Q5XFW8 (SEC13_RAT) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Protein SEC13 homolog

Alternative name(s):
SEC13-like protein 1

Gene names

Name:	Sec13
Synonyms:	Sec13l1

Organism

Rattus norvegicus (Rat) [Reference proteome]

Taxonomic identifier

10116 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

Protein attributes

Sequence length	322 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

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 By similarity.
Subunit structure	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 and SEC31B. Ref.2
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 By similarity.
Sequence similarities	Belongs to the WD repeat SEC13 family. Contains 6 WD repeats.

Ontologies

Keywords
Biological process	ER-Golgi transport Protein transport Translocation Transport mRNA transport
Cellular component	Cytoplasmic vesicle Endoplasmic reticulum Membrane Nuclear pore complex Nucleus
Domain	Repeat WD repeat
PTM	Acetylation Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	ER to Golgi vesicle-mediated transport Inferred from direct assay PubMed 15728249. Source: MGI mRNA transport Inferred from electronic annotation. Source: UniProtKB-KW protein transport Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	ER to Golgi transport vesicle membrane Inferred from electronic annotation. Source: UniProtKB-SubCell endoplasmic reticulum membrane Inferred from electronic annotation. Source: UniProtKB-SubCell nuclear pore outer ring Inferred from sequence or structural similarity. Source: UniProtKB
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Initiator methionine	1	1	Removed By similarity
	Chain	2 – 322	321	Protein SEC13 homolog		PRO_0000281770
Regions
	Repeat	11 – 50	40	WD 1
	Repeat	55 – 96	42	WD 2
	Repeat	101 – 144	44	WD 3
	Repeat	148 – 204	57	WD 4
	Repeat	210 – 253	44	WD 5
	Repeat	260 – 299	40	WD 6
Amino acid modifications
	Modified residue	2	1	N-acetylvaline By similarity
	Modified residue	309	1	Phosphoserine By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q5XFW8 [UniParc]. Last modified November 23, 2004. Version 1. Checksum: 24F54AB8C7131985	FASTA	322	35,548
	10 20 30 40 50 60 MVSVINTVDT SHEDMIHDAQ MDYYGTRLAT CSSDRSVKIF DVRNGGQILI ADLRGHEGPV 70 80 90 100 110 120 WQVAWAHPMY GNILASCSYD RKVIIWKEEN GTWEKTHEHS GHDSSVNSVC WAPHDYGLIL 130 140 150 160 170 180 ACGSSDGAIS LLTYTGEGQW EVKKINNAHT IGCNAVSWAP AVVPGSLIDQ PSGQKPNYIK 190 200 210 220 230 240 KFASGGCDNL IKLWREEEDG QWKEEQKLEA HSDWVRDVAW APSIGLPTST IASCSQDGRV 250 260 270 280 290 300 FIWTCDDASG NMWSPKLLHK FNDVVWHVSW SITANILAVS GGDNKVTLWK ESVDGQWVCI 310 320 SDVNKGQGSV SASITEGQQN EQ

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"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]. Tissue: Ovary.
[2]	"Mammalian homologues of yeast sec31p. An ubiquitously expressed form is localized to endoplasmic reticulum (ER) exit sites and is essential for ER-Golgi transport." Tang B.L., Zhang T., Low D.Y.H., Wong E.T., Horstmann H., Hong W. J. Biol. Chem. 275:13597-13604(2000) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH SEC31A.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	BC084705 mRNA. Translation: AAH84705.1.
IPI	IPI00364566.
RefSeq	NP_001006979.1. NM_001006978.1.
UniGene	Rn.1553.
3D structure databases
ProteinModelPortal	Q5XFW8.
SMR	Q5XFW8. Positions 14-304.
ModBase	Search...
Protein-protein interaction databases
MINT	MINT-4577232.
STRING	10116.ENSRNOP00000014377.
Proteomic databases
PaxDb	Q5XFW8.
PRIDE	Q5XFW8.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSRNOT00000014377; ENSRNOP00000014377; ENSRNOG00000010628.
GeneID	297522.
KEGG	rno:297522.
UCSC	RGD:1359555. rat.
Organism-specific databases
CTD	6396.
RGD	1359555. Sec13.
Phylogenomic databases
eggNOG	COG2319.
GeneTree	ENSGT00550000075049.
HOGENOM	HOG000216895.
HOVERGEN	HBG057343.
InParanoid	Q5XFW8.
KO	K14004.
OrthoDB	EOG40P471.
Gene expression databases
Genevestigator	Q5XFW8.
Family and domain databases
Gene3D	2.130.10.10. 1 hit.
InterPro	IPR015943. WD40/YVTN_repeat-like_dom. IPR001680. WD40_repeat. IPR017986. WD40_repeat_dom. [Graphical view]
Pfam	PF00400. WD40. 6 hits. [Graphical view]
SMART	SM00320. WD40. 6 hits. [Graphical view]
SUPFAM	SSF50978. WD40_like. 1 hit.
PROSITE	PS00678. WD_REPEATS_1. False negative. PS50082. WD_REPEATS_2. 3 hits. PS50294. WD_REPEATS_REGION. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	642376.

Entry information

Entry name

SEC13_RAT

Accession

Primary (citable) accession number: Q5XFW8

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 3, 2007
Last sequence update:	November 23, 2004
Last modified:	May 29, 2013
This is version 75 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program