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Protein

Putative guanine nucleotide-exchange factor SED4

Gene

SED4

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

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 SEC23.3 Publications

GO - Molecular functioni

  • GTPase activator activity Source: SGD

GO - Biological processi

  • positive regulation of GTPase activity Source: SGD
  • protein transport Source: UniProtKB-KW
  • regulation of COPII vesicle coating Source: SGD
  • vesicle-mediated transport Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

GTPase activation

Keywords - Biological processi

ER-Golgi transport, Protein transport, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-29370-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Putative guanine nucleotide-exchange factor SED4
Gene namesi
Name:SED4
Ordered Locus Names:YCR067C
ORF Names:YCR67C, YCR901
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome III

Organism-specific databases

CYGDiYCR067c.
EuPathDBiFungiDB:YCR067C.
SGDiS000000663. SED4.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 346346CytoplasmicSequence AnalysisAdd
BLAST
Transmembranei347 – 36519Helical; Signal-anchor for type II membrane proteinAdd
BLAST
Topological domaini366 – 1065700LumenalSequence AnalysisAdd
BLAST

GO - Cellular componenti

  • Golgi membrane Source: UniProtKB-SubCell
  • integral component of endoplasmic reticulum membrane Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Endoplasmic reticulum, Golgi apparatus, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10651065Putative guanine nucleotide-exchange factor SED4PRO_0000051211Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei65 – 651Phosphoserine1 Publication
Glycosylationi388 – 3881N-linked (GlcNAc...)Sequence Analysis
Glycosylationi620 – 6201N-linked (GlcNAc...)Sequence Analysis
Glycosylationi1039 – 10391N-linked (GlcNAc...)Sequence Analysis

Keywords - PTMi

Glycoprotein, Phosphoprotein

Proteomic databases

MaxQBiP25365.
PaxDbiP25365.

Interactioni

Protein-protein interaction databases

BioGridi31043. 33 interactions.
DIPiDIP-1173N.
IntActiP25365. 1 interaction.
MINTiMINT-410531.

Structurei

3D structure databases

ProteinModelPortaliP25365.
SMRiP25365. Positions 5-333.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati259 – 29840WD 1Add
BLAST
Repeati302 – 34140WD 2Add
BLAST
Repeati824 – 833101
Repeati834 – 843102
Repeati844 – 853103
Repeati854 – 863104

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni824 – 863404 X 10 AA tandem repeatsAdd
BLAST

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi1062 – 10654Prevents secretion from ERPROSITE-ProRule annotation

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi467 – 47610Poly-Ser
Compositional biasi579 – 59012Poly-SerAdd
BLAST

Sequence similaritiesi

Belongs to the WD repeat SEC12 family.Curated
Contains 2 WD repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, Signal-anchor, Transmembrane, Transmembrane helix, WD repeat

Phylogenomic databases

eggNOGiNOG12793.
GeneTreeiENSGT00690000103233.
InParanoidiP25365.
OrthoDBiEOG7CRV0N.

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. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 2 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS00014. ER_TARGET. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P25365-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSGNSANYDV GYPIYGAKFI NEGTLLVAGG GGQFNSSFPN KITALKVNFQ
60 70 80 90 100
KKKHIRRFRE ITLDSIDDAP TSLDCNNNLI LVGCNELFND SSMENVNHHL
110 120 130 140 150
RKFVFEQEHL KFVASIDFNR TTDPSVFTKF VYINQRATVA AIASSEVPTV
160 170 180 190 200
IRIIDPRNLT ENYEIETGRE VNDLHFAPNG ILLSYITSNS LEVASVRDGN
210 220 230 240 250
FVARKTDFDK NLVLSNIRFL NDNTLLVAAS LSNSDGVSLL KLGVSSKGVK
260 270 280 290 300
ILKTASFMFD LNGITSMDVS PNKKFVALSS NDNLVAIVSV EKLKLVQLVP
310 320 330 340 350
RVHESTITKV TFSPDSRYLA STSMGNTINV LKLSGTSSSI LRNIWKFFLN
360 370 380 390 400
FVLLVVLAGA IQLGYKHNVH GFIYKHAHDI YKSKFKENTT IDQGSSSYFT
410 420 430 440 450
INDDYRGITE SADIISATDV ASDIETEFSS FDTSTMRTTT EDEQKFVWIS
460 470 480 490 500
SSADSQFTSA DIPTSASSSS SSSSSSFYEE SVTNEPIVSS PTSEITKPLA
510 520 530 540 550
SPTEPNIVEK PSLPLNSESI DLLSSSSNSI TEYPEPTPDL EEKLSSLIVE
560 570 580 590 600
QSESEITTDR ESVSKLLSTE SPSLSHMPSS SSSSLSLSSS LTTSPTTALS
610 620 630 640 650
TSTATAVTTT QTNPTNDAAN TSFLDNSKPA STREIYKTKI ITEVITKIEY
660 670 680 690 700
RNIPASDSNA EAEQYVTTSS SMLLTPTDTM VSSPVSEIDP IASELERMVE
710 720 730 740 750
TPTHSISIAS EFDSVASNLI PNEEILSTSA SQDSISSHPS TFSDSSITSG
760 770 780 790 800
FQSIEVSTVT SSVLASESIP SISDSTFSKF HSISEPVSSA IVETATSSFS
810 820 830 840 850
KTETKTSRVI AFSTEDSERS SALIDNSEYT SVLADNLEPT SVLADNSEPT
860 870 880 890 900
SVLADSSEPT SVFTDAVQSP KTSVGQSSLS ESTNIEGTSM ASMIFSSSGA
910 920 930 940 950
SIGALSDIGK GTLSVESASS TVAQPMPGVT TTAPSFVSSP HKISASSIDA
960 970 980 990 1000
SGFVQKEIMI EVQSSKDSSE AFGVRHKISE NVNTPVSRML TTEMQASGTV
1010 1020 1030 1040 1050
DVTEDVSLSS EVISALNVEI TSLPNPVAPP QTIAAPLNNN SNTNIVNDDN
1060
AVAGTVNYAG LHDEL
Length:1,065
Mass (Da):114,079
Last modified:May 1, 1992 - v1
Checksum:i0F1DAE0D428085A8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59720 Genomic DNA. Translation: CAA42273.1.
AY693176 Genomic DNA. Translation: AAT93195.1.
BK006937 Genomic DNA. Translation: DAA07539.1.
PIRiS19482.
RefSeqiNP_009993.1. NM_001178778.1.

Genome annotation databases

EnsemblFungiiYCR067C; YCR067C; YCR067C.
GeneIDi850431.
KEGGisce:YCR067C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X59720 Genomic DNA. Translation: CAA42273.1.
AY693176 Genomic DNA. Translation: AAT93195.1.
BK006937 Genomic DNA. Translation: DAA07539.1.
PIRiS19482.
RefSeqiNP_009993.1. NM_001178778.1.

3D structure databases

ProteinModelPortaliP25365.
SMRiP25365. Positions 5-333.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31043. 33 interactions.
DIPiDIP-1173N.
IntActiP25365. 1 interaction.
MINTiMINT-410531.

Proteomic databases

MaxQBiP25365.
PaxDbiP25365.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYCR067C; YCR067C; YCR067C.
GeneIDi850431.
KEGGisce:YCR067C.

Organism-specific databases

CYGDiYCR067c.
EuPathDBiFungiDB:YCR067C.
SGDiS000000663. SED4.

Phylogenomic databases

eggNOGiNOG12793.
GeneTreeiENSGT00690000103233.
InParanoidiP25365.
OrthoDBiEOG7CRV0N.

Enzyme and pathway databases

BioCyciYEAST:G3O-29370-MONOMER.

Miscellaneous databases

NextBioi966015.
PROiP25365.

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. 1 hit.
[Graphical view]
SMARTiSM00320. WD40. 2 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS00014. ER_TARGET. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. 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. 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].

Entry informationi

Entry nameiSED4_YEAST
AccessioniPrimary (citable) accession number: P25365
Secondary accession number(s): D6VR70
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 1992
Last sequence update: May 1, 1992
Last modified: July 22, 2015
This is version 131 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome III
    Yeast (Saccharomyces cerevisiae) chromosome III: entries and gene names

External Data

Dasty 3

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 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.