Human Gene SEC13 (ENST00000397109.7) from GENCODE V44
Description: Homo sapiens SEC13 homolog, nuclear pore and COPII coat complex component (SEC13), transcript variant 2, mRNA. (from RefSeq NM_001136232) RefSeq Summary (NM_001136232): The protein encoded by this gene belongs to the SEC13 family of WD-repeat proteins. It is a constituent of the endoplasmic reticulum and the nuclear pore complex. It has similarity to the yeast SEC13 protein, which is required for vesicle biogenesis from endoplasmic reticulum during the transport of proteins. Multiple alternatively spliced transcript variants have been found. [provided by RefSeq, Oct 2008]. Gencode Transcript: ENST00000397109.7 Gencode Gene: ENSG00000157020.18 Transcript (Including UTRs) Position: hg38 chr3:10,300,931-10,321,041 Size: 20,111 Total Exon Count: 9 Strand: - Coding Region Position: hg38 chr3:10,301,261-10,318,055 Size: 16,795 Coding Exon Count: 8
ID:SEC13_HUMAN DESCRIPTION: RecName: Full=Protein SEC13 homolog; AltName: Full=SEC13-like protein 1; AltName: Full=SEC13-related protein; FUNCTION: 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. SUBUNIT: 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. INTERACTION: P49687:NUP145 (xeno); NbExp=9; IntAct=EBI-1046596, EBI-11730; SUBCELLULAR LOCATION: Cytoplasmic vesicle, COPII-coated vesicle membrane; Peripheral membrane protein; Cytoplasmic side. Endoplasmic reticulum membrane; Peripheral membrane protein; Cytoplasmic side. Nucleus, nuclear pore complex. Note=In interphase, localizes at both sides of the NPC. SIMILARITY: Belongs to the WD repeat SEC13 family. SIMILARITY: Contains 6 WD repeats. SEQUENCE CAUTION: Sequence=AAH02634.2; Type=Erroneous initiation;
The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.
ModBase Predicted Comparative 3D Structure on P55735
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Orthologous Genes in Other Species
Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
Gene Ontology (GO) Annotations with Structured Vocabulary
Molecular Function: GO:0005198 structural molecule activity GO:0005515 protein binding GO:0042802 identical protein binding
Biological Process: GO:0002474 antigen processing and presentation of peptide antigen via MHC class I GO:0006886 intracellular protein transport GO:0015031 protein transport GO:0016192 vesicle-mediated transport GO:0019886 antigen processing and presentation of exogenous peptide antigen via MHC class II GO:0032008 positive regulation of TOR signaling GO:0048208 COPII vesicle coating GO:0051028 mRNA transport GO:0090110 cargo loading into COPII-coated vesicle GO:0090114 COPII-coated vesicle budding GO:1904263 positive regulation of TORC1 signaling
EU789555 - Homo sapiens clone UIS231 SEC13 splice variant mRNA, partial cds, alternatively spliced. BC006167 - Homo sapiens SEC13 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3959959), partial cds. AF052155 - Homo sapiens clone 24761 mRNA sequence. L09260 - Human (chromosome 3p25) membrane protein mRNA. BC002634 - Homo sapiens SEC13 homolog (S. cerevisiae), mRNA (cDNA clone MGC:4272 IMAGE:3605545), complete cds. BC091506 - Homo sapiens SEC13 homolog (S. cerevisiae), mRNA (cDNA clone MGC:111109 IMAGE:30408210), complete cds. AK095629 - Homo sapiens cDNA FLJ38310 fis, clone FCBBF3019839, highly similar to SEC13-RELATED PROTEIN. AB209554 - Homo sapiens mRNA for SEC13-like 1 isoform b variant protein. AK223019 - Homo sapiens mRNA for SEC13-like 1 isoform b variant, clone: HSI15861. AK301999 - Homo sapiens cDNA FLJ56334 complete cds, highly similar to SEC13-related protein. DQ574620 - Homo sapiens piRNA piR-42732, complete sequence. JD118166 - Sequence 99190 from Patent EP1572962. KJ892122 - Synthetic construct Homo sapiens clone ccsbBroadEn_01516 SEC13 gene, encodes complete protein. AB528650 - Synthetic construct DNA, clone: pF1KB6539, Homo sapiens SEC13L1 gene for SEC13 homolog, without stop codon, in Flexi system. CU678078 - Synthetic construct Homo sapiens gateway clone IMAGE:100018915 5' read SEC13 mRNA. EF036494 - Homo sapiens SEC13-like 1 isoform mRNA, partial cds. AK294662 - Homo sapiens cDNA FLJ59881 complete cds, highly similar to SEC13-related protein.
Biochemical and Signaling Pathways
Reactome (by CSHL, EBI, and GO)
Protein P55735 (Reactome details) participates in the following event(s):
R-HSA-983425 Recruitment of Sec31p:Sec13p to prebudding complex and formation of COPII vesicle R-HSA-983422 Disassembly of COPII coated vesicle R-HSA-204008 SEC31:SEC13 and v-SNARE recruitment R-HSA-5694441 CSNK1D phosphorylates SEC23 R-HSA-141409 Mad1 binds kinetochore R-HSA-375302 Kinetochore capture of astral microtubules R-HSA-5666129 CDC42:GTP recruits DIAPH2-2 to kinetochores R-HSA-5666169 Kinetochore capture of astral microtubules is positively regulated by CDC42:GTP:p-S196-DIAPH2-2 R-HSA-203973 Vesicle budding R-HSA-2130731 Formation of COPII vesicle R-HSA-2213243 Fusion of COPII vesicle with Golgi complex R-HSA-983424 Budding of COPII coated vesicle R-HSA-5694439 COPII coat binds TRAPPCII and RAB1:GDP R-HSA-141431 MAD2 associates with the Mad1 kinetochore complex R-HSA-141439 Release of activated MAD2 from kinetochores R-HSA-2467811 Separation of sister chromatids R-HSA-2467809 ESPL1 (Separase) cleaves centromeric cohesin R-HSA-5666160 AURKB phosphorylates DIAPH2-2 at kinetochores R-HSA-5694418 RAB1:GTP binds USO1 and GORASP1:GOLGA2 R-HSA-5694409 Nucleotide exchange on RAB1 R-HSA-141422 MAD2 converted to an inhibitory state via interaction with Mad1 R-HSA-1638821 PP2A-B56 dephosphorylates centromeric cohesin R-HSA-1638803 Phosphorylation of cohesin by PLK1 at centromeres R-HSA-2468287 CDK1 phosphorylates CDCA5 (Sororin) at centromeres R-HSA-983170 Antigen Presentation: Folding, assembly and peptide loading of class I MHC R-HSA-204005 COPII-mediated vesicle transport R-HSA-983169 Class I MHC mediated antigen processing & presentation R-HSA-141444 Amplification of signal from unattached kinetochores via a MAD2 inhibitory signal R-HSA-68877 Mitotic Prometaphase R-HSA-5663220 RHO GTPases Activate Formins R-HSA-199977 ER to Golgi Anterograde Transport R-HSA-1280218 Adaptive Immune System R-HSA-2132295 MHC class II antigen presentation R-HSA-2500257 Resolution of Sister Chromatid Cohesion R-HSA-2467813 Separation of Sister Chromatids R-HSA-141424 Amplification of signal from the kinetochores R-HSA-68886 M Phase R-HSA-195258 RHO GTPase Effectors R-HSA-199991 Membrane Trafficking R-HSA-948021 Transport to the Golgi and subsequent modification R-HSA-168256 Immune System R-HSA-68882 Mitotic Anaphase R-HSA-69618 Mitotic Spindle Checkpoint R-HSA-69278 Cell Cycle (Mitotic) R-HSA-194315 Signaling by Rho GTPases R-HSA-5653656 Vesicle-mediated transport R-HSA-446203 Asparagine N-linked glycosylation R-HSA-2555396 Mitotic Metaphase and Anaphase R-HSA-69620 Cell Cycle Checkpoints R-HSA-1640170 Cell Cycle R-HSA-162582 Signal Transduction R-HSA-597592 Post-translational protein modification R-HSA-392499 Metabolism of proteins
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