P25365 (SED4_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Putative guanine nucleotide-exchange factor SED4

Gene names

Name:	SED4
Ordered Locus Names:	YCR067C
ORF Names:	YCR67C, YCR901

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Fungi › Dikarya › Ascomycota › saccharomyceta › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces › Saccharomyces cerevisiae

Protein attributes

Sequence length	1065 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Putative guanine nucleotide-exchange factor (GEF) involved in the formation or budding of transport vesicles from the ER. Positive regulator of SAR1 probably through inhibition of the GTPase activation by SEC23. Ref.6 Ref.7 Ref.8
Subcellular location	Endoplasmic reticulum membrane; Single-pass type II membrane protein. Golgi apparatus membrane; Single-pass type II membrane protein Potential. Note: In the process of transport, SED4 itself may migrate to the Golgi apparatus and function in subsequent transport events. Ref.6 Ref.9
Sequence similarities	Belongs to the WD repeat SEC12 family. Contains 2 WD repeats.

Ontologies

Keywords
Biological process	ER-Golgi transport Protein transport Transport
Cellular component	Endoplasmic reticulum Golgi apparatus Membrane
Domain	Repeat Signal-anchor Transmembrane Transmembrane helix WD repeat
Molecular function	GTPase activation
PTM	Glycoprotein Phosphoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	protein transport Inferred from electronic annotation. Source: UniProtKB-KW regulation of COPII vesicle coating Inferred from direct assay PubMed 21291503. Source: SGD vesicle-mediated transport Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	Golgi membrane Inferred from electronic annotation. Source: UniProtKB-SubCell integral to endoplasmic reticulum membrane Inferred from direct assay Ref.6. Source: SGD
Molecular_function	Sar GTPase activator activity Inferred from direct assay PubMed 21291503. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 1065	1065	Putative guanine nucleotide-exchange factor SED4		PRO_0000051211
Regions
	Topological domain	1 – 346	346	Cytoplasmic Potential
	Transmembrane	347 – 365	19	Helical; Signal-anchor for type II membrane protein
	Topological domain	366 – 1065	700	Lumenal Potential
	Repeat	259 – 298	40	WD 1
	Repeat	302 – 341	40	WD 2
	Repeat	824 – 833	10	1
	Repeat	834 – 843	10	2
	Repeat	844 – 853	10	3
	Repeat	854 – 863	10	4
	Region	824 – 863	40	4 X 10 AA tandem repeats
	Motif	1062 – 1065	4	Prevents secretion from ER Potential
	Compositional bias	467 – 476	10	Poly-Ser
	Compositional bias	579 – 590	12	Poly-Ser
Amino acid modifications
	Modified residue	65	1	Phosphoserine Ref.10
	Glycosylation	388	1	N-linked (GlcNAc...) Potential
	Glycosylation	620	1	N-linked (GlcNAc...) Potential
	Glycosylation	1039	1	N-linked (GlcNAc...) Potential

Sequences

	Sequence		Length	Mass (Da)
	P25365 [UniParc]. Last modified May 1, 1992. Version 1. Checksum: 0F1DAE0D428085A8	FASTA	1,065	114,079
	10 20 30 40 50 60 MSGNSANYDV GYPIYGAKFI NEGTLLVAGG GGQFNSSFPN KITALKVNFQ KKKHIRRFRE 70 80 90 100 110 120 ITLDSIDDAP TSLDCNNNLI LVGCNELFND SSMENVNHHL RKFVFEQEHL KFVASIDFNR 130 140 150 160 170 180 TTDPSVFTKF VYINQRATVA AIASSEVPTV IRIIDPRNLT ENYEIETGRE VNDLHFAPNG 190 200 210 220 230 240 ILLSYITSNS LEVASVRDGN FVARKTDFDK NLVLSNIRFL NDNTLLVAAS LSNSDGVSLL 250 260 270 280 290 300 KLGVSSKGVK ILKTASFMFD LNGITSMDVS PNKKFVALSS NDNLVAIVSV EKLKLVQLVP 310 320 330 340 350 360 RVHESTITKV TFSPDSRYLA STSMGNTINV LKLSGTSSSI LRNIWKFFLN FVLLVVLAGA 370 380 390 400 410 420 IQLGYKHNVH GFIYKHAHDI YKSKFKENTT IDQGSSSYFT INDDYRGITE SADIISATDV 430 440 450 460 470 480 ASDIETEFSS FDTSTMRTTT EDEQKFVWIS SSADSQFTSA DIPTSASSSS SSSSSSFYEE 490 500 510 520 530 540 SVTNEPIVSS PTSEITKPLA SPTEPNIVEK PSLPLNSESI DLLSSSSNSI TEYPEPTPDL 550 560 570 580 590 600 EEKLSSLIVE QSESEITTDR ESVSKLLSTE SPSLSHMPSS SSSSLSLSSS LTTSPTTALS 610 620 630 640 650 660 TSTATAVTTT QTNPTNDAAN TSFLDNSKPA STREIYKTKI ITEVITKIEY RNIPASDSNA 670 680 690 700 710 720 EAEQYVTTSS SMLLTPTDTM VSSPVSEIDP IASELERMVE TPTHSISIAS EFDSVASNLI 730 740 750 760 770 780 PNEEILSTSA SQDSISSHPS TFSDSSITSG FQSIEVSTVT SSVLASESIP SISDSTFSKF 790 800 810 820 830 840 HSISEPVSSA IVETATSSFS KTETKTSRVI AFSTEDSERS SALIDNSEYT SVLADNLEPT 850 860 870 880 890 900 SVLADNSEPT SVLADSSEPT SVFTDAVQSP KTSVGQSSLS ESTNIEGTSM ASMIFSSSGA 910 920 930 940 950 960 SIGALSDIGK GTLSVESASS TVAQPMPGVT TTAPSFVSSP HKISASSIDA SGFVQKEIMI 970 980 990 1000 1010 1020 EVQSSKDSSE AFGVRHKISE NVNTPVSRML TTEMQASGTV DVTEDVSLSS EVISALNVEI 1030 1040 1050 1060 TSLPNPVAPP QTIAAPLNNN SNTNIVNDDN AVAGTVNYAG LHDEL

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Genes that allow yeast cells to grow in the absence of the HDEL receptor." Hardwick K.G., Boothroyd J.C., Rudner A.D., Pelham H.R.B. EMBO J. 11:4187-4195(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], CHARACTERIZATION.
[2]	"The complete DNA sequence of yeast chromosome III." Oliver S.G., van der Aart Q.J.M., Agostoni-Carbone M.L., Aigle M., Alberghina L., Alexandraki D., Antoine G., Anwar R., Ballesta J.P.G., Benit P., Berben G., Bergantino E., Biteau N., Bolle P.-A., Bolotin-Fukuhara M., Brown A., Brown A.J.P., Buhler J.-M. , Carcano C., Carignani G., Cederberg H., Chanet R., Contreras R., Crouzet M., Daignan-Fornier B., Defoor E., Delgado M.D., Demolder J., Doira C., Dubois E., Dujon B., Duesterhoeft A., Erdmann D., Esteban M., Fabre F., Fairhead C., Faye G., Feldmann H., Fiers W., Francingues-Gaillard M.-C., Franco L., Frontali L., Fukuhara H., Fuller L.J., Galland P., Gent M.E., Gigot D., Gilliquet V., Glansdorff N., Goffeau A., Grenson M., Grisanti P., Grivell L.A., de Haan M., Haasemann M., Hatat D., Hoenicka J., Hegemann J.H., Herbert C.J., Hilger F., Hohmann S., Hollenberg C.P., Huse K., Iborra F., Indge K.J., Isono K., Jacq C., Jacquet M., James C.M., Jauniaux J.-C., Jia Y., Jimenez A., Kelly A., Kleinhans U., Kreisl P., Lanfranchi G., Lewis C., van der Linden C.G., Lucchini G., Lutzenkirchen K., Maat M.J., Mallet L., Mannhaupt G., Martegani E., Mathieu A., Maurer C.T.C., McConnell D., McKee R.A., Messenguy F., Mewes H.-W., Molemans F., Montague M.A., Muzi Falconi M., Navas L., Newlon C.S., Noone D., Pallier C., Panzeri L., Pearson B.M., Perea J., Philippsen P., Pierard A., Planta R.J., Plevani P., Poetsch B., Pohl F.M., Purnelle B., Ramezani Rad M., Rasmussen S.W., Raynal A., Remacha M.A., Richterich P., Roberts A.B., Rodriguez F., Sanz E., Schaaff-Gerstenschlaeger I., Scherens B., Schweitzer B., Shu Y., Skala J., Slonimski P.P., Sor F., Soustelle C., Spiegelberg R., Stateva L.I., Steensma H.Y., Steiner S., Thierry A., Thireos G., Tzermia M., Urrestarazu L.A., Valle G., Vetter I., van Vliet-Reedijk J.C., Voet M., Volckaert G., Vreken P., Wang H., Warmington J.R., von Wettstein D., Wicksteed B.L., Wilson C., Wurst H., Xu G., Yoshikawa A., Zimmermann F.K., Sgouros J.G. Nature 357:38-46(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[5]	"Sequence of the sup61-RAD18 region on chromosome III of Saccharomyces cerevisiae." Benit P., Chanet R., Fabre F., Faye G., Fukuhara H., Sor F. Yeast 8:147-153(1992) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 446-1065.
[6]	"SED4 encodes a yeast endoplasmic reticulum protein that binds Sec16p and participates in vesicle formation." Gimeno R.E., Espenshade P.J., Kaiser C.A. J. Cell Biol. 131:325-338(1995) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION, GLYCOSYLATION, INTERACTION WITH SEC16.
[7]	"Identification of SEC12, SED4, truncated SEC16, and EKS1/HRD3 as multicopy suppressors of ts mutants of Sar1 GTPase." Saito Y., Yamanushi T., Oka T., Nakano A. J. Biochem. 125:130-137(1999) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[8]	"Sed4p functions as a positive regulator of Sar1p probably through inhibition of the GTPase activation by Sec23p." Saito-Nakano Y., Nakano A. Genes Cells 5:1039-1048(2000) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[9]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[10]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-65, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	X59720 Genomic DNA. Translation: CAA42273.1. AY693176 Genomic DNA. Translation: AAT93195.1. BK006937 Genomic DNA. Translation: DAA07539.1.
PIR	S19482.
RefSeq	NP_009993.1. NM_001178778.1.
3D structure databases
ProteinModelPortal	P25365.
SMR	P25365. Positions 5-333.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-1173N.
IntAct	P25365. 1 interaction.
MINT	MINT-410531.
STRING	4932.YCR067C.
Proteomic databases
PaxDb	P25365.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YCR067C; YCR067C; YCR067C.
GeneID	850431.
KEGG	sce:YCR067C.
Organism-specific databases
CYGD	YCR067c.
SGD	S000000663. SED4.
Phylogenomic databases
eggNOG	NOG12793.
GeneTree	ENSGT00690000103233.
OrthoDB	EOG4GJ2Z1.
Enzyme and pathway databases
BioCyc	YEAST:G3O-29370-MONOMER.
Gene expression databases
Genevestigator	P25365.
GermOnline	YCR067C. Saccharomyces cerevisiae.
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. 1 hit. [Graphical view]
SMART	SM00320. WD40. 2 hits. [Graphical view]
SUPFAM	SSF50978. WD40_like. 1 hit.
PROSITE	PS00014. ER_TARGET. 1 hit. PS00678. WD_REPEATS_1. False negative. PS50082. WD_REPEATS_2. False negative. PS50294. WD_REPEATS_REGION. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	966015.

Entry information

Entry name

SED4_YEAST

Accession

Primary (citable) accession number: P25365
Secondary accession number(s): D6VR70

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 1, 1992
Last sequence update:	May 1, 1992
Last modified:	May 29, 2013
This is version 116 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program