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Protein

Nucleoporin NUP60

Gene

NUP60

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Functions as a component of the nuclear pore complex (NPC). NPC components, collectively referred to as nucleoporins (NUPs), can play the role of both NPC structural components and of docking or interaction partners for transiently associated nuclear transport factors. Active directional transport is assured by both, a Phe-Gly (FG) repeat affinity gradient for these transport factors across the NPC and a transport cofactor concentration gradient across the nuclear envelope (GSP1 and GSP2 GTPases associated predominantly with GTP in the nucleus, with GDP in the cytoplasm).4 Publications

GO - Molecular functioni

  • nucleocytoplasmic transporter activity Source: SGD
  • phospholipid binding Source: SGD
  • structural constituent of nuclear pore Source: SGD

GO - Biological processi

  • chromatin silencing at silent mating-type cassette Source: SGD
  • chromosome organization Source: SGD
  • double-strand break repair Source: SGD
  • intracellular mRNA localization Source: SGD
  • mRNA export from nucleus in response to heat stress Source: SGD
  • NLS-bearing protein import into nucleus Source: SGD
  • nucleocytoplasmic transport Source: SGD
  • poly(A)+ mRNA export from nucleus Source: SGD
  • posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery Source: SGD
  • protein export from nucleus Source: SGD
  • regulation of protein desumoylation Source: SGD
  • telomere tethering at nuclear periphery Source: SGD
  • transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery Source: SGD
Complete GO annotation...

Keywords - Biological processi

mRNA transport, Protein transport, Translocation, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-28867-MONOMER.

Protein family/group databases

TCDBi1.I.1.1.1. the nuclear pore complex (npc) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Nucleoporin NUP60
Alternative name(s):
Nuclear pore protein NUP60
Gene namesi
Name:NUP60
Synonyms:FUN17
Ordered Locus Names:YAR002W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome I

Organism-specific databases

EuPathDBiFungiDB:YAR002W.
SGDiS000000063. NUP60.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: SGD
  • nuclear membrane Source: UniProtKB-SubCell
  • nuclear pore Source: SGD
  • nuclear pore central transport channel Source: SGD
  • nuclear pore nuclear basket Source: SGD
  • nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Nuclear pore complex, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002048791 – 539Nucleoporin NUP60Add BLAST539

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei10PhosphoserineCombined sources1
Modified residuei49PhosphoserineCombined sources1
Modified residuei81PhosphoserineCombined sources1
Modified residuei89PhosphoserineCombined sources1
Modified residuei162PhosphoserineCombined sources1
Modified residuei171PhosphoserineCombined sources1
Modified residuei214PhosphoserineCombined sources1
Modified residuei222PhosphoserineCombined sources1
Modified residuei352PhosphoserineCombined sources1
Modified residuei360PhosphoserineCombined sources1
Modified residuei374PhosphoserineCombined sources1
Modified residuei382PhosphoserineCombined sources1
Modified residuei460PhosphothreonineCombined sources1
Modified residuei480PhosphoserineCombined sources1
Modified residuei483PhosphoserineCombined sources1

Post-translational modificationi

Phosphorylated by CDC28.1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP39705.
PRIDEiP39705.

PTM databases

iPTMnetiP39705.

Interactioni

Subunit structurei

The nuclear pore complex (NPC) constitutes the exclusive means of nucleocytoplasmic transport. NPCs allow the passive diffusion of ions and small molecules and the active, nuclear transport receptor-mediated bidirectional transport of macromolecules such as proteins, RNAs, ribonucleoparticles (RNPs), and ribosomal subunits across the nuclear envelope. The 55-60 MDa NPC is composed of at least 31 different subunits: ASM4, CDC31, GLE1, GLE2, NDC1, NIC96, NSP1, NUP1, NUP2, NUP100, NUP116, NUP120, NUP133, NUP145, NUP157, NUP159, NUP170, NUP188, NUP192, NUP42, NUP49, NUP53, NUP57, NUP60, NUP82, NUP84, NUP85, POM152, POM34, SEH1 and SEC1. Due to its 8-fold rotational symmetry, all subunits are present with 8 copies or multiples thereof. Binds to NUP1 and NUP2 forming the nuclear basket and the distal ring. The interaction with NUP2 is GSP1-GTP-dependent. Interacts through its FG repeats with karyopherins, such as KAP123 and KAP95-SRP1 (KAP60). Also interacts with GSP1-GTP and SRM1 (PRP20), where NUP60 reduces SRM1 activity, thus inhibiting GSP1 guanine nucleotide dissociation.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
KAP95Q061424EBI-20731,EBI-9145
NUP2P324992EBI-20731,EBI-12401

Protein-protein interaction databases

BioGridi31790. 220 interactors.
DIPiDIP-5821N.
IntActiP39705. 12 interactors.
MINTiMINT-629603.

Structurei

3D structure databases

ProteinModelPortaliP39705.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati399 – 401FXF 13
Repeati427 – 429FXF 23
Repeati469 – 471FXF 33
Repeati509 – 511FXF 43

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili91 – 118Sequence analysisAdd BLAST28

Domaini

Contains FG repeats. FG repeats are interaction sites for karyopherins (importins, exportins) and form probably an affinity gradient, guiding the transport proteins unidirectionally with their cargo through the NPC. FG repeat regions are highly flexible and lack ordered secondary structure. The overall conservation of FG repeats regarding exact sequence, spacing, and repeat unit length is limited. FG repeat types and their physico-chemical environment change across the NPC from the nucleoplasmic to the cytoplasmic side.

Keywords - Domaini

Coiled coil, Repeat

Phylogenomic databases

InParanoidiP39705.
KOiK18718.
OMAiETHETNI.
OrthoDBiEOG092C2FN5.

Sequencei

Sequence statusi: Complete.

P39705-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MHRKSLRRAS ATVPSAPYRK QIISNAHNKP SLFSKIKTFF TQKDSARVSP
60 70 80 90 100
RNNVANKQPR NESFNRRISS MPGGYFHSEI SPDSTVNRSV VVSAVGEARN
110 120 130 140 150
DIENKEEEYD ETHETNISNA KLANFFSKKG NEPLSEIEIE GVMSLLQKSS
160 170 180 190 200
KSMITSEGEQ KSAEGNNIDQ SLILKESGST PISISNAPTF NPKYDTSNAS
210 220 230 240 250
MNTTLGSIGS RKYSFNYSSL PSPYKTTVYR YSAAKKIPDT YTANTSAQSI
260 270 280 290 300
ASAKSVRSGV SKSAPSKKIS NTAAALVSLL DENDSKKNNA ASELANPYSS
310 320 330 340 350
YVSQIRKHKR VSPNAAPRQE ISEEETTVKP LFQNVPEQGE EPMKQLNATK
360 370 380 390 400
ISPSAPSKDS FTKYKPARSS SLRSNVVVAE TSPEKKDGGD KPPSSAFNFS
410 420 430 440 450
FNTSRNVEPT ENAYKSENAP SASSKEFNFT NLQAKPLVGK PKTELTKGDS
460 470 480 490 500
TPVQPDLSVT PQKSSSKGFV FNSVQKKSRS NLSQENDNEG KHISASIDND
510 520 530
FSEEKAEEFD FNVPVVSKQL GNGLVDENKV EAFKSLYTF
Length:539
Mass (Da):59,039
Last modified:February 1, 1995 - v1
Checksum:iB9A28494A358A3E3
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L22015 Genomic DNA. Translation: AAC04957.1.
AY692943 Genomic DNA. Translation: AAT92962.1.
BK006935 Genomic DNA. Translation: DAA06986.1.
PIRiS40900.
RefSeqiNP_009401.1. NM_001178209.1.

Genome annotation databases

EnsemblFungiiYAR002W; YAR002W; YAR002W.
GeneIDi851263.
KEGGisce:YAR002W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L22015 Genomic DNA. Translation: AAC04957.1.
AY692943 Genomic DNA. Translation: AAT92962.1.
BK006935 Genomic DNA. Translation: DAA06986.1.
PIRiS40900.
RefSeqiNP_009401.1. NM_001178209.1.

3D structure databases

ProteinModelPortaliP39705.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31790. 220 interactors.
DIPiDIP-5821N.
IntActiP39705. 12 interactors.
MINTiMINT-629603.

Protein family/group databases

TCDBi1.I.1.1.1. the nuclear pore complex (npc) family.

PTM databases

iPTMnetiP39705.

Proteomic databases

MaxQBiP39705.
PRIDEiP39705.

Protocols and materials databases

DNASUi851263.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYAR002W; YAR002W; YAR002W.
GeneIDi851263.
KEGGisce:YAR002W.

Organism-specific databases

EuPathDBiFungiDB:YAR002W.
SGDiS000000063. NUP60.

Phylogenomic databases

InParanoidiP39705.
KOiK18718.
OMAiETHETNI.
OrthoDBiEOG092C2FN5.

Enzyme and pathway databases

BioCyciYEAST:G3O-28867-MONOMER.

Miscellaneous databases

PROiP39705.

Family and domain databases

ProtoNetiSearch...

Entry informationi

Entry nameiNUP60_YEAST
AccessioniPrimary (citable) accession number: P39705
Secondary accession number(s): D6VPL6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: November 2, 2016
This is version 142 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 4590 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  2. Yeast chromosome I
    Yeast (Saccharomyces cerevisiae) chromosome I: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.