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P25365 (SED4_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 122. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (3) | Third-party data text xml rdf/xml gff fasta
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Names and origin

Protein namesRecommended name:
Putative guanine nucleotide-exchange factor SED4
Gene names
Name:SED4
Ordered Locus Names:YCR067C
ORF Names:YCR67C, YCR901
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length1065 AA.
Sequence statusComplete.
Protein existenceEvidence 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.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 10651065Putative guanine nucleotide-exchange factor SED4
PRO_0000051211

Regions

Topological domain1 – 346346Cytoplasmic Potential
Transmembrane347 – 36519Helical; Signal-anchor for type II membrane protein
Topological domain366 – 1065700Lumenal Potential
Repeat259 – 29840WD 1
Repeat302 – 34140WD 2
Repeat824 – 833101
Repeat834 – 843102
Repeat844 – 853103
Repeat854 – 863104
Region824 – 863404 X 10 AA tandem repeats
Motif1062 – 10654Prevents secretion from ER Potential
Compositional bias467 – 47610Poly-Ser
Compositional bias579 – 59012Poly-Ser

Amino acid modifications

Modified residue651Phosphoserine Ref.10
Glycosylation3881N-linked (GlcNAc...) Potential
Glycosylation6201N-linked (GlcNAc...) Potential
Glycosylation10391N-linked (GlcNAc...) Potential

Sequences

Sequence LengthMass (Da)Tools
P25365 [UniParc].

Last modified May 1, 1992. Version 1.
Checksum: 0F1DAE0D428085A8

FASTA1,065114,079
        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 

« Hide

References

« Hide '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. expand/collapse author list , 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. expand/collapse author list , 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, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
+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.
PIRS19482.
RefSeqNP_009993.1. NM_001178778.1.

3D structure databases

ProteinModelPortalP25365.
SMRP25365. Positions 5-333.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid31043. 32 interactions.
DIPDIP-1173N.
IntActP25365. 1 interaction.
MINTMINT-410531.
STRING4932.YCR067C.

Proteomic databases

PaxDbP25365.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYCR067C; YCR067C; YCR067C.
GeneID850431.
KEGGsce:YCR067C.

Organism-specific databases

CYGDYCR067c.
SGDS000000663. SED4.

Phylogenomic databases

eggNOGNOG12793.
GeneTreeENSGT00690000103233.
OrthoDBEOG7CRV0N.

Enzyme and pathway databases

BioCycYEAST:G3O-29370-MONOMER.

Gene expression databases

GenevestigatorP25365.

Family and domain databases

Gene3D2.130.10.10. 1 hit.
InterProIPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamPF00400. WD40. 1 hit.
[Graphical view]
SMARTSM00320. WD40. 2 hits.
[Graphical view]
SUPFAMSSF50978. SSF50978. 1 hit.
PROSITEPS00014. ER_TARGET. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio966015.

Entry information

Entry nameSED4_YEAST
AccessionPrimary (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: April 16, 2014
This is version 122 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome III

Yeast (Saccharomyces cerevisiae) chromosome III: entries and gene names

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

SIMILARITY comments

Index of protein domains and families