LATCSADGVV RIYEAPDVMN LSQWSLQHEI S CKLSCSCI SWNPSSSRAH SPMIAVGSDD SSPNIMGKVQ IYEYNENTRK YAKAETLMSV SDPVHDIAFA PNLGRSFHIL AV ATKDVRI FTMKPLRKEL SSSGGVTKFE IHTVAQFDNH NSQVWRVSWN ITGTVLASSG DDGTVRLWKA NYMDNWKCIG VLK GDGNPV GNSYQGFFGS SVGSAGQSLQ NSVNGTPSSG RKHS

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Macromolecule #4: Nucleoporin 160kDa

MacromoleculeName: Nucleoporin 160kDa / type: protein_or_peptide / ID: 4 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 160.427547 KDa
SequenceString: MVQRAGGSTR GIMAASVNLE RSYMELIGAE RETSRRNFRD LSLRPDVSLV IGGPKYSDCA GGYCYNESGS LLSATRNRFI HWTSYADTL ELVELSLDIN LLNNAVRLKI LNCSILPGGV HICETQNNII VLILTNQTVH RLILPHPSRM YRSEIISDSH I QSIFTDIG ...String:
MVQRAGGSTR GIMAASVNLE RSYMELIGAE RETSRRNFRD LSLRPDVSLV IGGPKYSDCA GGYCYNESGS LLSATRNRFI HWTSYADTL ELVELSLDIN LLNNAVRLKI LNCSILPGGV HICETQNNII VLILTNQTVH RLILPHPSRM YRSEIISDSH I QSIFTDIG KTNFHDPNNT YVIPAIPGRA PNSTASTAWL SSDGEALFAL PSVSGGILVI KMPPRDMEGL VTIAELKQSS VM QRLLTGW MPSSIRGDPG PAHLPVSLAV HTLDHDSYLF ALCQDHKLRM WSYKDQMCLM VADMLEYVPV SKDIRQTAGT GHK LRLAYS DTLEILYLGV YLHTPRQGQF CVFQLVCTES NRYSLEHTSS IFTNQETLID FTFTLSSMNI WALWLDDDNQ TVMK HINFE RNQAGHWNPV FVNPLPDDDL AIGDEQEPQE AYLECLFAPG RFTIAALQKA IQILRKGSGR VLDLSWEELK KEVTL TVEK EIQNAVVDYD VSQEEFRQIN IENWCKFYTC CLQYQETLSR PLALVVHPNT NMVCLLRKGF LSFLAPCSSV EHLYLV PGE HLLTVDESVI CDDVDGASDI VSLIQCLHMI ADYITEDMAY QMESACCHPQ SPERVAEQIL EDLIANDIDN IMENIQN KL QDIRNPIQAI SFLLQNMDYE TNMDMEQSQH NVRLNLSTLY GSVTASSVVC QAIYKISATR FLICRDLLIL QHLLLRLG D MALVGAGQLL HSQQELIPRA AQLLLSYYMI RWGSQCLACA VPVDLLESNL QHLSVLELSD SQVEKRRYTS GIQTIVELF FEDVGRKHFP QVFAHLFIQS GSSQVHRSLN WADLIHRITS YLLQLLWPSN PNFQFAECLM RNCQYTQLQE YVRLLLPWCQ VNVGSCHFM LAQCYLVAGE GHKALDCFSQ AASEVEREDF LEKLIRVEEG ESVSPRLQYY NRVLRLLEDV GLPELVIQLA T IAISEASD DWRSQAALRT RIFKHHLDMG HNSQAYDALT QIPDTSRQLD CLRQLVVVLC ERSQLQDLVE FPYVNLHNEV VG IIESRAR AVDLMTHNYY ELLYAFHIYR HNYRKAGTVM FEYGMRLGRE VRTLRGLQKQ VNSYLACLNC LRLIRPEYAW IVQ PVSGAV YERPGASPKR NYDGESSAVP SSSQIEILEL RDLEKEYVLA QTRLTLAKHN PSTAAIAGSS AAEEMVALLV QAGL FDTAI SLCQTFKLGL TSIFEGLACK CIRLQQGGEA AQAEAWEWLA ANQLATVITT KESSATDEAW RLMISYLDKY ESKNT LYHH CIINKLLSHG VPLPNWLINR YKAMDAAELL RLYLKYDLLE EAAELVLEYV DALLGKGHQY FGIQAPLSAT SQLVWF PYS AIDHLRLALG ENENNQHNQA ILGKLQRKMD EYFQKLKKAT DDYKKIVQKP V

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Macromolecule #5: MGC83926 protein

MacromoleculeName: MGC83926 protein / type: protein_or_peptide / ID: 5 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 36.588625 KDa
SequenceString: MKQDSASNAT YTVDCEDYVH VVEFNPFDSG EAGSLLAYGG ISYVVIASCR FQEEDSTVEG IEFKTLKTFH HGERVVAIAW SPETRCDAL LPLLRFATAA GDKKIRIFTS DFQDKNEYKV IEGHSGYIND LVFCSPEGTD IASVGDDHTC RIWDLDGKQI A MFILRSPG ...String:
MKQDSASNAT YTVDCEDYVH VVEFNPFDSG EAGSLLAYGG ISYVVIASCR FQEEDSTVEG IEFKTLKTFH HGERVVAIAW SPETRCDAL LPLLRFATAA GDKKIRIFTS DFQDKNEYKV IEGHSGYIND LVFCSPEGTD IASVGDDHTC RIWDLDGKQI A MFILRSPG MSVAWHPEGA FKLMVAEKTG TIRFYDLTTH QAILSLESVQ VPLMSADWCV RNTLRIGAVA GNDWIIWEMP RS SYPQDNK PAHADRARMF RWSKCNENVF ATTGYPGKMK SQIAIHHLAH PQPILIGTAP VGSGLSWHRR LPLCVVGGYR KLF FWLTEM

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Macromolecule #6: Nuclear pore complex protein Nup96

MacromoleculeName: Nuclear pore complex protein Nup96 / type: protein_or_peptide / ID: 6 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 104.742812 KDa
SequenceString: SKYGLQDSDE EDDQLNSAEA KKLKTAPVPP QGKQPPLQQA TLPGKVTPPP QSPAVDQLDR VMELDSDMAD ITQDQDLDSV AEEQDISEE QEPLSASSHI ASSLGINPHA LQVMKASLLL EEEDGEIMSR FSSFPSSMDP YPDVRSPRLF PSSHAKRPSS I GLLQSKFS ...String:
SKYGLQDSDE EDDQLNSAEA KKLKTAPVPP QGKQPPLQQA TLPGKVTPPP QSPAVDQLDR VMELDSDMAD ITQDQDLDSV AEEQDISEE QEPLSASSHI ASSLGINPHA LQVMKASLLL EEEDGEIMSR FSSFPSSMDP YPDVRSPRLF PSSHAKRPSS I GLLQSKFS APSMSRLSET VQGSHSPKIH PAAPWSVPAP LAPSFIMPGP APDTHLRTVG TRRQQELVPL EKSVTHGRGT LM IDMGLFM GRSFRVGWGP NWTLVHNGDK LSERLNAEED RDMDTIDYGF LPKPTSAKSL TESPFKVHVE KLSLEQKTKD LQS YLLPLE IELKNSTVDK SGPCPHFRPN PGVTAIHDYA GWVRNFSSEA AEVEAVVKQW GLTWTLCESL WGQLKELEAS LDEP NEYVK NLERRKAFSH WLAQTAQERI EEEVSLYGPE RHIEAVFSYL TGGRISDACR LAQKSGDHRL SLLLSQMVGS QEVRD LITL QLVDWNKLQV DHYIQEERLR VFCLLSGTPV WRSSDNRSIN VCSQLDWKRT LGIHLWYMLP PTATVAQALH MYEQAF QEQ EGGEPYACYP LPPYLEDCGF SFGDDPSAKF ISLQRDVCVH LLKLYSERQY DLCQLLDPSS ATPDPLDYRL SWHMWMV LQ ALNYTHLSGH RQGMLHASYA AQLENVGLWE WAIFVLLHIQ DPHVREAAVR ELLNRHCVVH DSPESLAKEN FLIQRLCL P AQWIHKAKAV RSRRDGDKHK EALYLLKSHQ WNQCHKLVTR HLAADAVINE NYRYLRGFLG ELARPEHCKH IQDWETAGK VYLDYISVIE MLNQIRQDEC SGGELEKLHT KVMSLCKWVE LIQCYSAKGR LAQSEMAKRV ANILRVVLSL QQPPESMSDS SSEPRVPLR LLAPHIGRLP MPEDYALEEL RGLTQSYLRE LICGS

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Macromolecule #7: GATOR complex protein SEC13

MacromoleculeName: GATOR complex protein SEC13 / type: protein_or_peptide / ID: 7 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 35.315285 KDa
SequenceString: MVSVINTVDT SHEDMIHDAQ MDYYGIRLAT CSSDRSVKIF DVKNGGQILI ADLRGHDGPV WQVAWAHPMY GNILASCSYD RKVIIWKEE NGTWEKTYEY TGHDSSVNSV CWAPHDFGLV LACGSSDGAI SILTFTGDGP WEVKKISNAH TIGCNAVSWA P SVIPGSLV ...String:
MVSVINTVDT SHEDMIHDAQ MDYYGIRLAT CSSDRSVKIF DVKNGGQILI ADLRGHDGPV WQVAWAHPMY GNILASCSYD RKVIIWKEE NGTWEKTYEY TGHDSSVNSV CWAPHDFGLV LACGSSDGAI SILTFTGDGP WEVKKISNAH TIGCNAVSWA P SVIPGSLV DQPSSQKPNY IKRFVSGGCD NLVKIWREED GQWKEDQKLE AHSDWVRDVA WAPSIGLPTS TIASCSQDGR VY IWTSDDA ATNCWTPKLL HKFNDVVWHV SWSITANILA VSGGDNKVTL WKESVDGQWA CISDVNKGQG AVSTVTEGQL NDQ

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Macromolecule #8: Nuclear pore complex protein

MacromoleculeName: Nuclear pore complex protein / type: protein_or_peptide / ID: 8 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 105.398547 KDa
SequenceString: MDMLSPVVRE AEVSRAARRQ SSNRKNPADE SWSNATPTRG PSSRTTGQTL FRQHMTPQTW NSSRPPDVSA ILGTVGRSPR LLQTPGRLA NLSMMSNPDD SVWTTTFSPG RTGMYTTLDS PSFTEDITLS AVMLQEEDPG EAATMSMYPD FLKSFLEHPS S AVFELIEQ ...String:
MDMLSPVVRE AEVSRAARRQ SSNRKNPADE SWSNATPTRG PSSRTTGQTL FRQHMTPQTW NSSRPPDVSA ILGTVGRSPR LLQTPGRLA NLSMMSNPDD SVWTTTFSPG RTGMYTTLDS PSFTEDITLS AVMLQEEDPG EAATMSMYPD FLKSFLEHPS S AVFELIEQ YEATCNTQIT LLKKIVKRVT PGQQKFSKTA SILWLLQQEM VTWRLIAALY RDRIQSALEE ENMFEIAAPN AS EKTIVDK LFQRDTLVRQ SQLVVDWLES IAKDEVGDFS DNIEYYAKSV YWENTLHTLK QRSMLSLGSS RPLVSELDPD API RQKLPL DDLDREDDIR LLKYLFTLIR AGMTDEAQRL CKRCGQAWRA ATLEGWKLYH DANINGGTEL QAVEGNPYRC VWKT CCWRM AEDEQFNKYE RAIYATLSGN LKQLLPVCES WEDTVWAHFK VMVDSLVEQE IRASIISFNE ANELPREYLE ANWTL DSVF EELQATDKKR VLEENREHYH IIQKFVILAD VDGLMDEFSE WLSNGKNLLL GHLLRFMTHL LLFFRTLGLQ AKEEVS VEV LKTYIQRLIN EKQIELIAFY VSHLPQELAI SQYAVFLENI TDPDQRQRCL ELAKEAGLDV ASITKTVVEN TRKKDAG EF AHHDFAPALD SGTSEEDRAK IDVIDWLVFD PAQRAEALKQ SNAIMRKFLA SKKHEAAKEV FAKIPQDSIA EIYSQWEE Q AMDSALPAED DNAIREHLCI RAYLESHEAF NEWFKHINSP PQKPTLVGQA SFTEKVAHEH KEKKYEMDFG IWKGHLDAL TSDVKEKIYN VLLFVDGGWM VDVREDTEED PERSHQMVLL RRLCLPMMCF LLHTVLHNTK QYKDCLRLAD IVSSENQKLY TVFSKTEMR NLLQKLRESS LMLLDLQLDP LGYEIQS

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Macromolecule #9: outer Nup133

MacromoleculeName: outer Nup133 / type: protein_or_peptide / ID: 9 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 127.55125 KDa
SequenceString: MFPSPRAQGM GSARRPFNSR LTGGRKALGP GVTASSSPSA LYSPVGRRVS ASGARSTPSR VYLHPAASET VNYNVQLFGS SLPVKVMEA LSNASADEPM AACIHEGGWA WLACNDRLII WKISHSSSAK LMVCKELPLP LSDSEWSADL VDICAQTGDP A AAQSVALM ...String:
MFPSPRAQGM GSARRPFNSR LTGGRKALGP GVTASSSPSA LYSPVGRRVS ASGARSTPSR VYLHPAASET VNYNVQLFGS SLPVKVMEA LSNASADEPM AACIHEGGWA WLACNDRLII WKISHSSSAK LMVCKELPLP LSDSEWSADL VDICAQTGDP A AAQSVALM AATPEGSSRY WPNILHEGTY IESYTEFGSS LCAFVTAVKG NSFILSSEKN QLVRLTPDAS GKMNQRVLPQ GQ GMLSGIG RRVSTLFGIL SPAVESTLCS VLWDKGDCFY TLTDSSINKW DLDDTSESQV LNWDMSRVLR EYISDAIWGS ESD YDDIKA GININYLSLN QNCDGLVILS AAWHPGDNPC QIYYTLVTVK DEGYNISDEI TVEVTQFNPV FQARGMQLCQ LVVP NFSSQ ACYLYTQEMI FACSTGTGRS TLPQEKIPFE AQGDNIVGAG SCEGWPVFFI RKSGMLTVVA RETASVLPEH MEESL SSVS KSSRQAVVKD SRPDQIAHDD KTKHLKAAFL RYCRKDILGA QSMVDSLFSD SDMEPDDELD LAVNQISVDL IDDYPA SDP RWAESVPEEA AGFSNTSLIL LHQLEDKMKA HSFFVDFLHQ VGLFSRLSTC QTKGMLVATR LLLSEHAEKL SAAIVLK NH HAKLPVLVNS AIQLALDKRM CTVPQNLTAA DVYFREVSQM EIIFECLVDK EEADLESTSI DSVEWANIVV NVNTILKD M LHVACQYRQS KNSLYKNESG IQEPEHVPWT ASSGTAGIRS VVTRQHGIIL KVYPQADSGL RTILIEQLAA LLNYLLDDY VTQLKSIDKL ANEERYNILE MEYAQKRSEL LSPLLILGQY AWASNLAEKY CDFDILVQIC EMTDNQSRLQ RYMTLFAEQN FSDFLFRWY LEKGKRGKLL SQPASQHGQL AAFLQAHDHL SWLHELNSQE FEKAHRTLQT LANMETRYFC KKKTLLGLSK L AALASDFQ EDVLQEKVEE IAEQEHFLLH QETLPKKLLE EKQLDLNAMP VLAPFQLIQL YVCEENKRAN ENDFMKALDL LE YIGDDSE VDVEELKLEI LCKAIKRDEW SATDGKDDPI EATKDSIFVK VLQNLLNKGI ELKGYLPKAE TLLQSEELNS LKT NSYFEF SLKANYECYM KMQS

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Macromolecule #10: MGC83295 protein

MacromoleculeName: MGC83295 protein / type: protein_or_peptide / ID: 10 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 227.854141 KDa
SequenceString: MAAQLALNSE ASLWGPYREI WQTVLSALIK RQPEAVHSLD IVLKKYKPDF ISLFKNPPKS AQQHERVQKA STEGIPIKGT QRTRILEEQ LIKEAFILSD LYNIGEIAAV ELLLIGEQQQ PTFHGLTRGL VAILLYWDGK SCMAESLLHL IQARKGKTFT L DHSPEVVS ...String:
MAAQLALNSE ASLWGPYREI WQTVLSALIK RQPEAVHSLD IVLKKYKPDF ISLFKNPPKS AQQHERVQKA STEGIPIKGT QRTRILEEQ LIKEAFILSD LYNIGEIAAV ELLLIGEQQQ PTFHGLTRGL VAILLYWDGK SCMAESLLHL IQARKGKTFT L DHSPEVVS MVTRFTDDLM EQGLTNKILT LISQIDVNNE FDKLKKERGL GNKKHRKEVS DLIKECQQSL AHSLYSWSCQ TP LNREDTL LLIGYLEKVT VEGDGSLDKV NLTLLMSLLY CLDVGFLEQG TDDREELMKQ ASMFMDRQYI AAIHNRLQNT QPW KSPGMQ ATVRLAWALA LRGISQFSEV LEFSEADEPM AEIAIGGNVF LFLTEAVVGS ESFCTDEFFI RRIHKLVTDF PTLM PMKVK QLRNRAEEDA RLIQMSMQMG NEPPASLRRD LEHLLLLIGE LYRKDPFHLE LALEYWCPTE PLQSTSLMGS FLGVA HQRP PQRQVLLSKF VRQMSDLLPA TLYLPYLKML RGLASGPQCA HYCFSLLKAN GGSSAENLQA AGGSPVSWDH FFHSLM LYH EHLRRDLPNT DNIHQRHPPL RGITQRELDG LIACLQLTCT IIDWSESARL ALCEHAQWMP VVVILGLLQC SIPPLLK AE LLKTLAAFGK SPEIAASLWQ SLEYTQILQT VRATGLRQGV GIEVELNEIE SRCEEYPLTR AFCQLISTLV ESSFPTNL G AGLRAPGFEP YLQFLRDTVF LRYRTRAYRR AAEKWEVAEA VLDVFYKLLK DYEPQPEDFV DQYVELQGEE RVAFKPPGF SLMHHLLNES PMLELCLSLM EEGVTQLDTY APFPGKKHLE KAVAYCFMLL NLTLQKENRF MDLLRESHLS MIVTPLEQLL QGINPRSKK ADNVVNIARY LCHGNSNAEL AFESAKILCS ISCNSKIQEK IVGDFTQDQN VSQKLMVGFV SCLDSEEAEE L LDSEKEAE DQVKQTNIRY MTKIHILNLL ITSLEMKAPN LAMFLLGYEL KKPVSTTNLQ DSGVLGCPRT CLHSILDILR KG TDVRAGP VAVWDTPHLA ELCYQVIYQL CACADTSGPT MRYLRTSQDF LFSQLQHLPF SVEESEISAM NQMSWLMKTA TIE LRITSL NRQRSHTQRL LHLLLDDMPT RPYSADGEGG MEDESRSLSG FLHFDTTSKV RRKILRILDS IQFSNEIPEP LQLD FFDRS QIEQVIANCE HKNRRGQTVC NVKLLHRVLV AEVNALQGMA AIGQRPLLME EINTILQYVV ERNKLLQCLH AKRHA LESW RQLVEIILTA CPQDLIPTEH RQLIIRDLLQ DLHVKILDDD AAQELMPIVA GAVFTLTAHL SQSVRTELKQ PMTASG LGQ SQYVQMLDGS FAAPPGTENI SAGFASIGDS SLHMILRNLL EFILKTGGGF QRVRAHLYGS LLYYLQIAQR PDEPDTL ES AHKSMWERLT APEDVFSKLQ RDNLSIFESY GTALMEVVCR DACDGHDIGR MLALALLDRI VSVDRQQQWL LYLSNSGY L KVLVDSLAED DVVLRNLLTP QPPLLKALYI YESKMAFLTR VAKSSQGAIE LLRSGVIVRL AQCQVYDMRP ETDPHGVFG MRETPVFIPA PVERYRQILL PALQICQLIL TSSTAQHLQA AGQVLQFLVA HSDTIQAILR SQEGSLGSLQ ELALLTGIIS KAALPGVLN ELDIGLNDGS MMELQGHIGR FQRQCLALLN RFGGSDRLRQ LSLQDDSSRL DGVSKKDDME LAMQQICSNV M EYCQALMI QNSPSFQQTV CLFTPSLKES ASRDGTRQDS QVSILPSWRL PSLGVVIHLL KQSANNFFTY YDIHRQSVGK LQ NVEQLPP DEIKELCQSE MPVGADKIST TQKYGLARRR LVKLINSRAK LLSLCSYIIE TCLYILWRHL EYYLLHCTTS DSQ DPVFSN MTFGNRRFQD TFNTDPNMDP RNLRQNKVSQ QDVDTLLREG ANSFGESLQK RLLDIESLYC KVRSRHSFIQ ALVR RIRGL LRVSRV

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Macromolecule #11: Nuclear pore complex protein Nup93

MacromoleculeName: Nuclear pore complex protein Nup93 / type: protein_or_peptide / ID: 11 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 93.565156 KDa
SequenceString: MDGEGFGELL QQAEQLAAET EGVTELPHVE RNLQEIQQAG ERLRSKTMTR TSQESANVKA SVLLGSRGLD ISHISQRLES LSAATTFEP LEPVKDTDIQ GFLKNEKDNA LLSAIEESRK RTFVMAEEYH RESMLVEWEQ VKQRVLHTLL ASGEDALDFT Q ESETSYIS ...String:
MDGEGFGELL QQAEQLAAET EGVTELPHVE RNLQEIQQAG ERLRSKTMTR TSQESANVKA SVLLGSRGLD ISHISQRLES LSAATTFEP LEPVKDTDIQ GFLKNEKDNA LLSAIEESRK RTFVMAEEYH RESMLVEWEQ VKQRVLHTLL ASGEDALDFT Q ESETSYIS ESGAPGRSSL DNVEMAYARQ MYMYNEKVVS GHLQPSLVDL CTEAAERLDD KNVSDLWVMV KQMTDVPLIP AS DTLKSRC SGQMQMAFVR QALNYLEQSY KNYTLISVFA NLQQAQLGGV PGTYNLVRSF LNIRLPTPIP GLQDGEIEGY PVW ALIYYC MRCGDLMAAQ QVVNRAQHQL GDFKNCFQEY IHNKDRRLSP TTENKLRLHY RRAVRASTDP YKRAVYCIIG RCDV SDNHS EVADKTEDYL WLKLSQVCFE DEANSSPQDR LTLPQFQKQL FEDYGESHFA VNQQPYLYFQ VLFLTAQFEA AIAFL FRLE RTRCHAVHVA LALFELKLLL KSTGQSAQLL SQEPGEPQGV RRLNFIRLLM LYTRKFEPTD PREALQYFYF LRNEKD NQG ESMFLRCVSE LVIESREFDM LLGKLEKDGS RKPGAIDKFT RDTKTIINKV ASVAENKGLF EEAAKLYDLA KNPDKVL EL TNKLLSPVVS QISAPQSNRE RLKNMALAIA ERYKSQGVSA EKSINSTFYL LLDLITFFDE YHAGHIDLSF DVIERLKL V PLSQDSVEER VAAFRNFSDE IRHNLSEILL ATMNILFTQY KRLKGSGPTT LGRPQRVQED KDSVLRSQAR ALITFAGMI PYRMSGDTNA RLVQMEVLMN

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Macromolecule #12: Nup358

MacromoleculeName: Nup358 / type: protein_or_peptide / ID: 12 / Number of copies: 5 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 325.736625 KDa
SequenceString: MRRSKAEIQR YVENAQNSAS SPREKSMKGF LFARLYYEAK EYELAKRSVS SYISVQERDP KAHRFLGQLF EIEGNVEKAV GCYKRSLEL NPTQKDLTLR IAELICTLNI KDGRAEYWVE RASKLFPGSP EIYRLKEQLL SSQGEAGWNQ LFDLIQAELF A RPNDVYVN ...String:
MRRSKAEIQR YVENAQNSAS SPREKSMKGF LFARLYYEAK EYELAKRSVS SYISVQERDP KAHRFLGQLF EIEGNVEKAV GCYKRSLEL NPTQKDLTLR IAELICTLNI KDGRAEYWVE RASKLFPGSP EIYRLKEQLL SSQGEAGWNQ LFDLIQAELF A RPNDVYVN LKLVDLFLSN QRLEEAVLHC LKPERRALRT DIEWCSCVVR VFKEYLASKQ GQKNTNMRMI TKELLLAQCD VV FLTLSKK DVQKSKEALE RFDQALLSVK QSVSGTDASD LSVTFYEMRG HYYMHAGTLL LKMAQSCEVQ WKALIEPAAL CYL LAYQVP KPKSKPVKGD DNGQGFLEEL AFDRQSKSGH LLLTLSHGKQ NFISEIIETF ANQCGQSILL KFLFEDNLSM QDSF MGSDD ISYVENRVPD LSELSQHDNG SLRIHNGDLQ HLTWLGLQWH FLSTLPPLRK WLKQIFPRVP QETSRLESNI PESIC LLDL EVFLLAVVQT SYLQLQDNNT TADPNRPRCL PLPICKQLFT DRQRSWWDAV YSLITKKALP GTSAKLRSVI QHDLTT LRA QEKHGLQPAV LVNWARGLHK TGYSLNSFYD QKEYMGRCVH YWKKLLPLLD LVKQKKSIPE PVDPLFKHFH NKDIKVS EV KDLEDEACIA FATLDLVDGK TEDAIIAFES VKNVVAYWNL ALIYQRKAEE IENDCLPAEE QEEFQECLLK CKGFLKMI C DEYSAYPSIA TSLPVPVETV FEMLDSVKQS LGEAMDDHSP AFMENHSVLT TSAIKHSTPS PTKLTISPSK SARFSPKTP PRWAEDQKSL LEVLCNKVEA LKKEVQELKH NNSNANVSPH RWPNEGFESD TVADSYQGTQ NFYTVPLTVS TSGPAAYYGQ SPAYNSQHL LRPAANITPT KTSVYAMNRL PPQQHMYTYP QQMHTPPTQQ SSAGCVFPQE IYGPPLRFES PAAAILSPHN E EFYNYNVP PASTNPPLPE PGYFTKPSTA MQHSKQEVPK VSDFGKGCLG QSTSEGQKPS PFTVPMQSTP ASSTFKFNSN FK SNDGDFT FSSSHAGASS AYTGSESLLG LLTSDRPTQE QGKKSDFENI ASDEKNMFRF GEKSFSPGFT VTGTQSQDKN PLV FGQSEN IFTFKTPGKS TFKPPTFGTQ TKDAHNHSVE SDAGSEHVAD DDGPHFEPII PLPEKVEVKT GEEDEEEMFC NRAK LFRFD AETKEWKERG IGNVKILRHR LSGKIRLLMR REQVLKICAN HYINADMKLK PNATSDKSYV WHAYDYADEM PKPEQ LAIR FKTVDEAAHF KAKFEEAQRL LAMAEAPAIS AQHKNAKDNL KLDASKVKEA PLPFGSQFIL KRGEWQCDCC LATNAP TST SCVCCQTPNK NKSSSISSVC ISAPSFTFVK ESATNKLAFG QQLLKDKDQW TCSKCSQKND AGVSHCSSCQ TQSQAKA GI SQPNIASSGF TNNTSAQGDN LAAVFGKKAG QWDCDVCYVR NEPSANKCIS CQNTKPLSKV SGTQAASFSF AAGADNSQ K NFGAQFAKKE GQWDCDACYV RNEPLATKCI SCQNTKLLSK TTGTQAASFS FAAAADNSQK NFGGQFAKKE GQWDCSSCL VRNEASAPNC VACHSANPQI TNKDVVPPAL TPSGFKFGHN AEVGKTQQSL SAMFSCKQGQ WECSTCLVIN DAAKDTCAAC QAAKPGSSA SQSKEVPSTF GIKANSSQNF GQPAAGFNCG FSAKGFKFGI SDEKASASNF TFKAPATNEE TKMVKDGFNF P VSAGSLSF KFGISEPDKT KEMSTGFMKG TSTNNKGSET AETTAQAEKI QQSPDKVLGQ SVQSFSFADI AKSTEGIEFG KA DPNFKGF SGAGQKLFTS SNQVNASNAQ EAADDLYKTE ERDDIHFEPI VQLPDKVDLI TGEEDEKTLY SQRVKLYRFD ATS GQWKER GVGNLKILKN EVNGKLRVLM RREQVLKVCA NHWITTTMNL KPLTGSDRAW MWLANDFSEG DAKLEQLAVK FKTP EQAEE FKIKFDQCQC LLLDIPLQTP HKLVDTGRTA HLIQKAEEMK TGLKDLKTFL TDKAKPLDDS NAINTTDLEK QALAD GTEP TYEWDTYDMR GDAHEETLDD SVYASPLASS PEKKNLFRFG DLSTSGFNFS FQPEPSPSKS PTKLNHSRVS VGTDEE SDV TQEEERDGQY FEPVVPLPDL VEVTSGEENE QAIFCHRAKL YRFDKDSNQW KERGIGDLKI LQRLDNKSAR VVMRRDQ VL KLCANHRITT DINLQPMKGA ERAWVWTAHD FSEGEGKVEC FAVRFKLQEA ADLFKEVFEE AKEAQAKDCL LTPVSSRG T TPRAASCGKA AIAILEETTK ERTDQQPEED TSLTEASTPS PTDQPAKALV SPANFTFGSD VVKNIFGSEK QVPFAFGNT SSTGSLFGFS FNASQSQGQQ VQKQPPKVTL DFNATFKDAE TTNALQKPSQ SSGQSPIVSS LSSSSSSSSS TLMQPMPARG FNFSLFKSN PRAFWTCTSS SKPEVEDKAA DVPDADSSSD VLIVYVATPT PEQKALAETL LLPLTFFCYK NKPGYVSDES D IDDEDFET AVKNLNGILY TEDKKDKASS RLSGCSKEPT AESDQDCIIV WEKKPTPEEK AKADSLKLPP TFFCGLGSDT DE DKDNLED FDTEVRKVKE AKGVPEADVT SSPEAAIVSA AETSVSLPPK QEPDSTTSIS QEPVDLSSKQ ELPKTDSKGF STP SFSFGL GEVSGVSFAD LASTNSGDFA FGSKDTNFQW ANTGAAVFGT LSQNKKGEDA DGSDEEVVHS DDVHFEPIVS LPEV EVKSG EEDEEILFKE RAKLYRWDRA VGQWKERGVG DIKILFHKEK GYYRVLMRRD QVLKVCANHV ISTEIKISTL STSNN SLVW TATDYSDGEG KVEQLAVRFK TKELTDSFQN KFEECQHNLQ EESNPQH

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Macromolecule #13: Nucleoporin CAN

MacromoleculeName: Nucleoporin CAN / type: protein_or_peptide / ID: 13 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 209.080406 KDa
SequenceString: MEDDTDLPPE RETKDFQFRQ LKKVRLFDYP ADLPKQRSNL LVISNKYGLL FVGGFMGLKV FHTKDILVTV KPKENANKTV VGPQGIHVP MNSPIHHLAL SSDNLTLSVC MTSAEQGSSV SFYDVRTLLN ESKQNKMPFA SCKLLRDPSS SVTDLQWNPT L PSMVAVCL ...String:
MEDDTDLPPE RETKDFQFRQ LKKVRLFDYP ADLPKQRSNL LVISNKYGLL FVGGFMGLKV FHTKDILVTV KPKENANKTV VGPQGIHVP MNSPIHHLAL SSDNLTLSVC MTSAEQGSSV SFYDVRTLLN ESKQNKMPFA SCKLLRDPSS SVTDLQWNPT L PSMVAVCL SDGSISVLQV TDTVSVFANL PATLGVTSVC WSPKGKQLAV GKQNGTVVQY LPSLQEKKVI PCPSFYDSDN PV KVLDVLW LSTYVFTVVY AAADGSLEAS PQLVIVTLPK KEDKRAERFL NFTETCYSIC SERQHHFFLN YIEDWEILLA ASA ASVDVG VIARPPDQVG WEQWLLEDSS RAEMPMTENN DDTLPMGVAL DYTCQLEVFI SESQILPPVP VLLLLSTDGV LCPF HVVNL NQGVKPLTTS PEQLSLDGER EMKVVGGTAV STPPAPLTSV SAPAPPASAA PRSAAPPPYP FGLSTASSGA PTPVL NPPA SLAPAATPTK TTSQPAAAAT SIFQPAGPAA GSLQPPSLPA FSFSSANNAA NASAPSSFPF GAAMVSSNTA KVSAPP AMS FQPAMGTRPF SLATPVTVQA ATAPGFTPTP STVKVNLKDK FNASDTPPPA TISSAAALSF TPTSKPNATV PVKSQPT VI PSQASVQPNR PFAVEAPQAP SSVSIASVQK TVRVNPPATK ITPQPQRSVA LENQAKVTKE SDSILNGIRE EIAHFQKE L DDLKARTSRA CFQVGSEEEK RQLRTESDGL HSFFLEIKET TESLRGEFSA MKIKNLEGFA SIEDVQQRNK LKQDPKYLQ LLYKKPLDPK SETQMQEIRR LNQYVKNAVQ DVNDVLDLEW DQYLEEKQKK KGIIIPERET LFNSLANHQE IINQQRPKLE QLVENLQKL RLYNQISQWN VPDSSTKSFD VELENMQKTL SQTAIDTQTK PQAKLPAKIS PVKQSQLRNF LSKRKTPPVR S LAPANLSR SAFLAPSFFE DLDDVSSTSS LSDMADNDNR NPPPKEIERQ ETPPPESTPV RVPKHAPVAR TTSVQPGLGT AS LPFQSGL HPATSTPVAP SQSIRVIPQG ADSTMLATKT VKHGAPNITA AQKAAVAAMR RQTASQIPAA SLTESTLQTV PQV VNVKEL KNNGPGPTIP TVIGPTVPQS AAQVIHQVLA TVGSVSARQA APAAPLKNPP ASASSIAPQT WQGSAPNKPA AQAI PKSDP SASQAPAPSV SQVNKPVSFS PAAGGFSFSN VTSAPVTSAL GSSSAGCAAT ARDSNQASSY MFGGTGKSLG SEGSF SFAS LKPASSSSSS SVVEPTMSKP SVVTAASTTA TVTSTTAASS KPGEGLFQGF SGGETLGSFS GLRVGQADEA SKVEVA KTP TAAQPVKLPS NPVLFSFAGA PQPAKVGEAP STTSSTSASL FGNVQLASAG STASAFTQSG SKPAFTFGIP QSTSTTA GA SSAIPASFQS LLVSAAPATT TPSAPINSGL DVKQPIKPLS EPADSSSSQQ QTLTTQSAAE QVPTVTPAAT TATALPPP V PTIPSTAEAK IEGAAAPAIP ASVISSQTVP FTSTVLASQT PLASTPAGGP TSQVPVLVTT APPVTTESAQ TVSLTGQPV AGSSAFAQST VTAASTPVFG QALASGAAPS PFAQPTSSSV STSANSSTGF GTSAFGATGG NGGFGQPSFG QAPLWKGPAT SQSTLPFSQ PTFGTQPAFG QPAASTATSS AGSLFGCTSS ASSFSFGQAS NTSGTSTSGV LFGQSSAPVF GQSAAFPQAA P AFGSASVS TTTTASFGFG QPAGFASGTS GSLFNPSQSG STSVFGQQPA SSSGGLFGAG SGGASTVGLF SGLGAKPSQE AA NKNPFGS PGSSGFGSAG ASNSSNLFGN SGAKAFGFGG TSFGDKPSAT FSAGGSVASQ GFSFNSPTKT GGFGAAPVFG SPP TFGGSP GFGGSPAFGT AAAFSNTLGS TGGKVFGEGT SAATTGGFGF GSNSSTAAFG SLATQNTPTF GSISQQSPGF GGQS SGFSG FGAGPGAAAG NTGGFGFGVS NPTSPGFGCW RS

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Macromolecule #14: Nup88A protein

MacromoleculeName: Nup88A protein / type: protein_or_peptide / ID: 14 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 82.573148 KDa
SequenceString: MAAGEHWQSA LSEHALFSSL KERLRDVEEL REEGERRASK DKQLRNLLCV LDGDLLVWDA EECAFHTVTL RSLSVESTGS SSSGEQKLL CTNPPLFDVN EVLLSPTQHH VALVGSKGVM VLEIPKRWGK KSEFEGGEKT VNCRTIPIAE RIFTSSTSLL L KQAIWYPS ...String:
MAAGEHWQSA LSEHALFSSL KERLRDVEEL REEGERRASK DKQLRNLLCV LDGDLLVWDA EECAFHTVTL RSLSVESTGS SSSGEQKLL CTNPPLFDVN EVLLSPTQHH VALVGSKGVM VLEIPKRWGK KSEFEGGEKT VNCRTIPIAE RIFTSSTSLL L KQAIWYPS ETQEPHLILL TSDNILRLYN LQDLFTPVKV ISLSSAEEET TLPHNGRSYK ASLGETAVAC DFGPLAVLPK GF GQHSKED TVAYPLYILY ETGETYLMYI DLQKSNITVG KLLGPLPMYP AAEDNYGYDA CALLCLPCVP NIIVIATESG LLY HCVVLE GEEDDEQTSN KSWNSSCDLI PSLYVFECVE LELALKFATE EEESLELDFA CPIKLHRDPI CPSRYHCTHV AGVH SVGLT WFNKLEKFLS SGEEDKDSLQ ELAAEQKCLV EHILCTKPLR CRLPSPIQGF WIISDLFLGT SMICITCDFE CIVRP LLTT IRPPSPPLLC SQSDKSSTEI LPHVLADVKG PFEEHIRGIL RRNSANPLLL NSSSKDSSPP PEECLQLLSR ATQVFR EEY LLKQDLANEE IQRRVKLLIA QKEKQLEDLR YCREERKSLT ETAERLAEKF EEAKEKQEDL INRLKRILRS FHTQLPV LS ESERDMKKEL QATNQQLQQL GNSINQVNRK MSYQEKQMEK GKSPRKSSLT LSDYQKKNIK AVLKEHGEHI QEMVKQIN N IRNHVNF

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Macromolecule #15: IL4I1 protein

MacromoleculeName: IL4I1 protein / type: protein_or_peptide / ID: 15 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: African clawed frog (African clawed frog)
Molecular weightTheoretical: 55.969496 KDa
SequenceString: MSGFNFGAAS AGGFSFGNPK STTTTAPTGF SFGAATAAPS GGFSFGTATP TPASTTGQTS GLFSFSNPAP SLAPTSGFSF GAQVTSTPA PSSGGLAFGA NTSKLNSGVG NQPAGGTTQT SQPMGGFSFG AATTQTQPSA TSVGGFSFAG GVGSTSTNVF A QPAASTGI ...String:
MSGFNFGAAS AGGFSFGNPK STTTTAPTGF SFGAATAAPS GGFSFGTATP TPASTTGQTS GLFSFSNPAP SLAPTSGFSF GAQVTSTPA PSSGGLAFGA NTSKLNSGVG NQPAGGTTQT SQPMGGFSFG AATTQTQPSA TSVGGFSFAG GVGSTSTNVF A QPAASTGI TLQSAVSTAA APTATTSQPT STFSFGTQPQ AAPALNFGLL SSSSVLSTAS TPAAAQPVAP TTGLSLNFGK PA DTSAAVT STGSTTTNTP SLSSLLGTSG PSLFSSVATS TVPSVVSTVA SGLSLTSTAT STGFGMKTLA SSAVPTGTLA TST ASLGVK APLAGTIVQA NAVGSAAATG ISTATAMTYA QLENLINKWS LELEDQEKHF LQQATQVNAW DRTLMQNGER ITTL HREME KVKLDQKRLD QELDFILSQQ KELEDLLTPL EESVKEQSGT IYLQHADEER EKTYKLAENI DAQLKRMAQD LKEVI EHLN TSAGPGDASN PLQQICKILN AHMDSLQWID QNSALLQRKV EQVTKECESR RKEQERGFSI AFD

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 7.5
VitrificationCryogen name: ETHANE

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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 / Nominal defocus max: 5.0 µm / Nominal defocus min: 1.0 µm
Image recordingFilm or detector model: GATAN K2 QUANTUM (4k x 4k) / Average electron dose: 60.0 e/Å2
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

Startup modelType of model: EMDB MAP
EMDB ID:

3103

Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD
Final reconstructionResolution.type: BY AUTHOR / Resolution: 8.7 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 354460
FSC plot (resolution estimation)

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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

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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

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