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Protein

Protein SEC13 homolog

Gene

Sec13

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-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.By similarity
As a component of the GATOR subcomplex GATOR2, functions as an activator of the amino acid-sensing branch of the TORC1 pathway. Inhibits the GATOR1 subcomplex, an inhibitor of the amino acid-sensing branch of the TORC1 pathway. Functions downstream and is regulated by amino acid sensors like SESN2.By similarity

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

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

Enzyme and pathway databases

ReactomeiR-MMU-204005. COPII (Coat Protein 2) Mediated Vesicle Transport.
R-MMU-2132295. MHC class II antigen presentation.
R-MMU-2467813. Separation of Sister Chromatids.
R-MMU-2500257. Resolution of Sister Chromatid Cohesion.
R-MMU-5663220. RHO GTPases Activate Formins.
R-MMU-68877. Mitotic Prometaphase.
R-MMU-983170. Antigen Presentation: Folding, assembly and peptide loading of class I MHC.

Names & Taxonomyi

Protein namesi
Recommended name:
Protein SEC13 homolog
Alternative name(s):
SEC13-like protein 1
SEC13-related protein
Gene namesi
Name:Sec13
Synonyms:Sec13l1
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 6

Organism-specific databases

MGIiMGI:99832. Sec13.

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
Initiator methionineiRemovedBy similarity
Chaini2 – 322321Protein SEC13 homologPRO_0000051204Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylvalineBy similarity
Modified residuei184 – 1841PhosphoserineBy similarity
Modified residuei309 – 3091PhosphoserineBy similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ9D1M0.
MaxQBiQ9D1M0.
PaxDbiQ9D1M0.
PeptideAtlasiQ9D1M0.
PRIDEiQ9D1M0.

2D gel databases

REPRODUCTION-2DPAGEQ9D1M0.

PTM databases

iPTMnetiQ9D1M0.
PhosphoSiteiQ9D1M0.

Expressioni

Gene expression databases

BgeeiQ9D1M0.
CleanExiMM_SEC13.
GenevisibleiQ9D1M0. MM.

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. At the COPII coat complex: interacts with SEC31A and 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 GATSL2 and GATSL3; the interaction is negatively regulated by arginine. The GATOR2 complex interacts with SESN1, SESN2 and SESN3; the interaction is negatively regulated by amino acids.By similarity

Protein-protein interaction databases

BioGridi225548. 2 interactions.
IntActiQ9D1M0. 6 interactions.
MINTiMINT-1865076.
STRINGi10090.ENSMUSP00000032440.

Structurei

3D structure databases

ProteinModelPortaliQ9D1M0.
SMRiQ9D1M0. Positions 14-304.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati11 – 5040WD 1Add
BLAST
Repeati55 – 9642WD 2Add
BLAST
Repeati101 – 14444WD 3Add
BLAST
Repeati148 – 20457WD 4Add
BLAST
Repeati210 – 25344WD 5Add
BLAST
Repeati260 – 29940WD 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.
GeneTreeiENSGT00550000075049.
HOGENOMiHOG000216895.
HOVERGENiHBG057343.
InParanoidiQ9D1M0.
KOiK14004.
OMAiWREDNDR.
OrthoDBiEOG7966GP.
PhylomeDBiQ9D1M0.
TreeFamiTF300815.

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. 5 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.

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

Q9D1M0-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVSVMNTVDT 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):35,566
Last modified:January 23, 2007 - v3
Checksum:i255AF0ACC4C5D891
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti41 – 411D → H in BAB26480 (PubMed:16141072).Curated
Sequence conflicti298 – 2981V → G in AAH02128 (PubMed:15489334).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK003354 mRNA. Translation: BAB22732.1.
AK009755 mRNA. Translation: BAB26480.1.
BC002128 mRNA. Translation: AAH02128.1.
CCDSiCCDS39596.1.
RefSeqiNP_077168.2. NM_024206.4.
UniGeneiMm.29296.
Mm.465981.

Genome annotation databases

EnsembliENSMUST00000032440; ENSMUSP00000032440; ENSMUSG00000030298.
GeneIDi110379.
KEGGimmu:110379.
UCSCiuc009dhm.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK003354 mRNA. Translation: BAB22732.1.
AK009755 mRNA. Translation: BAB26480.1.
BC002128 mRNA. Translation: AAH02128.1.
CCDSiCCDS39596.1.
RefSeqiNP_077168.2. NM_024206.4.
UniGeneiMm.29296.
Mm.465981.

3D structure databases

ProteinModelPortaliQ9D1M0.
SMRiQ9D1M0. Positions 14-304.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi225548. 2 interactions.
IntActiQ9D1M0. 6 interactions.
MINTiMINT-1865076.
STRINGi10090.ENSMUSP00000032440.

PTM databases

iPTMnetiQ9D1M0.
PhosphoSiteiQ9D1M0.

2D gel databases

REPRODUCTION-2DPAGEQ9D1M0.

Proteomic databases

EPDiQ9D1M0.
MaxQBiQ9D1M0.
PaxDbiQ9D1M0.
PeptideAtlasiQ9D1M0.
PRIDEiQ9D1M0.

Protocols and materials databases

DNASUi110379.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000032440; ENSMUSP00000032440; ENSMUSG00000030298.
GeneIDi110379.
KEGGimmu:110379.
UCSCiuc009dhm.1. mouse.

Organism-specific databases

CTDi6396.
MGIiMGI:99832. Sec13.

Phylogenomic databases

eggNOGiKOG1332. Eukaryota.
ENOG410XPFM. LUCA.
GeneTreeiENSGT00550000075049.
HOGENOMiHOG000216895.
HOVERGENiHBG057343.
InParanoidiQ9D1M0.
KOiK14004.
OMAiWREDNDR.
OrthoDBiEOG7966GP.
PhylomeDBiQ9D1M0.
TreeFamiTF300815.

Enzyme and pathway databases

ReactomeiR-MMU-204005. COPII (Coat Protein 2) Mediated Vesicle Transport.
R-MMU-2132295. MHC class II antigen presentation.
R-MMU-2467813. Separation of Sister Chromatids.
R-MMU-2500257. Resolution of Sister Chromatid Cohesion.
R-MMU-5663220. RHO GTPases Activate Formins.
R-MMU-68877. Mitotic Prometaphase.
R-MMU-983170. Antigen Presentation: Folding, assembly and peptide loading of class I MHC.

Miscellaneous databases

PROiQ9D1M0.
SOURCEiSearch...

Gene expression databases

BgeeiQ9D1M0.
CleanExiMM_SEC13.
GenevisibleiQ9D1M0. MM.

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. 5 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...

Publicationsi

  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Tongue.
  2. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: Czech II.
    Tissue: Mammary tumor.
  3. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Brown adipose tissue, Heart, Kidney, Liver, Lung, Pancreas, Spleen and Testis.

Entry informationi

Entry nameiSEC13_MOUSE
AccessioniPrimary (citable) accession number: Q9D1M0
Secondary accession number(s): Q99M12, Q9D712
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 19, 2004
Last sequence update: January 23, 2007
Last modified: July 6, 2016
This is version 124 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  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.