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Protein

Protein SEC13 homolog

Gene

Sec13

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Functions as a component of the nuclear pore complex (NPC) and the COPII coat. At the endoplasmic reticulum, SEC13 is involved in the biogenesis of COPII-coated vesicles. Required for the exit of adipsin (CFD/ADN), an adipocyte-secreted protein from the endoplasmic reticulum.By similarity
As a component of the GATOR subcomplex GATOR2, functions within the amino acid-sensing branch of the TORC1 signaling pathway. Indirectly activates mTORC1 and the TORC1 signaling pathway through the inhibition of the GATOR1 subcomplex. It is negatively regulated by the upstream amino acid sensors SESN2 and CASTOR1.By similarity

GO - Molecular functioni

  • identical protein binding Source: GO_Central
  • structural molecule activity Source: GO_Central

GO - Biological processi

Keywordsi

Biological processER-Golgi transport, mRNA transport, Protein transport, Translocation, Transport

Enzyme and pathway databases

ReactomeiR-RNO-141444 Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal
R-RNO-204005 COPII-mediated vesicle transport
R-RNO-2132295 MHC class II antigen presentation
R-RNO-2467813 Separation of Sister Chromatids
R-RNO-2500257 Resolution of Sister Chromatid Cohesion
R-RNO-5663220 RHO GTPases Activate Formins
R-RNO-68877 Mitotic Prometaphase
R-RNO-983170 Antigen Presentation: Folding, assembly and peptide loading of class I MHC

Names & Taxonomyi

Protein namesi
Recommended name:
Protein SEC13 homologCurated
Alternative name(s):
GATOR complex protein SEC13Curated
SEC13-like protein 1
Gene namesi
Name:Sec13
Synonyms:Sec13l1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaMyomorphaMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 4

Organism-specific databases

RGDi1359555 Sec13

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

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

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemovedBy similarity
ChainiPRO_00002817702 – 322Protein SEC13 homologAdd BLAST321

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei2N-acetylvalineBy similarity1
Modified residuei184PhosphoserineBy similarity1
Modified residuei309PhosphoserineBy similarity1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

PaxDbiQ5XFW8
PRIDEiQ5XFW8

Expressioni

Gene expression databases

BgeeiENSRNOG00000010628 Expressed in 10 organ(s), highest expression level in skeletal muscle tissue
GenevisibleiQ5XFW8 RN

Interactioni

Subunit structurei

At the nuclear pore: component of the Y-shaped Nup107-160 subcomplex of the nuclear pore complex (NPC). The Nup107-160 subcomplex includes NUP160, NUP133, NUP107, NUP98, NUP85, NUP43, NUP37, SEH1 and SEC13 (By similarity). At the COPII coat complex: interacts with SEC31A (PubMed:10788476). At the COPII coat complex: interacts with SEC31B. Within the GATOR complex, component of the GATOR2 subcomplex, made of MIOS, SEC13, SEH1L, WDR24 and WDR59. The GATOR complex strongly interacts with RRAGA/RRAGC and RRAGB/RRAGC heterodimers. The GATOR2 complex interacts with CASTOR2 and CASTOR1; the interaction is negatively regulated by arginine. The GATOR2 complex interacts with SESN1, SESN2 and SESN3; the interaction is negatively regulated by amino acids. Interacts with SEC16A (By similarity).By similarity1 Publication

GO - Molecular functioni

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000014377

Structurei

3D structure databases

ProteinModelPortaliQ5XFW8
SMRiQ5XFW8
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati11 – 50WD 1Add BLAST40
Repeati55 – 96WD 2Add BLAST42
Repeati101 – 144WD 3Add BLAST44
Repeati148 – 204WD 4Add BLAST57
Repeati210 – 253WD 5Add BLAST44
Repeati260 – 299WD 6Add BLAST40

Sequence similaritiesi

Belongs to the WD repeat SEC13 family.Curated

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiKOG1332 Eukaryota
ENOG410XPFM LUCA
GeneTreeiENSGT00550000075049
HOGENOMiHOG000216895
HOVERGENiHBG057343
InParanoidiQ5XFW8
KOiK14004
OMAiGQWACIS
OrthoDBiEOG091G0DTE
PhylomeDBiQ5XFW8
TreeFamiTF300815

Family and domain databases

Gene3Di2.130.10.10, 1 hit
InterProiView protein in InterPro
IPR037596 Sec13
IPR037363 Sec13/Seh1_fam
IPR015943 WD40/YVTN_repeat-like_dom_sf
IPR001680 WD40_repeat
IPR017986 WD40_repeat_dom
IPR036322 WD40_repeat_dom_sf
PANTHERiPTHR11024 PTHR11024, 1 hit
PTHR11024:SF2 PTHR11024:SF2, 1 hit
PfamiView protein in Pfam
PF00400 WD40, 5 hits
SMARTiView protein in SMART
SM00320 WD40, 6 hits
SUPFAMiSSF50978 SSF50978, 1 hit
PROSITEiView protein in PROSITE
PS50082 WD_REPEATS_2, 3 hits
PS50294 WD_REPEATS_REGION, 1 hit

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

Q5XFW8-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MVSVINTVDT SHEDMIHDAQ MDYYGTRLAT CSSDRSVKIF DVRNGGQILI
60 70 80 90 100
ADLRGHEGPV WQVAWAHPMY GNILASCSYD RKVIIWKEEN GTWEKTHEHS
110 120 130 140 150
GHDSSVNSVC WAPHDYGLIL ACGSSDGAIS LLTYTGEGQW EVKKINNAHT
160 170 180 190 200
IGCNAVSWAP AVVPGSLIDQ PSGQKPNYIK KFASGGCDNL IKLWREEEDG
210 220 230 240 250
QWKEEQKLEA HSDWVRDVAW APSIGLPTST IASCSQDGRV FIWTCDDASG
260 270 280 290 300
NMWSPKLLHK FNDVVWHVSW SITANILAVS GGDNKVTLWK ESVDGQWVCI
310 320
SDVNKGQGSV SASITEGQQN EQ
Length:322
Mass (Da):35,548
Last modified:November 23, 2004 - v1
Checksum:i24F54AB8C7131985
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC084705 mRNA Translation: AAH84705.1
RefSeqiNP_001006979.1, NM_001006978.1
UniGeneiRn.1553

Genome annotation databases

EnsembliENSRNOT00000014377; ENSRNOP00000014377; ENSRNOG00000010628
GeneIDi297522
KEGGirno:297522
UCSCiRGD:1359555 rat

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BC084705 mRNA Translation: AAH84705.1
RefSeqiNP_001006979.1, NM_001006978.1
UniGeneiRn.1553

3D structure databases

ProteinModelPortaliQ5XFW8
SMRiQ5XFW8
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000014377

Proteomic databases

PaxDbiQ5XFW8
PRIDEiQ5XFW8

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000014377; ENSRNOP00000014377; ENSRNOG00000010628
GeneIDi297522
KEGGirno:297522
UCSCiRGD:1359555 rat

Organism-specific databases

CTDi6396
RGDi1359555 Sec13

Phylogenomic databases

eggNOGiKOG1332 Eukaryota
ENOG410XPFM LUCA
GeneTreeiENSGT00550000075049
HOGENOMiHOG000216895
HOVERGENiHBG057343
InParanoidiQ5XFW8
KOiK14004
OMAiGQWACIS
OrthoDBiEOG091G0DTE
PhylomeDBiQ5XFW8
TreeFamiTF300815

Enzyme and pathway databases

ReactomeiR-RNO-141444 Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal
R-RNO-204005 COPII-mediated vesicle transport
R-RNO-2132295 MHC class II antigen presentation
R-RNO-2467813 Separation of Sister Chromatids
R-RNO-2500257 Resolution of Sister Chromatid Cohesion
R-RNO-5663220 RHO GTPases Activate Formins
R-RNO-68877 Mitotic Prometaphase
R-RNO-983170 Antigen Presentation: Folding, assembly and peptide loading of class I MHC

Miscellaneous databases

PROiPR:Q5XFW8

Gene expression databases

BgeeiENSRNOG00000010628 Expressed in 10 organ(s), highest expression level in skeletal muscle tissue
GenevisibleiQ5XFW8 RN

Family and domain databases

Gene3Di2.130.10.10, 1 hit
InterProiView protein in InterPro
IPR037596 Sec13
IPR037363 Sec13/Seh1_fam
IPR015943 WD40/YVTN_repeat-like_dom_sf
IPR001680 WD40_repeat
IPR017986 WD40_repeat_dom
IPR036322 WD40_repeat_dom_sf
PANTHERiPTHR11024 PTHR11024, 1 hit
PTHR11024:SF2 PTHR11024:SF2, 1 hit
PfamiView protein in Pfam
PF00400 WD40, 5 hits
SMARTiView protein in SMART
SM00320 WD40, 6 hits
SUPFAMiSSF50978 SSF50978, 1 hit
PROSITEiView protein in PROSITE
PS50082 WD_REPEATS_2, 3 hits
PS50294 WD_REPEATS_REGION, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiSEC13_RAT
AccessioniPrimary (citable) accession number: Q5XFW8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: April 3, 2007
Last sequence update: November 23, 2004
Last modified: November 7, 2018
This is version 117 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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Main funding by: National Institutes of Health

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