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Protein

Nucleoporin SEH1

Gene

SEH1

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. 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

  • structural constituent of nuclear pore Source: SGD

GO - Biological processi

  • mRNA transport Source: UniProtKB-KW
  • nucleocytoplasmic transport Source: SGD
  • positive regulation of TORC1 signaling Source: SGD
  • 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
Proteomesi
  • UP000002311 Componenti: Chromosome VII

Organism-specific databases

EuPathDBiFungiDB:YGL100W.
SGDiS000003068. SEH1.

Subcellular locationi

GO - Cellular componenti

  • extrinsic component of fungal-type vacuolar membrane Source: SGD
  • nuclear membrane Source: UniProtKB-SubCell
  • nuclear pore Source: SGD
  • nuclear pore outer ring Source: SGD
  • Seh1-associated complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Nuclear pore complex, Nucleus, Vacuole

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000512151 – 349Nucleoporin SEH1Add BLAST349

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei257PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP53011.
PRIDEiP53011.

PTM databases

iPTMnetiP53011.

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
NUP85P466734EBI-16940,EBI-12345
SEA4P381646EBI-16940,EBI-21365

Protein-protein interaction databases

BioGridi33149. 214 interactors.
DIPiDIP-4193N.
IntActiP53011. 28 interactors.
MINTiMINT-547303.

Structurei

Secondary structure

1349
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi12 – 17Combined sources6
Beta strandi19 – 28Combined sources10
Beta strandi31 – 38Combined sources8
Beta strandi40 – 42Combined sources3
Beta strandi45 – 52Combined sources8
Beta strandi58 – 63Combined sources6
Helixi66 – 68Combined sources3
Beta strandi70 – 76Combined sources7
Beta strandi77 – 79Combined sources3
Beta strandi81 – 86Combined sources6
Beta strandi97 – 104Combined sources8
Beta strandi111 – 116Combined sources6
Helixi119 – 121Combined sources3
Beta strandi123 – 129Combined sources7
Beta strandi133 – 138Combined sources6
Beta strandi149 – 156Combined sources8
Beta strandi163 – 165Combined sources3
Beta strandi169 – 173Combined sources5
Beta strandi177 – 179Combined sources3
Beta strandi182 – 187Combined sources6
Beta strandi190 – 196Combined sources7
Beta strandi202 – 207Combined sources6
Beta strandi215 – 220Combined sources6
Beta strandi227 – 235Combined sources9
Beta strandi240 – 247Combined sources8
Beta strandi291 – 300Combined sources10
Beta strandi307 – 312Combined sources6
Beta strandi314 – 316Combined sources3
Beta strandi319 – 323Combined sources5
Beta strandi328 – 333Combined sources6
Beta strandi339 – 345Combined sources7

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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[»]
4XMMX-ray7.38C1-349[»]
ProteinModelPortaliP53011.
SMRiP53011.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP53011.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati7 – 46WD 1Add BLAST40
Repeati53 – 94WD 2Add BLAST42
Repeati106 – 147WD 3Add BLAST42
Repeati153 – 192WD 4Add BLAST40
Repeati210 – 253WD 5Add BLAST44
Repeati302 – 341WD 6Add BLAST40

Sequence similaritiesi

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

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

GeneTreeiENSGT00550000074999.
HOGENOMiHOG000216896.
InParanoidiP53011.
KOiK14299.
OMAiCSSDQHI.
OrthoDBiEOG092C2Z2A.

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. 4 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.
PIRiS62137.
RefSeqiNP_011415.1. NM_001180965.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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[»]
4XMMX-ray7.38C1-349[»]
ProteinModelPortaliP53011.
SMRiP53011.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33149. 214 interactors.
DIPiDIP-4193N.
IntActiP53011. 28 interactors.
MINTiMINT-547303.

Protein family/group databases

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

PTM databases

iPTMnetiP53011.

Proteomic databases

MaxQBiP53011.
PRIDEiP53011.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

EuPathDBiFungiDB:YGL100W.
SGDiS000003068. SEH1.

Phylogenomic databases

GeneTreeiENSGT00550000074999.
HOGENOMiHOG000216896.
InParanoidiP53011.
KOiK14299.
OMAiCSSDQHI.
OrthoDBiEOG092C2Z2A.

Enzyme and pathway databases

BioCyciYEAST:G3O-30600-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP53011.
PROiP53011.

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. 4 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]
ProtoNetiSearch...

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: November 30, 2016
This is version 155 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

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.