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P39705

- NUP60_YEAST

UniProt

P39705 - NUP60_YEAST

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Protein

Nucleoporin NUP60

Gene

NUP60

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - 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

  1. nucleocytoplasmic transporter activity Source: SGD
  2. phospholipid binding Source: SGD
  3. structural constituent of nuclear pore Source: SGD

GO - Biological processi

  1. chromatin silencing at silent mating-type cassette Source: SGD
  2. chromosome organization Source: SGD
  3. double-strand break repair Source: SGD
  4. intracellular mRNA localization Source: SGD
  5. mRNA export from nucleus in response to heat stress Source: SGD
  6. NLS-bearing protein import into nucleus Source: SGD
  7. nucleocytoplasmic transport Source: SGD
  8. poly(A)+ mRNA export from nucleus Source: SGD
  9. posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery Source: SGD
  10. protein export from nucleus Source: SGD
  11. regulation of protein desumoylation Source: SGD
  12. telomere tethering at nuclear periphery Source: SGD
  13. 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
ProteomesiUP000002311: Chromosome I

Organism-specific databases

CYGDiYAR002w.
SGDiS000000063. NUP60.

Subcellular locationi

GO - Cellular componenti

  1. cytosol Source: SGD
  2. nuclear pore Source: SGD
  3. nuclear pore central transport channel Source: SGD
  4. nuclear pore nuclear basket Source: SGD
  5. nucleus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Nuclear pore complex, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 539539Nucleoporin NUP60PRO_0000204879Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei10 – 101Phosphoserine4 Publications
Modified residuei49 – 491Phosphoserine1 Publication
Modified residuei81 – 811Phosphoserine3 Publications
Modified residuei89 – 891Phosphoserine1 Publication
Modified residuei162 – 1621Phosphoserine1 Publication
Modified residuei171 – 1711Phosphoserine1 Publication
Modified residuei214 – 2141Phosphoserine1 Publication
Modified residuei222 – 2221Phosphoserine1 Publication
Modified residuei352 – 3521Phosphoserine2 Publications
Modified residuei360 – 3601Phosphoserine1 Publication
Modified residuei374 – 3741Phosphoserine1 Publication
Modified residuei382 – 3821Phosphoserine1 Publication
Modified residuei460 – 4601Phosphothreonine1 Publication
Modified residuei480 – 4801Phosphoserine1 Publication
Modified residuei483 – 4831Phosphoserine1 Publication

Post-translational modificationi

Phosphorylated by CDC28.5 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP39705.
PaxDbiP39705.
PeptideAtlasiP39705.

Expressioni

Gene expression databases

GenevestigatoriP39705.

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. 207 interactions.
DIPiDIP-5821N.
IntActiP39705. 12 interactions.
MINTiMINT-629603.
STRINGi4932.YAR002W.

Structurei

3D structure databases

ProteinModelPortaliP39705.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati399 – 4013FXF 1
Repeati427 – 4293FXF 2
Repeati469 – 4713FXF 3
Repeati509 – 5113FXF 4

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili91 – 11828Sequence AnalysisAdd
BLAST

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

eggNOGiNOG79863.
InParanoidiP39705.
OMAiHISASID.
OrthoDBiEOG76HQCM.

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 .
PIRi S40900.
RefSeqi NP_009401.1. NM_001178209.1.

3D structure databases

ProteinModelPortali P39705.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 31790. 207 interactions.
DIPi DIP-5821N.
IntActi P39705. 12 interactions.
MINTi MINT-629603.
STRINGi 4932.YAR002W.

Protein family/group databases

TCDBi 1.I.1.1.1. the nuclear pore complex (npc) family.

Proteomic databases

MaxQBi P39705.
PaxDbi P39705.
PeptideAtlasi P39705.

Protocols and materials databases

DNASUi 851263.
Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YAR002W ; YAR002W ; YAR002W .
GeneIDi 851263.
KEGGi sce:YAR002W.

Organism-specific databases

CYGDi YAR002w.
SGDi S000000063. NUP60.

Phylogenomic databases

eggNOGi NOG79863.
InParanoidi P39705.
OMAi HISASID.
OrthoDBi EOG76HQCM.

Enzyme and pathway databases

BioCyci YEAST:G3O-28867-MONOMER.

Miscellaneous databases

NextBioi 968225.

Gene expression databases

Genevestigatori P39705.

Family and domain databases

ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "Sequencing of chromosome I of Saccharomyces cerevisiae: analysis of the 42 kbp SPO7-CENI-CDC15 region."
    Clark M.W., Keng T., Storms R.K., Zhong W.-W., Fortin N., Zeng B., Delaney S., Ouellette B.F.F., Barton A.B., Kaback D.B., Bussey H.
    Yeast 10:535-541(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204511 / S288c / AB972.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  5. "The yeast nuclear pore complex: composition, architecture, and transport mechanism."
    Rout M.P., Aitchison J.D., Suprapto A., Hjertaas K., Zhao Y., Chait B.T.
    J. Cell Biol. 148:635-651(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION, NPC SUBUNIT LOCATION.
  6. "Proteomic analysis of nucleoporin interacting proteins."
    Allen N.P., Huang L., Burlingame A., Rexach M.
    J. Biol. Chem. 276:29268-29274(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, NUCLEOPORIN INTERACTING PROTEINS.
  7. "The nucleoporin Nup60p functions as a Gsp1p-GTP-sensitive tether for Nup2p at the nuclear pore complex."
    Denning D.P., Mykytka B., Allen N.P., Huang L., Burlingame A., Rexach M.
    J. Cell Biol. 154:937-950(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH GSP1-GTP; NUP2; SRM1; KAP123 AND KAP95-SRP1.
  8. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  9. "Disorder in the nuclear pore complex: the FG repeat regions of nucleoporins are natively unfolded."
    Denning D.P., Patel S.S., Uversky V., Fink A.L., Rexach M.
    Proc. Natl. Acad. Sci. U.S.A. 100:2450-2455(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, FG REPEAT STRUCTURE.
  10. "Minimal nuclear pore complexes define FG repeat domains essential for transport."
    Strawn L.A., Shen T.X., Shulga N., Goldfarb D.S., Wente S.R.
    Nat. Cell Biol. 6:197-206(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, FG REPEATS IN NPC TRANSPORT.
  11. "Peering through the pore: nuclear pore complex structure, assembly, and function."
    Suntharalingam M., Wente S.R.
    Dev. Cell 4:775-789(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: REVIEW.
  12. Cited for: PHOSPHORYLATION BY CDC28.
  13. "Quantitative phosphoproteomics applied to the yeast pheromone signaling pathway."
    Gruhler A., Olsen J.V., Mohammed S., Mortensen P., Faergeman N.J., Mann M., Jensen O.N.
    Mol. Cell. Proteomics 4:310-327(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Strain: YAL6B.
  14. "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae."
    Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P.
    J. Proteome Res. 6:1190-1197(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-10 AND SER-81, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Strain: ADR376.
  15. "Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry."
    Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F.
    Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-10; SER-49; SER-360; SER-374; SER-480 AND SER-483, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  16. "A multidimensional chromatography technology for in-depth phosphoproteome analysis."
    Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H.
    Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-10; SER-81; SER-352 AND THR-460, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  17. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
    Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
    Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-10; SER-81; SER-89; SER-162; SER-171; SER-214; SER-222; SER-352 AND SER-382, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

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: October 29, 2014
This is version 123 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

External Data

Dasty 3