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Protein

Protein transport protein SEC13

Gene

SEC13

Organism
Komagataella pastoris (strain GS115 / ATCC 20864) (Yeast) (Pichia pastoris)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at protein leveli

Functioni

Component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). The coat has two main functions, the physical deformation of the endoplasmic reticulum membrane into vesicles and the selection of cargo molecules. It also 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. SEC13 is required for efficient mRNA export from the nucleus to the cytoplasm and for correct nuclear pore biogenesis and distribution (By similarity).By similarity

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

ER-Golgi transport, mRNA transport, Protein transport, Translocation, Transport

Names & Taxonomyi

Protein namesi
Recommended name:
Protein transport protein SEC13
Gene namesi
Name:SEC13
Ordered Locus Names:PAS_chr1-3_0057
OrganismiKomagataella pastoris (strain GS115 / ATCC 20864) (Yeast) (Pichia pastoris)
Taxonomic identifieri644223 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesPhaffomycetaceaeKomagataella
Proteomesi
  • UP000000314 Componenti: Chromosome 1

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasmic vesicle, Endoplasmic reticulum, Membrane, Nuclear pore complex, Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 289289Protein transport protein SEC13PRO_0000051205Add
BLAST

Interactioni

Subunit structurei

The COPII coat is composed of at least 5 proteins: the SEC23/24 complex, the SEC13/31 complex, and the protein SAR1. Also component of the nuclear pore (By similarity).By similarity

Protein-protein interaction databases

IntActiP53024. 5 interactions.
MINTiMINT-3370733.
STRINGi644223.XP_002489393.1.

Structurei

Secondary structure

1
289
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi2 – 54Combined sources
Beta strandi8 – 103Combined sources
Beta strandi12 – 176Combined sources
Beta strandi21 – 288Combined sources
Beta strandi31 – 377Combined sources
Beta strandi44 – 507Combined sources
Beta strandi56 – 616Combined sources
Helixi64 – 663Combined sources
Beta strandi68 – 747Combined sources
Beta strandi79 – 857Combined sources
Beta strandi88 – 958Combined sources
Beta strandi102 – 1076Combined sources
Helixi110 – 1123Combined sources
Beta strandi114 – 1207Combined sources
Beta strandi123 – 1297Combined sources
Beta strandi139 – 1424Combined sources
Beta strandi148 – 1536Combined sources
Beta strandi164 – 1696Combined sources
Beta strandi174 – 1807Combined sources
Turni181 – 1844Combined sources
Beta strandi185 – 1928Combined sources
Beta strandi199 – 2046Combined sources
Beta strandi209 – 21810Combined sources
Beta strandi223 – 2286Combined sources
Beta strandi235 – 2406Combined sources
Beta strandi249 – 2546Combined sources
Beta strandi256 – 2583Combined sources
Beta strandi261 – 2655Combined sources
Beta strandi270 – 2756Combined sources
Beta strandi281 – 2866Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4L9OX-ray1.60A/B2-289[»]
ProteinModelPortaliP53024.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati7 – 3731WD 1Add
BLAST
Repeati51 – 8333WD 2Add
BLAST
Repeati97 – 13135WD 3Add
BLAST
Repeati147 – 17832WD 4Add
BLAST
Repeati197 – 22731WD 5Add
BLAST
Repeati244 – 27431WD 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

eggNOGiKOG1332. Eukaryota.
ENOG410XPFM. LUCA.
HOGENOMiHOG000216895.
InParanoidiP53024.
KOiK14004.
OMAiDHVTFPA.
OrthoDBiEOG092C3FZO.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 3 hits.
[Graphical view]
SMARTiSM00320. WD40. 6 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50082. WD_REPEATS_2. 3 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P53024-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVTIGNAHDD LIHDAVLDYY GRRLATCSSD KTIKIFEIDG ENQRLVETLI
60 70 80 90 100
GHEGPVWQVA WAHPKFGVIL ASCSYDGKVL IWKEDNGVWN KVAEHSVHQA
110 120 130 140 150
SVNSVSWAPH EYGPVLLCAS SDGKISIVEF KDGGALEPIV IQGHAIGVNA
160 170 180 190 200
ASWAPISLPD NTRRFVSGGC DNLVKIWRYD DAAKTFIEEE AFQGHSDWVR
210 220 230 240 250
DVAWSPSRLS KSYIATASQD RTVLIWTKDG KSNKWEKQPL TKEKFPDVCW
260 270 280
RASWSLSGNV LAISGGDNKV TLWKENIQGK WESAGEVDQ
Length:289
Mass (Da):32,105
Last modified:September 1, 2009 - v3
Checksum:iC711A2810ED1F049
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti148 – 1481V → G in AAB01155 (PubMed:10923020).Curated
Sequence conflicti273 – 2731W → S in AAB01155 (PubMed:10923020).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U52430 Genomic DNA. Translation: AAB01155.2.
FN392319 Genomic DNA. Translation: CAY67109.1.
PIRiT10477.
RefSeqiXP_002489393.1. XM_002489348.1.

Genome annotation databases

EnsemblFungiiCAY67109; CAY67109; PAS_chr1-3_0057.
GeneIDi8197368.
KEGGippa:PAS_chr1-3_0057.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U52430 Genomic DNA. Translation: AAB01155.2.
FN392319 Genomic DNA. Translation: CAY67109.1.
PIRiT10477.
RefSeqiXP_002489393.1. XM_002489348.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4L9OX-ray1.60A/B2-289[»]
ProteinModelPortaliP53024.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP53024. 5 interactions.
MINTiMINT-3370733.
STRINGi644223.XP_002489393.1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiCAY67109; CAY67109; PAS_chr1-3_0057.
GeneIDi8197368.
KEGGippa:PAS_chr1-3_0057.

Phylogenomic databases

eggNOGiKOG1332. Eukaryota.
ENOG410XPFM. LUCA.
HOGENOMiHOG000216895.
InParanoidiP53024.
KOiK14004.
OMAiDHVTFPA.
OrthoDBiEOG092C3FZO.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF00400. WD40. 3 hits.
[Graphical view]
SMARTiSM00320. WD40. 6 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50082. WD_REPEATS_2. 3 hits.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiSEC13_PICPG
AccessioniPrimary (citable) accession number: P53024
Secondary accession number(s): C4QV39
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: September 1, 2009
Last modified: September 7, 2016
This is version 112 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families

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.