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P53011

- SEH1_YEAST

UniProt

P53011 - SEH1_YEAST

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Protein

Nucleoporin SEH1

Gene

SEH1

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. Involved in nuclear poly(A)+ RNA export and NPC biogenesis. It is also required for normal nuclear morphology. Component of the SEA complex which coats the vacuolar membrane and is involved in intracellular trafficking, autophagy, response to nitrogen starvation, and amino acid biogenesis.4 Publications

GO - Molecular functioni

  1. structural constituent of nuclear pore Source: SGD

GO - Biological processi

  1. mRNA transport Source: UniProtKB-KW
  2. nucleocytoplasmic transport Source: SGD
  3. protein transport Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

mRNA transport, Protein transport, Translocation, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-30600-MONOMER.

Protein family/group databases

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

Names & Taxonomyi

Protein namesi
Recommended name:
Nucleoporin SEH1
Alternative name(s):
Nuclear pore protein SEH1
SEC13 homolog 1
Gene namesi
Name:SEH1
Ordered Locus Names:YGL100W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome VII

Organism-specific databases

CYGDiYGL100w.
SGDiS000003068. SEH1.

Subcellular locationi

Nucleusnuclear pore complex 1 Publication. Cell membrane 1 Publication; Peripheral membrane protein 1 Publication; Cytoplasmic side 1 Publication. Vacuole membrane 1 Publication; Peripheral membrane protein 1 Publication. Cell membrane 1 Publication; Peripheral membrane protein 1 Publication; Nucleoplasmic side 1 Publication
Note: Symmetric distribution.

GO - Cellular componenti

  1. fungal-type vacuole membrane Source: SGD
  2. nuclear pore Source: SGD
  3. nuclear pore outer ring Source: SGD
  4. plasma membrane Source: UniProtKB-KW
  5. Seh1-associated complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane, Nuclear pore complex, Nucleus, Vacuole

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 349349Nucleoporin SEH1PRO_0000051215Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei257 – 2571Phosphoserine1 Publication

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP53011.
PaxDbiP53011.
PeptideAtlasiP53011.

Expressioni

Gene expression databases

GenevestigatoriP53011.

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. SEH1 is part of the heptameric 0.5 MDa autoassembling NUP84 NPC subcomplex (NUP84, NUP85, NUP120, NUP133, NUP145C, SEC13 and SEH1). Component of the SEA complex composed of at least IML1/SEA1, RTC1/SEA2, MTC5/SEA3, NPR2, NPR3, SEA4, SEC13 and SEH1.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
NUP85P466733EBI-16940,EBI-12345

Protein-protein interaction databases

BioGridi33149. 214 interactions.
DIPiDIP-4193N.
IntActiP53011. 21 interactions.
MINTiMINT-547303.
STRINGi4932.YGL100W.

Structurei

Secondary structure

1
349
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi12 – 176Combined sources
Beta strandi19 – 2810Combined sources
Beta strandi31 – 388Combined sources
Beta strandi40 – 423Combined sources
Beta strandi45 – 528Combined sources
Beta strandi58 – 636Combined sources
Helixi66 – 683Combined sources
Beta strandi70 – 767Combined sources
Beta strandi77 – 793Combined sources
Beta strandi81 – 866Combined sources
Beta strandi97 – 1048Combined sources
Beta strandi111 – 1166Combined sources
Helixi119 – 1213Combined sources
Beta strandi123 – 1297Combined sources
Beta strandi133 – 1386Combined sources
Beta strandi149 – 1568Combined sources
Beta strandi169 – 1735Combined sources
Beta strandi177 – 1793Combined sources
Beta strandi182 – 1876Combined sources
Beta strandi190 – 1967Combined sources
Beta strandi202 – 2076Combined sources
Beta strandi215 – 2206Combined sources
Beta strandi227 – 2359Combined sources
Beta strandi240 – 2478Combined sources
Beta strandi291 – 30010Combined sources
Beta strandi307 – 3126Combined sources
Beta strandi314 – 3163Combined sources
Beta strandi319 – 3235Combined sources
Beta strandi328 – 3336Combined sources
Beta strandi339 – 3457Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
3EWEX-ray3.50A/C1-349[»]
3F3FX-ray2.90A/B/E/F1-349[»]
3F3GX-ray3.75A/B/E/F1-349[»]
3F3PX-ray3.20A/B/E/F/I/J1-349[»]
ProteinModelPortaliP53011.
SMRiP53011. Positions 1-349.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP53011.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati7 – 4640WD 1Add
BLAST
Repeati53 – 9442WD 2Add
BLAST
Repeati106 – 14742WD 3Add
BLAST
Repeati153 – 19240WD 4Add
BLAST
Repeati210 – 25344WD 5Add
BLAST
Repeati302 – 34140WD 6Add
BLAST

Sequence similaritiesi

Belongs to the WD repeat SEC13 family.Curated
Contains 6 WD repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiCOG2319.
GeneTreeiENSGT00550000074999.
HOGENOMiHOG000216896.
InParanoidiP53011.
KOiK14299.
OMAiYEAPDIM.
OrthoDBiEOG7TQVBP.

Family and domain databases

Gene3Di2.130.10.10. 3 hits.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 5 hits.
[Graphical view]
SMARTiSM00320. WD40. 5 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 2 hits.
PROSITEiPS50082. WD_REPEATS_2. 3 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P53011-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MQPFDSGHDD LVHDVVYDFY GRHVATCSSD QHIKVFKLDK DTSNWELSDS
60 70 80 90 100
WRAHDSSIVA IDWASPEYGR IIASASYDKT VKLWEEDPDQ EECSGRRWNK
110 120 130 140 150
LCTLNDSKGS LYSVKFAPAH LGLKLACLGN DGILRLYDAL EPSDLRSWTL
160 170 180 190 200
TSEMKVLSIP PANHLQSDFC LSWCPSRFSP EKLAVSALEQ AIIYQRGKDG
210 220 230 240 250
KLHVAAKLPG HKSLIRSISW APSIGRWYQL IATGCKDGRI RIFKITEKLS
260 270 280 290 300
PLASEESLTN SNMFDNSADV DMDAQGRSDS NTEEKAELQS NLQVELLSEH
310 320 330 340
DDHNGEVWSV SWNLTGTILS SAGDDGKVRL WKATYSNEFK CMSVITAQQ
Length:349
Mass (Da):39,123
Last modified:October 1, 1996 - v1
Checksum:iEAF75B9DE074106B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X90994 Genomic DNA. Translation: CAA62480.1.
Z72622 Genomic DNA. Translation: CAA96806.1.
AY558497 Genomic DNA. Translation: AAS56823.1.
BK006941 Genomic DNA. Translation: DAA08006.1.
PIRiS62137.
RefSeqiNP_011415.1. NM_001180965.1.

Genome annotation databases

EnsemblFungiiYGL100W; YGL100W; YGL100W.
GeneIDi852778.
KEGGisce:YGL100W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X90994 Genomic DNA. Translation: CAA62480.1 .
Z72622 Genomic DNA. Translation: CAA96806.1 .
AY558497 Genomic DNA. Translation: AAS56823.1 .
BK006941 Genomic DNA. Translation: DAA08006.1 .
PIRi S62137.
RefSeqi NP_011415.1. NM_001180965.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
3EWE X-ray 3.50 A/C 1-349 [» ]
3F3F X-ray 2.90 A/B/E/F 1-349 [» ]
3F3G X-ray 3.75 A/B/E/F 1-349 [» ]
3F3P X-ray 3.20 A/B/E/F/I/J 1-349 [» ]
ProteinModelPortali P53011.
SMRi P53011. Positions 1-349.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 33149. 214 interactions.
DIPi DIP-4193N.
IntActi P53011. 21 interactions.
MINTi MINT-547303.
STRINGi 4932.YGL100W.

Protein family/group databases

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

Proteomic databases

MaxQBi P53011.
PaxDbi P53011.
PeptideAtlasi P53011.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblFungii YGL100W ; YGL100W ; YGL100W .
GeneIDi 852778.
KEGGi sce:YGL100W.

Organism-specific databases

CYGDi YGL100w.
SGDi S000003068. SEH1.

Phylogenomic databases

eggNOGi COG2319.
GeneTreei ENSGT00550000074999.
HOGENOMi HOG000216896.
InParanoidi P53011.
KOi K14299.
OMAi YEAPDIM.
OrthoDBi EOG7TQVBP.

Enzyme and pathway databases

BioCyci YEAST:G3O-30600-MONOMER.

Miscellaneous databases

EvolutionaryTracei P53011.
NextBioi 972254.
PROi P53011.

Gene expression databases

Genevestigatori P53011.

Family and domain databases

Gene3Di 2.130.10.10. 3 hits.
InterProi IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view ]
Pfami PF00400. WD40. 5 hits.
[Graphical view ]
SMARTi SM00320. WD40. 5 hits.
[Graphical view ]
SUPFAMi SSF50978. SSF50978. 2 hits.
PROSITEi PS50082. WD_REPEATS_2. 3 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "A novel complex of nucleoporins, which includes Sec13p and a Sec13p homolog, is essential for normal nuclear pores."
    Siniossoglou S., Wimmer C., Rieger M., Doye V., Tekotte H., Weise C., Emig S., Segref A., Hurt E.C.
    Cell 84:265-275(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 116-121 AND 136-146, FUNCTION IN NUCLEAR MRNA EXPORT.
  2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome VII."
    Tettelin H., Agostoni-Carbone M.L., Albermann K., Albers M., Arroyo J., Backes U., Barreiros T., Bertani I., Bjourson A.J., Brueckner M., Bruschi C.V., Carignani G., Castagnoli L., Cerdan E., Clemente M.L., Coblenz A., Coglievina M., Coissac E.
    , Defoor E., Del Bino S., Delius H., Delneri D., de Wergifosse P., Dujon B., Durand P., Entian K.-D., Eraso P., Escribano V., Fabiani L., Fartmann B., Feroli F., Feuermann M., Frontali L., Garcia-Gonzalez M., Garcia-Saez M.I., Goffeau A., Guerreiro P., Hani J., Hansen M., Hebling U., Hernandez K., Heumann K., Hilger F., Hofmann B., Indge K.J., James C.M., Klima R., Koetter P., Kramer B., Kramer W., Lauquin G., Leuther H., Louis E.J., Maillier E., Marconi A., Martegani E., Mazon M.J., Mazzoni C., McReynolds A.D.K., Melchioretto P., Mewes H.-W., Minenkova O., Mueller-Auer S., Nawrocki A., Netter P., Neu R., Nombela C., Oliver S.G., Panzeri L., Paoluzi S., Plevani P., Portetelle D., Portillo F., Potier S., Purnelle B., Rieger M., Riles L., Rinaldi T., Robben J., Rodrigues-Pousada C., Rodriguez-Belmonte E., Rodriguez-Torres A.M., Rose M., Ruzzi M., Saliola M., Sanchez-Perez M., Schaefer B., Schaefer M., Scharfe M., Schmidheini T., Schreer A., Skala J., Souciet J.-L., Steensma H.Y., Talla E., Thierry A., Vandenbol M., van der Aart Q.J.M., Van Dyck L., Vanoni M., Verhasselt P., Voet M., Volckaert G., Wambutt R., Watson M.D., Weber N., Wedler E., Wedler H., Wipfli P., Wolf K., Wright L.F., Zaccaria P., Zimmermann M., Zollner A., Kleine K.
    Nature 387:81-84(1997) [PubMed] [Europe PMC] [Abstract]
    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. "Modular self-assembly of a Y-shaped multiprotein complex from seven nucleoporins."
    Lutzmann M., Kunze R., Buerer A., Aebi U., Hurt E.C.
    EMBO J. 21:387-397(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, NUP84 NPC SUBCOMPLEX ASSEMBLY/STRUCTURE.
  7. "Genome-wide nuclear morphology screen identifies novel genes involved in nuclear architecture and gene-silencing in Saccharomyces cerevisiae."
    Teixeira M.T., Dujon B., Fabre E.
    J. Mol. Biol. 321:551-561(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, NUCLEAR MORPHOLOGY.
  8. "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.
  9. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  10. "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-257, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  11. "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: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  12. "A conserved coatomer-related complex containing Sec13 and Seh1 dynamically associates with the vacuole in Saccharomyces cerevisiae."
    Dokudovskaya S., Waharte F., Schlessinger A., Pieper U., Devos D.P., Cristea I.M., Williams R., Salamero J., Chait B.T., Sali A., Field M.C., Rout M.P., Dargemont C.
    Mol. Cell. Proteomics 10:M110.006478.1-M110.006478.17(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION, IDENTIFICATION IN THE SEA COMPLEX, FUNCTION.

Entry informationi

Entry nameiSEH1_YEAST
AccessioniPrimary (citable) accession number: P53011
Secondary accession number(s): D6VU45
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: October 29, 2014
This is version 136 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 952 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome VII
    Yeast (Saccharomyces cerevisiae) chromosome VII: entries and gene names

External Data

Dasty 3