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- EMDB-24258: Structure of the in situ yeast NPC -

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Basic information

Entry
Database: EMDB / ID: EMD-24258
TitleStructure of the in situ yeast NPC
Map datafull in situ NPC map recombined from 90 degree wedge focused alignment
Sample
  • Organelle or cellular component: yeast NPC
    • Protein or peptide: x 21 types
Function / homology
Function and homology information


response to spindle checkpoint signaling / nuclear pore linkers / : / peroxisomal importomer complex / regulation of protein desumoylation / mRNA export from nucleus in response to heat stress / nuclear pore inner ring / Seh1-associated complex / protein localization to nuclear inner membrane / positive regulation of ER to Golgi vesicle-mediated transport ...response to spindle checkpoint signaling / nuclear pore linkers / : / peroxisomal importomer complex / regulation of protein desumoylation / mRNA export from nucleus in response to heat stress / nuclear pore inner ring / Seh1-associated complex / protein localization to nuclear inner membrane / positive regulation of ER to Golgi vesicle-mediated transport / protein exit from endoplasmic reticulum / COPII-coated vesicle budding / COPII-mediated vesicle transport / transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery / nuclear pore central transport channel / adenyl-nucleotide exchange factor activity / nuclear pore localization / telomere tethering at nuclear periphery / regulation of nucleocytoplasmic transport / regulation of TORC1 signaling / establishment of mitotic spindle localization / nuclear migration along microtubule / nuclear pore organization / nuclear pore complex assembly / nuclear pore outer ring / tRNA export from nucleus / post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery / nuclear pore cytoplasmic filaments / COPII vesicle coat / positive regulation of protein exit from endoplasmic reticulum / nuclear pore nuclear basket / cytoplasmic dynein complex / RNA export from nucleus / protein localization to kinetochore / structural constituent of nuclear pore / silent mating-type cassette heterochromatin formation / nucleocytoplasmic transport / vacuolar membrane / poly(A)+ mRNA export from nucleus / nuclear localization sequence binding / regulation of mitotic nuclear division / NLS-bearing protein import into nucleus / dynein intermediate chain binding / establishment of mitotic spindle orientation / subtelomeric heterochromatin formation / ribosomal small subunit export from nucleus / ribosomal large subunit export from nucleus / Hydrolases; Acting on peptide bonds (peptidases); Serine endopeptidases / positive regulation of TOR signaling / mRNA transport / cytoplasmic microtubule / mRNA export from nucleus / heterochromatin formation / nuclear pore / : / positive regulation of TORC1 signaling / cellular response to amino acid starvation / Neutrophil degranulation / protein export from nucleus / nuclear periphery / chromosome segregation / cell periphery / promoter-specific chromatin binding / phospholipid binding / protein import into nucleus / transcription corepressor activity / double-strand break repair / protein transport / single-stranded DNA binding / nuclear envelope / nuclear membrane / chromosome, telomeric region / molecular adaptor activity / hydrolase activity / cell cycle / cell division / chromatin binding / protein-containing complex binding / endoplasmic reticulum membrane / structural molecule activity / positive regulation of DNA-templated transcription / negative regulation of transcription by RNA polymerase II / endoplasmic reticulum / positive regulation of transcription by RNA polymerase II / DNA binding / RNA binding / identical protein binding / nucleus / cytosol / cytoplasm
Similarity search - Function
Nucleoporin Nup159/Nup146, N-terminal / Nucleoporin or Nuclear pore complex subunit NUP214=Nup159 / RNA-recognition motif (RRM) Nup35-type domain / Nucleoporin, NUP53 / Nucleoporin NUP88/NUP82 / Nup53/35/40-type RNA recognition motif / RNA-recognition motif (RRM) Nup35-type domain profile. / Nuclear pore protein Nup188, C-terminal / Nuclear pore protein NUP188 C-terminal domain / Nucleoporin Nup188, N-terminal ...Nucleoporin Nup159/Nup146, N-terminal / Nucleoporin or Nuclear pore complex subunit NUP214=Nup159 / RNA-recognition motif (RRM) Nup35-type domain / Nucleoporin, NUP53 / Nucleoporin NUP88/NUP82 / Nup53/35/40-type RNA recognition motif / RNA-recognition motif (RRM) Nup35-type domain profile. / Nuclear pore protein Nup188, C-terminal / Nuclear pore protein NUP188 C-terminal domain / Nucleoporin Nup188, N-terminal / Nucleoporin p58/p45 / Nucleoporin Nup188, N-terminal / : / Nucleoporin Nup188, N-terminal subdomain III / Nucleoporin, NSP1-like, C-terminal / Nucleoporin Nup54/Nup57/Nup44 / Nucleoporin Nup54, alpha-helical domain / Nucleoporin NSP1/NUP62 / Nucleoporin Nup188 / Nsp1-like C-terminal region / Nucleoporin complex subunit 54 / Nucleoporin Nup85-like / Nucleoporin Nup120/160 / Nup85 Nucleoporin / Nuclear pore protein 84/107 / Nuclear pore protein 84 / 107 / Nuclear pore complex protein Nup133-like / Nucleoporin, Nup155-like / Nucleoporin, Nup155-like, C-terminal, subdomain 1 / Nucleoporin, Nup155-like, C-terminal, subdomain 2 / Nucleoporin Nup186/Nup192/Nup205 / Nuclear pore complex scaffold, nucleoporins 186/192/205 / Nucleoporin interacting component Nup93/Nic96 / Nup93/Nic96 / Nucleoporin FG repeat / Nucleoporin FG repeat region / Nucleoporin, Nup133/Nup155-like, C-terminal / Non-repetitive/WGA-negative nucleoporin C-terminal / Dynein light chain, type 1/2, conserved site / Dynein light chain type 1 signature. / 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. / Dynein light chain type 1 / Nucleoporin peptidase S59-like / Dynein light chain, type 1/2 / Dynein light chain superfamily / Dynein light chain type 1 / RNA-binding domain superfamily / Nucleotide-binding alpha-beta plait domain superfamily / 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
Nucleoporin NSP1 / Nucleoporin NIC96 / Nucleoporin NUP120 / Nucleoporin NUP133 / Nucleoporin NUP170 / Nucleoporin NUP157 / Nucleoporin NUP82 / Nucleoporin NUP159 / Nucleoporin NUP85 / Nucleoporin NUP192 ...Nucleoporin NSP1 / Nucleoporin NIC96 / Nucleoporin NUP120 / Nucleoporin NUP133 / Nucleoporin NUP170 / Nucleoporin NUP157 / Nucleoporin NUP82 / Nucleoporin NUP159 / Nucleoporin NUP85 / Nucleoporin NUP192 / Nucleoporin NUP57 / Nucleoporin NUP145 / Nucleoporin NUP188 / Nucleoporin NUP84 / Nucleoporin SEH1 / Nucleoporin NUP49/NSP49 / Dynein light chain 1, cytoplasmic / Nucleoporin NUP53 / Protein transport protein SEC13 / Nucleoporin ASM4
Similarity search - Component
Biological speciesSaccharomyces cerevisiae (brewer's yeast) / Baker's yeast (brewer's yeast)
Methodsubtomogram averaging / cryo EM / Resolution: 37.0 Å
AuthorsVilla E / Singh D / Ludtke SJ / Akey CW / Rout MP / Echeverria I / Suslov S
Funding support United States, 7 items
OrganizationGrant numberCountry
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)DP2 GM123494 United States
National Science Foundation (NSF, United States)MRI DBI 1920374 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)P01 GM121203 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01 GM121443 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)P41 GM109824 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01 GM121443 United States
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)R01 GM45377 United States
CitationJournal: Cell / Year: 2022
Title: Comprehensive structure and functional adaptations of the yeast nuclear pore complex.
Authors: Christopher W Akey / Digvijay Singh / Christna Ouch / Ignacia Echeverria / Ilona Nudelman / Joseph M Varberg / Zulin Yu / Fei Fang / Yi Shi / Junjie Wang / Daniel Salzberg / Kangkang Song / ...Authors: Christopher W Akey / Digvijay Singh / Christna Ouch / Ignacia Echeverria / Ilona Nudelman / Joseph M Varberg / Zulin Yu / Fei Fang / Yi Shi / Junjie Wang / Daniel Salzberg / Kangkang Song / Chen Xu / James C Gumbart / Sergey Suslov / Jay Unruh / Sue L Jaspersen / Brian T Chait / Andrej Sali / Javier Fernandez-Martinez / Steven J Ludtke / Elizabeth Villa / Michael P Rout /
Abstract: Nuclear pore complexes (NPCs) mediate the nucleocytoplasmic transport of macromolecules. Here we provide a structure of the isolated yeast NPC in which the inner ring is resolved by cryo-EM at sub- ...Nuclear pore complexes (NPCs) mediate the nucleocytoplasmic transport of macromolecules. Here we provide a structure of the isolated yeast NPC in which the inner ring is resolved by cryo-EM at sub-nanometer resolution to show how flexible connectors tie together different structural and functional layers. These connectors may be targets for phosphorylation and regulated disassembly in cells with an open mitosis. Moreover, some nucleoporin pairs and transport factors have similar interaction motifs, which suggests an evolutionary and mechanistic link between assembly and transport. We provide evidence for three major NPC variants that may foreshadow functional specializations at the nuclear periphery. Cryo-electron tomography extended these studies, providing a model of the in situ NPC with a radially expanded inner ring. Our comprehensive model reveals features of the nuclear basket and central transporter, suggests a role for the lumenal Pom152 ring in restricting dilation, and highlights structural plasticity that may be required for transport.
History
DepositionJun 17, 2021-
Header (metadata) releaseJan 26, 2022-
Map releaseJan 26, 2022-
UpdateFeb 2, 2022-
Current statusFeb 2, 2022Processing site: RCSB / Status: Released

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Structure visualization

Movie
  • Surface view with section colored by density value
  • Surface level: 1950
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by cylindrical radius
  • Surface level: 1950
  • Imaged by UCSF Chimera
  • Download
  • Surface view with fitted model
  • Atomic models: PDB-7n9f
  • Surface level: 1950
  • Imaged by UCSF Chimera
  • Download
  • Simplified surface model + fitted atomic model
  • Atomic modelsPDB-7n9f
  • Imaged by Jmol
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Movie viewer
Structure viewerEM map:
SurfViewMolmilJmol/JSmol
Supplemental images

emd_24258.png

Downloads & links

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Map

FileDownload / File: emd_24258.map.gz / Format: CCP4 / Size: 125 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotationfull in situ NPC map recombined from 90 degree wedge focused alignment
Voxel sizeX=Y=Z: 6.74 Å
Density
Contour LevelBy AUTHOR: 1950.0 / Movie #1: 1950
Minimum - Maximum-3.9280643 - 4082.7712
Average (Standard dev.)1772.1697 (±428.82516)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions320320320
Spacing320320320
CellA=B=C: 2156.7998 Å
α=β=γ: 90.0 °

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z6.746.746.74
M x/y/z320320320
origin x/y/z0.0000.0000.000
length x/y/z2156.8002156.8002156.800
α/β/γ90.00090.00090.000
MAP C/R/S123
start NC/NR/NS000
NC/NR/NS320320320
D min/max/mean-3.9284082.7711772.170

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Supplemental data

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Mask #1

Fileemd_24258_msk_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
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Mask #2

Fileemd_24258_msk_2.map
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AxesZYX

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Mask #3

Fileemd_24258_msk_3.map
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Additional map: zoned 3D map of Nsp1-FG-connections

Fileemd_24258_additional_1.map
Annotationzoned 3D map of Nsp1-FG-connections
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AxesZYX

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Additional map: zoned 3D map of inner ring of spokes

Fileemd_24258_additional_2.map
Annotationzoned 3D map of inner ring of spokes
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AxesZYX

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Additional map: full in situ NPC map recombined from 90...

Fileemd_24258_additional_3.map
Annotationfull in situ NPC map recombined from 90 degree wedge focused alignment and masked to remove central channel density
Projections & Slices
AxesZYX

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Additional map: zoned 3D map of the N-ring

Fileemd_24258_additional_4.map
Annotationzoned 3D map of the N-ring
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Additional map: zoned 3D map of C-ring plus Nup82 complex with 3 Dyn 2 dimers

Fileemd_24258_additional_5.map
Annotationzoned 3D map of C-ring plus Nup82 complex with 3 Dyn 2 dimers
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Additional map: zoned 3D map of Pom152 ring

Fileemd_24258_additional_6.map
Annotationzoned 3D map of Pom152 ring
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AxesZYX

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Additional map: difference map for pore membrane

Fileemd_24258_additional_7.map
Annotationdifference map for pore membrane
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Half map: half map

Fileemd_24258_half_map_1.map
Annotationhalf map
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Half map: half map

Fileemd_24258_half_map_2.map
Annotationhalf map
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Sample components

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Entire : yeast NPC

EntireName: yeast NPC
Components
  • Organelle or cellular component: yeast NPC
    • Protein or peptide: Nucleoporin NUP170
    • Protein or peptide: Nucleoporin NUP157
    • Protein or peptide: orphans bound to Nup192 NTD
    • Protein or peptide: Nucleoporin NSP1
    • Protein or peptide: Nucleoporin NUP57
    • Protein or peptide: Nucleoporin NUP49/NSP49
    • Protein or peptide: Nucleoporin NUP192
    • Protein or peptide: Nucleoporin NUP188
    • Protein or peptide: Nucleoporin NIC96
    • Protein or peptide: Nucleoporin NUP53
    • Protein or peptide: Nucleoporin ASM4
    • Protein or peptide: Nucleoporin NUP82
    • Protein or peptide: Nucleoporin NUP159
    • Protein or peptide: Nucleoporin NUP120
    • Protein or peptide: Nucleoporin NUP85
    • Protein or peptide: Nucleoporin 145c
    • Protein or peptide: Protein transport protein SEC13Protein targeting
    • Protein or peptide: Nucleoporin SEH1
    • Protein or peptide: Nucleoporin NUP84
    • Protein or peptide: Nucleoporin NUP133
    • Protein or peptide: Dynein light chain 1, cytoplasmic

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Supramolecule #1: yeast NPC

SupramoleculeName: yeast NPC / type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: all / Details: Complete yeast NPC from vitrified cells
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 52.0 MDa

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Macromolecule #1: Nucleoporin NUP170

MacromoleculeName: Nucleoporin NUP170 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 169.651969 KDa
SequenceString: MFQSFFHNNG PAAAGETFSD SRSYPLTNHQ EVPRNGLNEL ASSATKAQQQ PTHILNSYPI TGSNPLMRAS AMGATSGSIN PNMSNMNEH IRVSGMGTSK PLDLAGKYID HLQHKDSNTP VLDERSYYNS GVDYNFSREK NGLGAFTPFE KQDVFNIPDE I LHEFSTSQ ...String:
MFQSFFHNNG PAAAGETFSD SRSYPLTNHQ EVPRNGLNEL ASSATKAQQQ PTHILNSYPI TGSNPLMRAS AMGATSGSIN PNMSNMNEH IRVSGMGTSK PLDLAGKYID HLQHKDSNTP VLDERSYYNS GVDYNFSREK NGLGAFTPFE KQDVFNIPDE I LHEFSTSQ TKTDMGIFPE LNRCWITIDN KLILWNINND NEYQVVDDMK HTIQKVALVR PKPNTFVPAV KHLLLISTTM EL FMFAISL DKATNELSVF NTHLSVPVQG IDVIDIVSHE RSGRIFFAGQ ASGLNIWELH YSGSDDWFNS KCSKVCLTKS ALL SLLPTN MLSQIPGVDF IQALFEDNSN GNGGFSQETI TQLTIDQQRG IIYSLSSKST IRAYVITEKS LEGPMSIEPA YISR IIGTT TARAAPILGP KYLKIVKISS VAPEENNNLF LVALTVGGVR LYFNGSMGRF NIEALRLESI KFPPSSVTPE VIQQE LLHQ QQEQAKRSFP FFSNLMSSEP VLLKFQKKSS VLLETTKAST IISPGIFFSA VIKSSQQTHQ QEKKENSSVT GTTATA GSK TVKQQPVTLQ HKLFVSVPDY GILKTHGKYV ENATFLETAG PVQQIIPLSG LFNATTKPQG FANEFATQYT SETLRVA VL TSTSIEIYKY RTPDEIFEDL IDNPLPFVLN YGAAEACSTA LFVTCKSNKS EKLRSNALTF LTMGIPGVVD IKPVYNRY S VSTVSSLLSK PTLSTATTNL QQSITGFSKP SPANKEDFDL DDVILSPRFY GIALLITRLL RDIWGRHVFM TFTDNRVTS HAFISSSDPI TPSINNLKSD EISQNRNIIS KVSISKDCIE YYLSSINILN EFFITYGDSI SQISAPYVLA NNSNGRVIDK TEEVANQAE SIAINAMIKM VQSIKEGLSF LNVLYEESEV EGFDNQYLGF KDIISFVSLD VQKDLVKLDF KDLFAPNDKT K SLIREILL SIINRNITKG ASIEYTATAL QERCGSFCSA SDILGFRAIE HLRRAKEIGL RNYDSLNYHL KNATALLEQI VD DLSIEKL KEAVSMMLSV NYYPKSIEFL LNIANSMDKG KLACQYVANG FLENDDRKQY YDKRILVYDL VFDTLIKVDE LAE KKQSSK TQNQISISND DEVKLRQKSY EAALKYNDRL FHYHMYDWLV SQNREEKLLD IETPFILPYL MEKAGSSLKI SNIL WVYYS RRSKFFESAE ILYRLATSNF DITLFERIEF LSRANGFCNS VSPLSQKQRI VQLASRIQDA CEVAGIQGDI LSLVY TDAR IDSAIKDELI KTLDGKILST SELFNDFAVP LSYHEIALFI FKIADFRDHE VIMAKWDELF QSLRMEFNNT GKKEDS MNF INLLSNVLIK IGKNVQDSEF IFPIFELFPI VCNFFYETLP KEHIVSGSIV SIFITAGVSF NKMYYILKEL IETSDSD NS VFNKEMTWLI HEWYKSDRKF RDIISYNDII HLKEYKIDND PIEKYVKNSG NNLGICFYKE

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Macromolecule #2: Nucleoporin NUP157

MacromoleculeName: Nucleoporin NUP157 / type: protein_or_peptide / ID: 2 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 156.827484 KDa
SequenceString: MYSTPLKKRI DYDRETFTAS ASLGGNRLRN RPRDDQNNGK PNLSSRSFLS ERKTRKDVLN KYGEAGNTIE SELRDVTTHV KISGLTSSE PLQLASEFVQ DLSFRDRNTP ILDNPDYYSK GLDYNFSDEV GGLGAFTPFQ RQQVTNIPDE VLSQVSNTEI K SDMGIFLE ...String:
MYSTPLKKRI DYDRETFTAS ASLGGNRLRN RPRDDQNNGK PNLSSRSFLS ERKTRKDVLN KYGEAGNTIE SELRDVTTHV KISGLTSSE PLQLASEFVQ DLSFRDRNTP ILDNPDYYSK GLDYNFSDEV GGLGAFTPFQ RQQVTNIPDE VLSQVSNTEI K SDMGIFLE LNYCWITSDN KLILWNINNS SEYHCIDEIE HTILKVKLVK PSPNTFVSSV ENLLIVATLF DIYILTISFN DR THELNIF NTGLKVNVTG FNVSNIISYE RTGQIFFTGA TDGVNVWELQ YNCSENLFNS KSNKICLTKS NLANLLPTKL IPS IPGGKL IQKVLEGDAG TEEETISQLE VDQSRGVLHT LSTKSIVRSY LITSNGLVGP VLIDAAHIRR GMNALGVKNS PLLS NRAFK IAKIVSISMC ENNDLFLAVI TTTGVRLYFK GSISRRSIGS LKLDSVKFPP TSISSSLEQN KSFIIGHHPL NTHDT GPLS TQKASSTYIN TTCASTIISP GIYFTCVRKR ANSGELSKGI TNKALLENKE EHKLYVSAPD YGILKNYGKY VENTAL LDT TDEIKEIVPL TRSFNYTSTP QGYANVFASQ YSAEPLKVAV LTSNALEIYC YRTPDEVFES LIENPLPFIH SYGLSEA CS TALYLACKFN KSEHIKSSAL AFFSAGIPGV VEIKPKSSRE SGSVPPISQN LFDKSGECDG IVLSPRFYGS ALLITRLF S QIWEERVFVF KRASKTEKMD AFGISITRPQ VEYYLSSISV LADFFNIHRP SFVSFVPPKG SNAITASDAE SIAMNALIL LINSIKDALS LINVFYEDID AFKSLLNTLM GAGGVYDSKT REYFFDLKFH DLFTPNAKTK QLIKEILIEV VNANIASGTS ADYIVNVLK ERFGSFCHSA DILCYRAGEH LEAAQKFEMI DSKISRNHLD TAIDLYERCA ENIELCELRR VVDIMVKLNY Q PKTVGFLL RFADKIDKGN QAQEYVSRGC NTADPRKVFY DKRINVYTLI FEIVKSVDDY TSIEQSPSIA NISIFSPASS LK KRVYSVI MNSNNRFFHY CFYDWLVANK RQDYLLRLDS QFVLPYLKER AEKSLEISNL LWFYLFKEEH FLEAADVLYA LAS SDFDLK LSERIECLAR ANGLCDSSTS FDQKPALVQL SENIHELFDI ASIQDDLLNL VRNETRIDED YRKQLTLKLN GRVL PLSDL FNDCADPLDY YEIKLRIFKV SQFKDEKVIQ GEWNRLLDSM KNAPSPDVGS VGQESFLSSI SNTLIRIGKT TRDTD VVFP VHFLMNKILE SFIDKSSAAD GSVCSMFLLA GVSHLKLYYI LSRIIENSEG NVELAKKEMV WLIKDWYQSD SDLRGS IAP EQIKKLEKYD PNTDPVQDYV KDRHHGLK

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Macromolecule #3: orphans bound to Nup192 NTD

MacromoleculeName: orphans bound to Nup192 NTD / type: protein_or_peptide / ID: 3 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 3.08179 KDa
SequenceString:
(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK)(UNK) (UNK)(UNK)(UNK) (UNK)(UNK)(UNK)(UNK)

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Macromolecule #4: Nucleoporin NSP1

MacromoleculeName: Nucleoporin NSP1 / type: protein_or_peptide / ID: 4 / Number of copies: 6 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 86.611672 KDa
SequenceString: MNFNTPQQNK TPFSFGTANN NSNTTNQNSS TGAGAFGTGQ STFGFNNSAP NNTNNANSSI TPAFGSNNTG NTAFGNSNPT SNVFGSNNS TTNTFGSNSA GTSLFGSSSA QQTKSNGTAG GNTFGSSSLF NNSTNSNTTK PAFGGLNFGG GNNTTPSSTG N ANTSNNLF ...String:
MNFNTPQQNK TPFSFGTANN NSNTTNQNSS TGAGAFGTGQ STFGFNNSAP NNTNNANSSI TPAFGSNNTG NTAFGNSNPT SNVFGSNNS TTNTFGSNSA GTSLFGSSSA QQTKSNGTAG GNTFGSSSLF NNSTNSNTTK PAFGGLNFGG GNNTTPSSTG N ANTSNNLF GATANANKPA FSFGATTNDD KKTEPDKPAF SFNSSVGNKT DAQAPTTGFS FGSQLGGNKT VNEAAKPSLS FG SGSAGAN PAGASQPEPT TNEPAKPALS FGTATSDNKT TNTTPSFSFG AKSDENKAGA TSKPAFSFGA KPEEKKDDNS SKP AFSFGA KSNEDKQDGT AKPAFSFGAK PAEKNNNETS KPAFSFGAKS DEKKDGDASK PAFSFGAKPD ENKASATSKP AFSF GAKPE EKKDDNSSKP AFSFGAKSNE DKQDGTAKPA FSFGAKPAEK NNNETSKPAF SFGAKSDEKK DGDASKPAFS FGAKS DEKK DSDSSKPAFS FGTKSNEKKD SGSSKPAFSF GAKPDEKKND EVSKPAFSFG AKANEKKESD ESKSAFSFGS KPTGKE EGD GAKAAISFGA KPEEQKSSDT SKPAFTFGAQ KDNEKKTEES STGKSTADVK SSDSLKLNSK PVELKPVSLD NKTLDDL VT KWTNQLTESA SHFEQYTKKI NSWDQVLVKG GEQISQLYSD AVMAEHSQNK IDQSLQYIER QQDELENFLD NFETKTEA L LSDVVSTSSG AAANNNDQKR QQAYKTAQTL DENLNSLSSN LSSLIVEINN VSNTFNKTTN IDINNEDENI QLIKILNSH FDALRSLDDN STSLEKQINS IKK

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Macromolecule #5: Nucleoporin NUP57

MacromoleculeName: Nucleoporin NUP57 / type: protein_or_peptide / ID: 5 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 57.547145 KDa
SequenceString: MFGFSGSNNG FGNKPAGSTG FSFGQNNNNT NTQPSASGFG FGGSQPNSGT ATTGGFGANQ ATNTFGSNQQ SSTGGGLFGN KPALGSLGS SSTTASGTTA TGTGLFGQQT AQPQQSTIGG GLFGNKPTTT TGGLFGNSAQ NNSTTSGGLF GNKVGSTGSL M GGNSTQNT ...String:
MFGFSGSNNG FGNKPAGSTG FSFGQNNNNT NTQPSASGFG FGGSQPNSGT ATTGGFGANQ ATNTFGSNQQ SSTGGGLFGN KPALGSLGS SSTTASGTTA TGTGLFGQQT AQPQQSTIGG GLFGNKPTTT TGGLFGNSAQ NNSTTSGGLF GNKVGSTGSL M GGNSTQNT SNMNAGGLFG AKPQNTTATT GGLFGSKPQG STTNGGLFGS GTQNNNTLGG GGLFGQSQQP QTNTAPGLGN TV STQPSFA WSKPSTGSNL QQQQQQQIQV PLQQTQAIAQ QQQLSNYPQQ IQEQVLKCKE SWDPNTTKTK LRAFVYNKVN ETE AILYTK PGHVLQEEWD QAMEKKPSPQ TIPIQIYGFE GLNQRNQVQT ENVAQARIIL NHILEKSTQL QQKHELDTAS RILK AQSRN VEIEKRILKL GTQLATLKNR GLPLGIAEEK MWSQFQTLLQ RSEDPAGLGK TNELWARLAI LKERAKNISS QLDSK LMVF NDDTKNQDSM SKGTGEESND RINKIVEILT NQQRGITYLN EVLEKDAAIV KKYKNKT

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Macromolecule #6: Nucleoporin NUP49/NSP49

MacromoleculeName: Nucleoporin NUP49/NSP49 / type: protein_or_peptide / ID: 6 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 49.174762 KDa
SequenceString: MFGLNKASST PAGGLFGQAS GASTGNANTG FSFGGTQTGQ NTGPSTGGLF GAKPAGSTGG LGASFGQQQQ QSQTNAFGGS ATTGGGLFG NKPNNTANTG GGLFGANSNS NSGSLFGSNN AQTSRGLFGN NNTNNINNSS SGMNNASAGL FGSKPAGGTS L FGNTSTSS ...String:
MFGLNKASST PAGGLFGQAS GASTGNANTG FSFGGTQTGQ NTGPSTGGLF GAKPAGSTGG LGASFGQQQQ QSQTNAFGGS ATTGGGLFG NKPNNTANTG GGLFGANSNS NSGSLFGSNN AQTSRGLFGN NNTNNINNSS SGMNNASAGL FGSKPAGGTS L FGNTSTSS APAQNQGMFG AKPAGTSLFG NNAGNTTTGG GLFGSKPTGA TSLFGSSNNN NNNNNSNNIM SASGGLFGNQ QQ QLQQQPQ MQCALQNLSQ LPITPMTRIS ELPPQIRQEI EQLDQYIQKQ VQISHHLKAD TIDHDELIDS IPRDVAYLLK SES ATSQYL KQDLKKISSF KSLIDEDLLD TQTFSVLLQQ LLTPGSKISS NDLDKFFQKK IHLYEKKLED YCRILSDIET AVNG IDTDL FGAPNNPNST AITADLGSSE AENLLQLKTG LAAIVSTVIE EFTLFMDIAE RIAVLHQKTK TLASLSI

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Macromolecule #7: Nucleoporin NUP192

MacromoleculeName: Nucleoporin NUP192 / type: protein_or_peptide / ID: 7 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 191.718125 KDa
SequenceString: MKWSAIPFQT LYRSIESGEF DFDLFKEVLP DLQNLNLNTD KLKNNASRSQ LEKGEIELSD GSTFKVNQEF IFEAISLSDE LNLDEIVAC ELILSGDTTA NNGKVQYFLR RQYILQIVSF IVNCFHEDTE LYQELIKNGA LVSNILSAFK FIHTQLSEIK Q QINKAQIL ...String:
MKWSAIPFQT LYRSIESGEF DFDLFKEVLP DLQNLNLNTD KLKNNASRSQ LEKGEIELSD GSTFKVNQEF IFEAISLSDE LNLDEIVAC ELILSGDTTA NNGKVQYFLR RQYILQIVSF IVNCFHEDTE LYQELIKNGA LVSNILSAFK FIHTQLSEIK Q QINKAQIL ENYNALFQQN IKFRRDFLLR EYDILSQILY GLVDKGAIMK NKDFILSLLH HVSELDSNDF FIIYYTPAFF HL FASLRVL PDADVKLLHS QFMKDLKDDS IYTKPVKVAL IFIFFAYFIG WCKEDPKRRA DTMDFKTDVD EPMTSAVELG AIE QILIFA ADTSIVEQDK SMELFYDIRS LLERHIPRLI PKQLLDDEKI FSQTTNSTYN PASATDNMSG RGLWNPSYPG MMST TGTAR LNSMPNNVNE YSYTTIVLSD QTQEFFLSSF DDVLQTIITD CAFLLTKIKD AEEDSLLSGE DLTLDDISLK ADLER FFLS IYFFYASRPE YSCTFWSDKE SNAYGFIEWC SRCNDNLMRS CFYLMVSSLS FGPENALNVY HYFGENSSIS WKNIAQ CLS DYTKKISNFN SSLHKRQQFS ESTHNDIDST AVALEEGLNE EAVIFLSSLL TLVGSVTYQV DEDVKSSLSK VFSDVLF EF TKINTPLVGA AFKVISNLVP KLESSRTKFW SFLDSLIFKD SSLNYSSESY RNAFTNVLTK YSDVLGFLQL FHNLISIH S RENNSEYMVF GKLAFPTRLG QGYRKVGIWP YFDYIFNDIL AHVDQIVDIR NKRAVQLPIL KIIYTGLCSF DYSVILNSI PAAANLDALV DCENFFNYVQ ECPAIPIFNY IFTEKIYKSI FNVVDVGVDQ LSIELEGGKN QAELLQLAVK IINKVLDYQE TYVEELFPI VKKHGKTDYF LPKNYSLHGL RSFYDAIFFN IPLVAHLGLY VGVDDQILAT NSLRILAKLS ERSNGSVASL S KRNKLLTI FDSVDESARI KDAFITQLES SITDAGVLAL KLELLDFLTS NLSNYSRTMT ISHLLLGFQV SNVISLGPNL AT FISSGTS LLDSLISVLE ASLNSITKDN IDYAPMRLAT AALEIILKLC RNPLTSGLLY SYLIKENFFE RIMILDPQVT RFT TWNGSP FDNSTEEKCK NFIESESVGA FLSFLAYRNY WTQYLGLFIH KISFSGTKSE VLTYVNYLIS NTMYSVRLFS FLDP LNYGN ICEPKETLSI FTNVPLNLEQ VTLNKYCSGN IYDFHKMENL MRLIKRVRAE SLHSNSFSLT VSKEQFLKDA DVECI KAKS HFTNIISRNK ALELNLSVLH SWVQLVQIIV TDGKLEPSTR SNFILEVFGT IIPKISDYIE FNITFSEELV SLAVFL FDI YNRDRKLITD KGTVDGRLYQ LFKTCIQGIN SPLSSVALRS DFYILANHYL SRVLSDQVGS EKVLQDLRLG SKKLVEI IW NDVVYGEGTS RVTGILLLDS LIQLANRSKE NFILDSLMKT TRLLLIIRSL KNTDALLNST TEHINIDDLL YELTAFKA T VFFLIRVAET RGGASALIEN NLFRIIAELS FLKVDPDLGL DLMFDEVYVQ NSKFLKVNVT LDNPLLVDKD ANGVSLFEL IVPIFQLISA VLVSMGSSNK AVVQTVKGLL NTYKRLVIGI FKRDLLREKE DKKNSSDPNN QSLNEMVKLI VMLCTLTGYQ NND

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Macromolecule #8: Nucleoporin NUP188

MacromoleculeName: Nucleoporin NUP188 / type: protein_or_peptide / ID: 8 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 188.753281 KDa
SequenceString: MATPSFGNSS PQLTFTHVAN FMNDAAADVS AVDAKQLAQI RQFLKANKTN LIESLNTIRQ NVTSSGDHNK LRSTIANLLQ INVDNDPFF AQSEDLSHAV EFFMSERSSR LHIVYSLLVN PDIDLETYSF IDNDRFNVVG KLISIISSVI QNYDIITASS L AHDYNNDQ ...String:
MATPSFGNSS PQLTFTHVAN FMNDAAADVS AVDAKQLAQI RQFLKANKTN LIESLNTIRQ NVTSSGDHNK LRSTIANLLQ INVDNDPFF AQSEDLSHAV EFFMSERSSR LHIVYSLLVN PDIDLETYSF IDNDRFNVVG KLISIISSVI QNYDIITASS L AHDYNNDQ DMFTIVSLVQ LKKFSDLKFI LQILQILNLM ILNTKVPVDI VNQWFLQYQN QFVEFCRNIN STDKSIDTSS LQ LYKFQNF QDLSYLSETL ISRISSLFTI TTILILGLNT SIAQFDIQSP LYMDTETFDT VNSALENDVA TNIVNEDPIF HPM IHYSWS FILYYRRALQ SSESFDDSDI TKFALFAESH DVLQKLNTLS EILSFDPVYT TVITVFLEFS LNFIPITAST SRVF AKIIS KAPEQFIENF LTNDTFEKKL SIIKAKLPLL NESLIPLINL ALIDTEFANF ELKDICSFAV TKSSLNDLDY DLIAD TITN SSSSSDIIVP DLIELKSDLL VAPPLENENS NCLLSIPKST KGKILTIKQQ QQQQQQQNGQ QPPTTSNLII FLYKFN GWS LVGRILQNLL HSYMEKGTQL DDLQHELMIS IIKLVTNVVD PKTSIEKSSE ILSYLSNSLD TSASTINGAS IIQVIFE IF EISLQRKDYT SIVQCCEFMT MLTPNYLHLV SSYLNKSDLL DKYGKTGLSN MILGSVELST GDYTFTIQLL KLTKVFIR E SLSLKNIHIS KRSKIDIINK LILHAIHIFE SYYNWKYNNF LQKFEIAFHL TLIFYDVLHD VFTINPHQKD QLIISSSAN KLLQLFLTPM DSIDLAPNTL TNILISPLNT TTKILGDKIL GNLYSKVMNN SFKLCTLLIA IRGSNRDLKP SNLEKLLFIN SSKLVDVYT LPSYVHFKVQ IIELLSYLVE APWNDDYPFL LSFLGEAKSM AFLKEVLSDL SSPVQDWNLL RSLYIFFTTL L ESKQDGLS ILFLTGQFAS NKKINDESSI DKKSSILTVL QKNSLLLDST PEEVSCKLLE TITYVLNTWT NSKIFIKDPK FV NSLLAKL KDSKKLFQKK ENLTRDETVS LIKKYKLISR IVEIFALCIY NSTDSNSEIL NFLNQEDLFE LVHHFFQIDG FNK TFHDEL NLKFKEKWPS LELQSFQKIP LSRINENENF GYDIPLLDIV LKADRSWNEP SKSQTNFKEE ITDASLNLQY VNYE ISTAK AWGALITTFV KRSTVPLNDG FVDLVEHFLK LNIDFGSDKQ MFTQIYLERI ELSFYILYSF KLSGKLLKEE KIIEL MNKI FTIFKSGEID FIKNIGKSLK NNFYRPLLRS VLVLLELVSS GDRFIELISD QLLEFFELVF SKGVYLILSE ILCQIN KCS TRGLSTDHTT QIVNLEDNTQ DLLLLLSLFK KITNVNPSKN FNVILASSLN EVGTLKVILN LYSSAHLIRI NDEPILG QI TLTFISELCS IEPIAAKLIN SGLYSVLLES PLSVAIQQGD IKPEFSPRLH NIWSNGLLSI VLLLLSQFGI KVLPETCL F VSYFGKQIKS TIYNWGDNKL AVSSSLIKET NQLVLLQKML NLLNYQELFI QPKNSDDQQE AVELVIGLDS EHDKKRLSA ALSKFLTHPK YLNSRIIPTT LEEQQQLEDE SSRLEFVKGI SRDIKALQDS LFKDV

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Macromolecule #9: Nucleoporin NIC96

MacromoleculeName: Nucleoporin NIC96 / type: protein_or_peptide / ID: 9 / Number of copies: 4 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 96.291586 KDa
SequenceString: MLETLRGNKL HSGTSKGANK KLNELLESSD NLPSASSELG SIQVSINELR RRVFQLRSKN KASKDYTKAH YLLANSGLSF EDVDAFIKD LQTNQFLEPN PPKIIESEEL EFYIRTKKEE NILMSIEQLL NGATKDFDNF INHNLNLDWA QHKNEVMKNF G ILIQDKKT ...String:
MLETLRGNKL HSGTSKGANK KLNELLESSD NLPSASSELG SIQVSINELR RRVFQLRSKN KASKDYTKAH YLLANSGLSF EDVDAFIKD LQTNQFLEPN PPKIIESEEL EFYIRTKKEE NILMSIEQLL NGATKDFDNF INHNLNLDWA QHKNEVMKNF G ILIQDKKT VDHKKSISSL DPKLPSWGNK GNNILNSNES RLNVNENNIL REKFENYARI VFQFNNSRQA NGNFDIANEF IS ILSSANG TRNAQLLESW KILESMKSKD INIVEVGKQY LEQQFLQYTD NLYKKNMNEG LATNVNKIKS FIDTKLKKAD KSW KISNLT VINGVPIWAL IFYLLRAGLI KEALQVLVEN KANIKKVEQS FLTYFKAYAS SKDHGLPVEY STKLHTEYNQ HIKS SLDGD PYRLAVYKLI GRCDLSRKNI PAVTLSIEDW LWMHLMLIKE KDAENDPVYE RYSLEDFQNI IISYGPSRFS NYYLQ TLLL SGLYGLAIDY TYTFSEMDAV HLAIGLASLK LFKIDSSTRL TKKPKRDIRF ANILANYTKS FRYSDPRVAV EYLVLI TLN EGPTDVELCH EALRELVLET KEFTVLLGKI GRDGARIPGV IEERQPLLHV RDEKEFLHTI TEQAARRADE DGRIYDS IL LYQLAEEYDI VITLVNSLLS DTLSASDLDQ PLVGPDDNSE TNPVLLARRM ASIYFDNAGI SRQIHVKNKE ICMLLLNI S SIRELYFNKQ WQETLSQMEL LDLLPFSDEL SARKKAQDFS NLDDNIVKNI PNLLIITLSC ISNMIHILNE SKYQSSTKG QQIDSLKNVA RQCMIYAGMI QYRMPRETYS TLINIDVSL

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Macromolecule #10: Nucleoporin NUP53

MacromoleculeName: Nucleoporin NUP53 / type: protein_or_peptide / ID: 10 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 52.688668 KDa
SequenceString: MADLQKQENS SRFTNVSVIA PESQGQHEQQ KQQEQLEQQK QPTGLLKGLN GFPSAPQPLF MEDPPSTVSG ELNDNPAWFN NPRKRAIPN SIIKRSNGQS LSPVRSDSAD VPAFSNSNGF NNVTFGSKKD PRILKNVSPN DNNSANNNAH SSDLGTVVFD S NEAPPKTS ...String:
MADLQKQENS SRFTNVSVIA PESQGQHEQQ KQQEQLEQQK QPTGLLKGLN GFPSAPQPLF MEDPPSTVSG ELNDNPAWFN NPRKRAIPN SIIKRSNGQS LSPVRSDSAD VPAFSNSNGF NNVTFGSKKD PRILKNVSPN DNNSANNNAH SSDLGTVVFD S NEAPPKTS LADWQKEDGI FSSKTDNIED PNLSSNITFD GKPTATPSPF RPLEKTSRIL NFFDKNTKTT PNTASSEASA GS KEGASTN WDDHAIIIFG YPETIANSII LHFANFGEIL EDFRVIKDFK KLNSKNMSKS PSLTAQKYPI YTGDGWVKLT YKS ELSKSR ALQENGIIMN GTLIGCVSYS PAALKQLASL KKSEEIINNK TSSQTSLSSK DLSNYRKTEG IFEKAKAKAV TSKV RNAEF KVSKNSTSFK NPRRLEIKDG RSLFLRNRGK IHSGVLSSIE SDLKKREQAS KSKKSWLNRL NNWLFGWNDL

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Macromolecule #11: Nucleoporin ASM4

MacromoleculeName: Nucleoporin ASM4 / type: protein_or_peptide / ID: 11 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 58.853902 KDa
SequenceString: MFGIRSGNNN GGFTNLTSQA PQTTQMFQSQ SQLQPQPQPQ PQQQQQHLQF NGSSDASSLR FGNSLSNTVN ANNYSSNIGN NSINNNNIK NGTNNISQHG QGNNPSWVNN PKKRFTPHTV IRRKTTKQNS SSDINQNDDS SSMNATMRNF SKQNQDSKHN E RNKSAANN ...String:
MFGIRSGNNN GGFTNLTSQA PQTTQMFQSQ SQLQPQPQPQ PQQQQQHLQF NGSSDASSLR FGNSLSNTVN ANNYSSNIGN NSINNNNIK NGTNNISQHG QGNNPSWVNN PKKRFTPHTV IRRKTTKQNS SSDINQNDDS SSMNATMRNF SKQNQDSKHN E RNKSAANN DINSLLSNFN DIPPSVTLQD WQREDEFGSI PSLTTQFVTD KYTAKKTNRS AYDSKNTPNV FDKDSYVRIA NI EQNHLDN NYNTAETNNK VHETSSKSSS LSAIIVFGYP ESISNELIEH FSHFGHIMED FQVLRLGRGI NPNTFRIFHN HDT GCDEND STVNKSITLK GRNNESNNKK YPIFTGESWV KLTYNSPSSA LRALQENGTI FRGSLIGCIP YSKNAVEQLA GCKI DNVDD IGEFNVSMYQ NSSTSSTSNT PSPPNVIITD GTLLREDDNT PAGHAGNPTN ISSPIVANSP NKRLDVIDGK LPFMQ NAGP NSNIPNLLRN LESKMRQQEA KYRNNEPAGF THKLSNWLFG WNDL

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Macromolecule #12: Nucleoporin NUP82

MacromoleculeName: Nucleoporin NUP82 / type: protein_or_peptide / ID: 12 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 82.174047 KDa
SequenceString: MSQSSRLSAL PIFQASLSAS QSPRYIFSSQ NGTRIVFIQD NIIRWYNVLT DSLYHSLNFS RHLVLDDTFH VISSTSGDLL CLFNDNEIF VMEVPWGYSN VEDVSIQDAF QIFHYSIDEE EVGPKSSIKK VLFHPKSYRD SCIVVLKEDD TITMFDILNS Q EKPIVLNK ...String:
MSQSSRLSAL PIFQASLSAS QSPRYIFSSQ NGTRIVFIQD NIIRWYNVLT DSLYHSLNFS RHLVLDDTFH VISSTSGDLL CLFNDNEIF VMEVPWGYSN VEDVSIQDAF QIFHYSIDEE EVGPKSSIKK VLFHPKSYRD SCIVVLKEDD TITMFDILNS Q EKPIVLNK PNNSFGLDAR VNDITDLEFS KDGLTLYCLN TTEGGDIFAF YPFLPSVLLL NEKDLNLILN KSLVMYESLD ST TDVIVKR NVIKQLQFVS KLHENWNSRF GKVDIQKEYR LAKVQGPFTI NPFPGELYDY TATNIATILI DNGQNEIVCV SFD DGSLIL LFKDLEMSMS WDVDNYVYNN SLVLIERVKL QREIKSLITL PEQLGKLYVI SDNIIQQVNF MSWASTLSKC INES DLNPL AGLKFESKLE DIATIERIPN LAYINWNDQS NLALMSNKTL TFQNISSDMK PQSTAAETSI STEKSDTVGD GFKMS FTQP INEILILNDN FQKACISPCE RIIPSADRQI PLKNEASENQ LEIFTDISKE FLQRIVKAQT LGVSIHNRIH EQQFEL TRQ LQSTCKIISK DDDLRRKFEA QNKKWDAQLS RQSELMERFS KLSKKLSQIA ESNKFKEKKI SHGEMKWFKE IRNQILQ FN SFVHSQKSLQ QDLSYLKSEL TRIEAETIKV DKKSQNEWDE LRKMLEIDSK IIKECNEELL QVSQEFTTKT Q

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Macromolecule #13: Nucleoporin NUP159

MacromoleculeName: Nucleoporin NUP159 / type: protein_or_peptide / ID: 13 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 159.067188 KDa
SequenceString: MSSLKDEVPT ETSEDFGFKF LGQKQILPSF NEKLPFASLQ NLDISNSKSL FVAASGSKAV VGELQLLRDH ITSDSTPLTF KWEKEIPDV IFVCFHGDQV LVSTRNALYS LDLEELSEFR TVTSFEKPVF QLKNVNNTLV ILNSVNDLSA LDLRTKSTKQ L AQNVTSFD ...String:
MSSLKDEVPT ETSEDFGFKF LGQKQILPSF NEKLPFASLQ NLDISNSKSL FVAASGSKAV VGELQLLRDH ITSDSTPLTF KWEKEIPDV IFVCFHGDQV LVSTRNALYS LDLEELSEFR TVTSFEKPVF QLKNVNNTLV ILNSVNDLSA LDLRTKSTKQ L AQNVTSFD VTNSQLAVLL KDRSFQSFAW RNGEMEKQFE FSLPSELEEL PVEEYSPLSV TILSPQDFLA VFGNVISETD DE VSYDQKM YIIKHIDGSA SFQETFDITP PFGQIVRFPY MYKVTLSGLI EPDANVNVLA SSCSSEVSIW DSKQVIEPSQ DSE RAVLPI SEETDKDTNP IGVAVDVVTS GTILEPCSGV DTIERLPLVY ILNNEGSLQI VGLFHVAAIK SGHYSINLES LEHE KSLSP TSEKIPIAGQ EQEEKKKNNE SSKALSENPF TSANTSGFTF LKTQPAAANS LQSQSSSTFG APSFGSSAFK IDLPS VSST STGVASSEQD ATDPASAKPV FGKPAFGAIA KEPSTSEYAF GKPSFGAPSF GSGKSSVESP ASGSAFGKPS FGTPSF GSG NSSVEPPASG SAFGKPSFGT PSFGSGNSSA EPPASGSAFG KPSFGTSAFG TASSNETNSG SIFGKAAFGS SSFAPAN NE LFGSNFTISK PTVDSPKEVD STSPFPSSGD QSEDESKSDV DSSSTPFGTK PNTSTKPKTN AFDFGSSSFG SGFSKALE S VGSDTTFKFG TQASPFSSQL GNKSPFSSFT KDDTENGSLS KGSTSEINDD NEEHESNGPN VSGNDLTDST VEQTSSTRL PETPSDEDGE VVEEEAQKSP IGKLTETIKK SANIDMAGLK NPVFGNHVKA KSESPFSAFA TNITKPSSTT PAFSFGNSTM NKSNTSTVS PMEEADTKET SEKGPITLKS VENPFLPAKE ERTGESSKKD HNDDPKDGYV SGSEISVRTS ESAFDTTANE E IPKSQDVN NHEKSETDPK YSQHAVVDHD NKSKEMNETS KNNERSGQPN HGVQGDGIAL KKDNEKENFD SNMAIKQFED HQ SSEEDAS EKDSRQSSEV KESDDNMSLN SDRDESISES YDKLEDINTD ELPHGGEAFK AREVSASADF DVQTSLEDNY AES GIQTDL SESSKENEVQ TDAIPVKHNS TQTVKKEAVD NGLQTEPVET CNFSVQTFEG DENYLAEQCK PKQLKEYYTS AKVS NIPFV SQNSTLRLIE STFQTVEAEF TVLMENIRNM DTFFTDQSSI PLVKRTVRSI NNLYTWRIPE AEILLNIQNN IKCEQ MQIT NANIQDLKEK VTDYVRKDIA QITEDVANAK EEYLFLMHFD DASSGYVKDL STHQFRMQKT LRQKLFDVSA KINHTE ELL NILKLFTVKN KRLDDNPLVA KLAKESLARD GLLKEIKLLR EQVSRLQLEE KGKKASSFDA SSSITKDMKG FKVVEVG LA MNTKKQIGDF FKNLNMAK

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Macromolecule #14: Nucleoporin NUP120

MacromoleculeName: Nucleoporin NUP120 / type: protein_or_peptide / ID: 14 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 120.560328 KDa
SequenceString: MACLSRIDAN LLQYYEKPEP NNTVDLYVSN NSNNNGLKEG DKSISTPVPQ PYGSEYSNCL LLSNSEYICY HFSSRSTLLT FYPLSDAYH GKTINIHLPN ASMNQRYTLT IQEVEQQLLV NVILKDGSFL TLQLPLSFLF SSANTLNGEW FHLQNPYDFT V RVPHFLFY ...String:
MACLSRIDAN LLQYYEKPEP NNTVDLYVSN NSNNNGLKEG DKSISTPVPQ PYGSEYSNCL LLSNSEYICY HFSSRSTLLT FYPLSDAYH GKTINIHLPN ASMNQRYTLT IQEVEQQLLV NVILKDGSFL TLQLPLSFLF SSANTLNGEW FHLQNPYDFT V RVPHFLFY VSPQFSVVFL EDGGLLGLKK VDGVHYEPLL FNDNSYLKSL TRFFSRSSKS DYDSVISCKL FHERYLIVLT QN CHLKIWD LTSFTLIQDY DMVSQSDSDP SHFRKVEAVG EYLSLYNNTL VTLLPLENGL FQMGTLLVDS SGILTYTFQN NIP TNLSAS AIWSIVDLVL TRPLELNVEA SYLNLIVLWK SGTASKLQIL NVNDESFKNY EWIESVNKSL VDLQSEHDLD IVTK TGDVE RGFCNLKSRY GTQIFERAQQ ILSENKIIMA HNEDEEYLAN LETILRDVKT AFNEASSITL YGDEIILVNC FQPYN HSLY KLNTTVENWF YNMHSETDGS ELFKYLRTLN GFASTLSNDV LRSISKKFLD IITGELPDSM TTVEKFTDIF KNCLEN QFE ITNLKILFDE LNSFDIPVVL NDLINNQMKP GIFWKKDFIS AIKFDGFTSI ISLESLHQLL SIHYRITLQV LLTFVLF DL DTEIFGQHIS TLLDLHYKQF LLLNLYRQDK CLLAEVLLKD SSEFSFGVKF FNYGQLIAYI DSLNSNVYNA SITENSFF M TFFRSYIIEN TSHKNIRFFL ENVECPFYLR HNEVQEFMFA MTLFSCGNFD QSYEIFQLHD YPEAINDKLP TFLEDLKSE NYHGDSIWKD LLCTFTVPYR HSAFYYQLSL LFDRNNSQEF ALKCISKSAE YSLKEIQIEE LQDFKEKQHI HYLNLLIHFR MFEEVLDVL RLGHECLSDT VRTNFLQLLL QEDIYSRDFF STLLRLCNAH SDNGELYLRT VDIKIVDSIL SQNLRSGDWE C FKKLYCFR MLNKSERAAA EVLYQYILMQ ADLDVIRKRK CYLMVINVLS SFDSAYDQWI LNGSKVVTLT DLRDELRGL

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Macromolecule #15: Nucleoporin NUP85

MacromoleculeName: Nucleoporin NUP85 / type: protein_or_peptide / ID: 15 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 84.972438 KDa
SequenceString: MTIDDSNRLL MDVDQFDFLD DGTAQLSNNK TDEEEQLYKR DPVSGAILVP MTVNDQPIEK NGDKMPLKFK LGPLSYQNMA FITAKDKYK LYPVRIPRLD TSKEFSAYVS GLFEIYRDLG DDRVFNVPTI GVVNSNFAKE HNATVNLAME AILNELEVFI G RVKDQDGR ...String:
MTIDDSNRLL MDVDQFDFLD DGTAQLSNNK TDEEEQLYKR DPVSGAILVP MTVNDQPIEK NGDKMPLKFK LGPLSYQNMA FITAKDKYK LYPVRIPRLD TSKEFSAYVS GLFEIYRDLG DDRVFNVPTI GVVNSNFAKE HNATVNLAME AILNELEVFI G RVKDQDGR VNRFYELEES LTVLNCLRTM YFILDGQDVE ENRSEFIESL LNWINRSDGE PDEEYIEQVF SVKDSTAGKK VF ETQYFWK LLNQLVLRGL LSQAIGCIER SDLLPYLSDT CAVSFDAVSD SIELLKQYPK DSSSTFREWK NLVLKLSQAF GSS ATDISG ELRDYIEDFL LVIGGNQRKI LQYSRTWYES FCGFLLYYIP SLELSAEYLQ MSLEANVVDI TNDWEQPCVD IISG KIHSI LPVMESLDSC TAAFTAMICE AKGLIENIFE GEKNSDDYSN EDNEMLEDLF SYRNGMASYM LNSFAFELCS LGDKE LWPV AIGLIALSAT GTRSAKKMVI AELLPHYPFV TNDDIEWMLS ICVEWRLPEI AKEIYTTLGN QMLSAHNIIE SIANFS RAG KYELVKSYSW LLFEASCMEG QKLDDPVLNA IVSKNSPAED DVIIPQDILD CVVTNSMRQT LAPYAVLSQF YELRDRE DW GQALRLLLLL IEFPYLPKHY LVLLVAKFLY PIFLLDDKKL MDEDSVATVI EVIETKWDDA DEKSSNLYET IIEADKSL P SSMATLLKNL RKKLNFKLCQ AFM

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Macromolecule #16: Nucleoporin 145c

MacromoleculeName: Nucleoporin 145c / type: protein_or_peptide / ID: 16 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Saccharomyces cerevisiae (brewer's yeast)
Molecular weightTheoretical: 81.157852 KDa
SequenceString: SIWGLVNEED AEIDEDDLSK QEDGGEQPLR KVRTLAQSKP SDKEVILKTD GTFGTLSGKD DSIVEEKAYE PDLSDADFEG IEASPKLDV SKDWVEQLIL AGSSLRSVFA TSKEFDGPCQ NEIDLLFSEC NDEIDNAKLI MKERRFTASY TFAKFSTGSM L LTKDIVGK ...String:
SIWGLVNEED AEIDEDDLSK QEDGGEQPLR KVRTLAQSKP SDKEVILKTD GTFGTLSGKD DSIVEEKAYE PDLSDADFEG IEASPKLDV SKDWVEQLIL AGSSLRSVFA TSKEFDGPCQ NEIDLLFSEC NDEIDNAKLI MKERRFTASY TFAKFSTGSM L LTKDIVGK SGVSIKRLPT ELQRKFLFDD VYLDKEIEKV TIEARKSNPY PQISESSLLF KDALDYMEKT SSDYNLWKLS SI LFDPVSY PYKTDNDQVK MALLKKERHC RLTSWIVSQI GPEIEEKIRN SSNEIEQIFL YLLLNDVVRA SKLAIESKNG HLS VLISYL GSNDPRIRDL AELQLQKWST GGCSIDKNIS KIYKLLSGSP FEGLFSLKEL ESEFSWLCLL NLTLCYGQID EYSL ESLVQ SHLDKFSLPY DDPIGVIFQL YAANENTEKL YKEVRQRTNA LDVQFCWYLI QTLRFNGTRV FSKETSDEAT FAFAA QLEF AQLHGHSLFV SCFLNDDKAA EDTIKRLVMR EITLLRASTN DHILNRLKIP SQLIFNAQAL KDRYEGNYLS EVQNLL LGS SYDLAEMAIV TSLGPRLLLS NNPVQNNELK TLREILNEFP DSERDKWSVS INVFEVYLKL VLDNVETQET IDSLISG MK IFYDQYKHCR EVAACCNVMS QEIVSKILEK NNPSIGDSKA KLLELPLGQP EKAYLRGEFA QDLMKCTYKI

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Macromolecule #17: Protein transport protein SEC13

MacromoleculeName: Protein transport protein SEC13 / type: protein_or_peptide / ID: 17 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 33.082965 KDa
SequenceString: MVVIANAHNE LIHDAVLDYY GKRLATCSSD KTIKIFEVEG ETHKLIDTLT GHEGPVWRVD WAHPKFGTIL ASCSYDGKVL IWKEENGRW SQIAVHAVHS ASVNSVQWAP HEYGPLLLVA SSDGKVSVVE FKENGTTSPI IIDAHAIGVN SASWAPATIE E DGEHNGTK ...String:
MVVIANAHNE LIHDAVLDYY GKRLATCSSD KTIKIFEVEG ETHKLIDTLT GHEGPVWRVD WAHPKFGTIL ASCSYDGKVL IWKEENGRW SQIAVHAVHS ASVNSVQWAP HEYGPLLLVA SSDGKVSVVE FKENGTTSPI IIDAHAIGVN SASWAPATIE E DGEHNGTK ESRKFVTGGA DNLVKIWKYN SDAQTYVLES TLEGHSDWVR DVAWSPTVLL RSYLASVSQD RTCIIWTQDN EQ GPWKKTL LKEEKFPDVL WRASWSLSGN VLALSGGDNK VTLWKENLEG KWEPAGEVHQ

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Macromolecule #18: Nucleoporin SEH1

MacromoleculeName: Nucleoporin SEH1 / type: protein_or_peptide / ID: 18 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 39.170758 KDa
SequenceString: MQPFDSGHDD LVHDVVYDFY GRHVATCSSD QHIKVFKLDK DTSNWELSDS WRAHDSSIVA IDWASPEYGR IIASASYDKT VKLWEEDPD QEECSGRRWN KLCTLNDSKG SLYSVKFAPA HLGLKLACLG NDGILRLYDA LEPSDLRSWT LTSEMKVLSI P PANHLQSD ...String:
MQPFDSGHDD LVHDVVYDFY GRHVATCSSD QHIKVFKLDK DTSNWELSDS WRAHDSSIVA IDWASPEYGR IIASASYDKT VKLWEEDPD QEECSGRRWN KLCTLNDSKG SLYSVKFAPA HLGLKLACLG NDGILRLYDA LEPSDLRSWT LTSEMKVLSI P PANHLQSD FCLSWCPSRF SPEKLAVSAL EQAIIYQRGK DGKLHVAAKL PGHKSLIRSI SWAPSIGRWY QLIATGCKDG RI RIFKITE KLSPLASEES LTNSNMFDNS ADVDMDAQGR SDSNTEEKAE LQSNLQVELL SEHDDHNGEV WSVSWNLTGT ILS SAGDDG KVRLWKATYS NEFKCMSVIT AQQ

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Macromolecule #19: Nucleoporin NUP84

MacromoleculeName: Nucleoporin NUP84 / type: protein_or_peptide / ID: 19 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 83.718867 KDa
SequenceString: MELSPTYQTE RFTKFSDTLK EFKIEQNNEQ NPIDPFNIIR EFRSAAGQLA LDLANSGDES NVISSKDWEL EARFWHLVEL LLVFRNADL DLDEMELHPY NSRGLFEKKL MQDNKQLYQI WIVMVWLKEN TYVMERPKNV PTSKWLNSIT SGGLKSCDLD F PLRENTNV ...String:
MELSPTYQTE RFTKFSDTLK EFKIEQNNEQ NPIDPFNIIR EFRSAAGQLA LDLANSGDES NVISSKDWEL EARFWHLVEL LLVFRNADL DLDEMELHPY NSRGLFEKKL MQDNKQLYQI WIVMVWLKEN TYVMERPKNV PTSKWLNSIT SGGLKSCDLD F PLRENTNV LDVKDKEEDH IFFKYIYELI LAGAIDEALE EAKLSDNISI CMILCGIQEY LNPVIDTQIA NEFNTQQGIK KH SLWRRTV YSLSQQAGLD PYERAIYSYL SGAIPNQEVL QYSDWESDLH IHLNQILQTE IENYLLENNQ VGTDELILPL PSH ALTVQE VLNRVASRHP SESEHPIRVL MASVILDSLP SVIHSSVEML LDVVKGTEAS NDIIDKPYLL RIVTHLAICL DIIN PGSVE EVDKSKLITT YISLLKLQGL YENIPIYATF LNESDCLEAC SFILSSLEDP QVRKKQIETI NFLRLPASNI LRRTT QRVF DETEQEYSPS NEISISFDVN NIDMHLIYGV EWLIEGKLYV DAVHSIIALS RRFLLNGRVK ALEQFMERNN IGEICK NYE LEKIADNISK DENEDQFLEE ITQYEHLIKG IREYEEWQKS VSLLSSESNI PTLIEKLQGF SKDTFELIKT FLVDLTS SN FADSADYEIL YEIRALYTPF LLMELHKKLV EAAKLLKIPK FISEALAFTS LVANENDKIY LLFQSSGKLK EYLDLVAR T ATLSN

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Macromolecule #20: Nucleoporin NUP133

MacromoleculeName: Nucleoporin NUP133 / type: protein_or_peptide / ID: 20 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 133.452672 KDa
SequenceString: MSEKKVHLRL RKELSVPIAV VENESLAQLS YEEESQASLM DISMEQQQLR LHSHFDNSKV FTENNRYIVK TLQTDYSSGF SNDDELNGY IDMQIGYGLV NDHKKVYIWN IHSTQKDTPY ITVPFRSDDN DEIAVAPRCI LTFPATMDES PLALNPNDQD E TGGLIIIK ...String:
MSEKKVHLRL RKELSVPIAV VENESLAQLS YEEESQASLM DISMEQQQLR LHSHFDNSKV FTENNRYIVK TLQTDYSSGF SNDDELNGY IDMQIGYGLV NDHKKVYIWN IHSTQKDTPY ITVPFRSDDN DEIAVAPRCI LTFPATMDES PLALNPNDQD E TGGLIIIK GSKAIYYEDI NSINNLNFKL SEKFSHELEL PINSSGGEKC DLMLNCEPAG IVLSTNMGRI FFITIRNSMG KP QLKLGKL LNKPFKLGIW SKIFNTNSSV VSLRNGPILG KGTRLVYITT NKGIFQTWQL SATNSHPTKL IDVNIYEAIL ESL QDLYPF AHGTLKIWDS HPLQDESSQL FLSSIYDSSC NETYYILSTI IFDSSSNSFT IFSTYRLNTF MESITDTKFK PKIF IPQME NANDTNEVTS ILVMFPNAVV ITQVNSKLDS SYSMRRKWED IVSLRNDIDI IGSGYDSKSL YVLTKQMGVL QFFVK ENEE TNSKPEVGFV KSHVDQAVYF SKINANPIDF NLPPEISLDQ ESIEHDLKLT SEEIFHSNGK YIPPMLNTLG QHLSVR KEF FQNFLTFVAK NFNYKISPEL KLDLIEKFEI LNCCIKFNSI IRQSDVLNDI WEKTLSNYNL TQNEHLTTKT VVINSPD VF PVIFKQFLNH VVFVLFPSQN QNFKLNVTNL INLCFYDGIL EEGEKTIRYE LLELDPMEVD TSKLPWFINF DYLNCINQ C FFDFTFACEE EGSLDSYKEG LLKIVKILYY QFNQFKIWIN TQPVKSVNAN DNFININNLY DDNHLDWNHV LCKVNLKEQ CIQIAEFYKD LSGLVQTLQT LDQNDSTTVS LYETFFNEFP KEFSFTLFEY LIKHKKLNDL IFRFPQQHDV LIQFFQESAP KYGHVAWIQ QILDGSYADA MNTLKNITVD DSKKGESLSE CELHLNVAKL SSLLVEKDNL DINTLRKIQY NLDTIDAEKN I SNKLKKGE VQICKRFKNG SIREVFNILV EELKSTTVVN LSDLVELYSM LDDEESLFIP LRLLSVDGNL LNFEVKKFLN AL VWRRIVL LNASNEGDKL LQHIVKRVFD EELPKNNDFP LPSVDLLCDK SLLTPEYISE TYGRFPIDQN AIREEIYEEI SQV ETLNSD NSLEIKLHST IGSVAKEKNY TINYETNTVE Y

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Macromolecule #21: Dynein light chain 1, cytoplasmic

MacromoleculeName: Dynein light chain 1, cytoplasmic / type: protein_or_peptide / ID: 21 / Number of copies: 6 / Enantiomer: LEVO
Source (natural)Organism: Baker's yeast (brewer's yeast)
Molecular weightTheoretical: 10.45698 KDa
SequenceString:
MSDENKSTPI VKASDITDKL KEDILTISKD ALDKYQLERD IAGTVKKQLD VKYGNTWHVI VGKNFGSYVT HEKGHFVYFY IGPLAFLVF KTA

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Experimental details

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Structure determination

Methodcryo EM
Processingsubtomogram averaging
Aggregation statecell

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Sample preparation

BufferpH: 7.5
GridModel: Quantifoil R2/1 / Material: COPPER / Mesh: 200 / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Pressure: 0.039 kPa
VitrificationCryogen name: ETHANE-PROPANE
Details: A custom-built vitrification device (Max Planck Institute for Biochemistry, Munich).
DetailsW303 yeast cells were harvested during log-phase growth and diluted to an 0.8 x 107 cells/mL in YPD media. Five uL of this diluted sample was applied to glow-discharged 200-mesh, Quantafoil R2/1 grids (Electron Microscopy Sciences), excess media was manually blotted from the grid back side (opposite to the carbon substrate where the cells were deposited) and the grid was plunge frozen in a liquid ethane-propane mixture (50/50 volume, Airgas) then cryogenic, FIB milling was performed in an Aquilos DualBeam (Thermo Fisher Scientific)

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Electron microscopy

MicroscopeFEI TITAN KRIOS
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsCalibrated defocus max: 6.0 µm / Calibrated defocus min: 2.5 µm / Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 6.0 µm / Nominal defocus min: 2.5 µm / Nominal magnification: 42000
Specialist opticsEnergy filter - Name: GIF Quantum LS / Energy filter - Slit width: 20 eV
Sample stageCooling holder cryogen: NITROGEN
DetailsTilt series collection: dose-symmetric & bi-directional
Image recordingFilm or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Digitization - Dimensions - Width: 3838 pixel / Digitization - Dimensions - Height: 3708 pixel / Average exposure time: 2.0 sec. / Average electron dose: 4.5 e/Å2
Details: Images were collected in movie-mode at ~8 frames per second
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

ExtractionNumber tomograms: 293 / Number images used: 577 / Method: Manual boxing
Details: The full nuclear pores were manually identified in the tomograms for the manual boxing.
CTF correctionSoftware - Name: EMAN2 (ver. 2.9) / Software - details: e2spt_ctf.py
Details: e2spt_ctf.py was used to identify the precise z height of the particle in the tomogram. This precise height was then used for computing the CTF and performing the CTF correction.
Final angle assignmentType: NOT APPLICABLE
Final reconstructionNumber classes used: 1 / Applied symmetry - Point group: C8 (8 fold cyclic) / Algorithm: FOURIER SPACE / Resolution.type: BY AUTHOR / Resolution: 37.0 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: EMAN2 (ver. 2.9) / Number subtomograms used: 518
DetailsThe tilt images were motion-corrected but not dose-weighted.
FSC plot (resolution estimation)

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Atomic model buiding 1

DetailsManual docking and limited molecular dynamics flexible fitting
RefinementSpace: REAL / Protocol: FLEXIBLE FIT / Target criteria: cross-correlation
Output model

PDB-7n9f:
Structure of the in situ yeast NPC

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