Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

PH and SEC7 domain-containing protein 3

Gene

PSD3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Guanine nucleotide exchange factor for ARF6.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Guanine-nucleotide releasing factor

Names & Taxonomyi

Protein namesi
Recommended name:
PH and SEC7 domain-containing protein 3
Alternative name(s):
Epididymis tissue protein Li 20mP
Exchange factor for ADP-ribosylation factor guanine nucleotide factor 6
Hepatocellular carcinoma-associated antigen 67
Pleckstrin homology and SEC7 domain-containing protein 3
Gene namesi
Name:PSD3
Synonyms:EFA6R, HCA67, KIAA0942
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 8

Organism-specific databases

HGNCiHGNC:19093. PSD3.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cell membrane, Membrane, Postsynaptic cell membrane, Synapse

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA128394629.

Polymorphism and mutation databases

BioMutaiPSD3.
DMDMi160332377.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 10481048PH and SEC7 domain-containing protein 3PRO_0000120205Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei76 – 761PhosphoserineCombined sources
Modified residuei770 – 7701PhosphoserineCombined sources
Modified residuei1009 – 10091PhosphoserineBy similarity
Modified residuei1011 – 10111PhosphoserineBy similarity
Modified residuei1012 – 10121PhosphoserineBy similarity
Modified residuei1014 – 10141PhosphoserineBy similarity
Modified residuei1020 – 10201PhosphoserineCombined sources

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ9NYI0.
MaxQBiQ9NYI0.
PaxDbiQ9NYI0.
PeptideAtlasiQ9NYI0.
PRIDEiQ9NYI0.

PTM databases

iPTMnetiQ9NYI0.
PhosphoSiteiQ9NYI0.
SwissPalmiQ9NYI0.

Expressioni

Tissue specificityi

Isoform 2 is expressed in epididymis (at protein level).1 Publication

Gene expression databases

BgeeiQ9NYI0.
CleanExiHS_PSD3.
ExpressionAtlasiQ9NYI0. baseline and differential.
GenevisibleiQ9NYI0. HS.

Interactioni

Protein-protein interaction databases

BioGridi116943. 5 interactions.
IntActiQ9NYI0. 20 interactions.
STRINGi9606.ENSP00000324127.

Structurei

3D structure databases

ProteinModelPortaliQ9NYI0.
SMRiQ9NYI0. Positions 588-742, 786-991.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini534 – 734201SEC7PROSITE-ProRule annotationAdd
BLAST
Domaini785 – 898114PHPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili922 – 95231Sequence analysisAdd
BLAST

Sequence similaritiesi

Contains 1 PH domain.PROSITE-ProRule annotation
Contains 1 SEC7 domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiKOG0932. Eukaryota.
COG5307. LUCA.
GeneTreeiENSGT00760000119036.
HOGENOMiHOG000115732.
HOVERGENiHBG108299.
InParanoidiQ9NYI0.
KOiK12494.
OrthoDBiEOG7G7KNS.
PhylomeDBiQ9NYI0.
TreeFamiTF319755.

Family and domain databases

Gene3Di1.10.1000.11. 1 hit.
2.30.29.30. 1 hit.
InterProiIPR011993. PH_dom-like.
IPR001849. PH_domain.
IPR023394. Sec7_alpha_orthog.
IPR000904. Sec7_dom.
[Graphical view]
PfamiPF01369. Sec7. 1 hit.
[Graphical view]
SMARTiSM00233. PH. 1 hit.
SM00222. Sec7. 1 hit.
[Graphical view]
SUPFAMiSSF48425. SSF48425. 1 hit.
SSF50729. SSF50729. 1 hit.
PROSITEiPS50003. PH_DOMAIN. 1 hit.
PS50190. SEC7. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9NYI0-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MEGRSAAAET FVWVNNASAH SQSVAKAKYE FLFGRSEGKA PDTSDHGGST
60 70 80 90 100
LLPPNVTNEF PEYGTMEEGG EGLRASLEFD GEALPCHPQE QQGVQPLTGC
110 120 130 140 150
HSGLDSVTEG PKDVREAPSQ SHLKEQSLQP IDSLISALKA TEARIISGTL
160 170 180 190 200
QATKVLDQDA VSSFSVQQVE KELDTASRKT QRVNKTLPAG QKNLPEIPLS
210 220 230 240 250
AEVTTEESFY LSIQKDLTAL LTGDTQAEIS QIMNNGRKGA VCVQEPSCPL
260 270 280 290 300
ASLGSSAVTC HSAGSVGFLK EQRSALGREH PGGCDRSSSM GRPGRVKHVE
310 320 330 340 350
FQGVEILWTG GDKRETQHPI DFETSLQRTA SPDSKESSKV PRHLISSAGL
360 370 380 390 400
CNSSSLTENV WDESWKAPSE RPGTSSGTFS PVRLDESGED EVFLQENKQH
410 420 430 440 450
LEKTPKPERD RERISEQEEH VKGEDEDILG PGYTEDSTDV YSSQFETILD
460 470 480 490 500
NTSLYYSAES LETLYSEPDS YFSFEMPLTP MIQQRIKEGG QFLERTSGGG
510 520 530 540 550
HQDILSVSAD GGIVMGYSSG VTNGLNDASD SIYTKGTPEI AFWGSNAGVK
560 570 580 590 600
TTRLEAHSEM GSTEILEKET PENLSNGTSS NVEAAKRLAK RLYQLDRFKR
610 620 630 640 650
SDVAKHLGKN NEFSKLVAEE YLKFFDFTGM TLDQSLRYFF KAFSLVGETQ
660 670 680 690 700
ERERVLIHFS NRYFYCNPDT IASQDGVHCL TCAIMLLNTD LHGHVNIGKK
710 720 730 740 750
MTCQEFIANL QGVNEGVDFS KDLLKALYNS IKNEKLEWAV DDEEKKKSPS
760 770 780 790 800
ESTEEKANGT HPKTISRIGS TTNPFLDIPH DPNAAVYKSG FLARKIHADM
810 820 830 840 850
DGKKTPRGKR GWKTFYAVLK GTVLYLQKDE YKPEKALSEE DLKNAVSVHH
860 870 880 890 900
ALASKATDYE KKPNVFKLKT ADWRVLLFQT QSPEEMQGWI NKINCVAAVF
910 920 930 940 950
SAPPFPAAIG SQKKFSRPLL PATTTKLSQE EQLKSHESKL KQITTELAEH
960 970 980 990 1000
RSYPPDKKVK AKDVDEYKLK DHYLEFEKTR YEMYVSILKE GGKELLSNDE
1010 1020 1030 1040
SEAAGLKKSH SSPSLNPDTS PITAKVKRNV SERKDHRPET PSIKQKVT
Length:1,048
Mass (Da):116,034
Last modified:November 13, 2007 - v2
Checksum:iBE879B65AB390162
GO
Isoform 2 (identifier: Q9NYI0-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     695-695: Missing.

Show »
Length:1,047
Mass (Da):115,934
Checksum:i4DED4BCE8BA62E89
GO
Isoform 3 (identifier: Q9NYI0-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-534: Missing.
     535-545: KGTPEIAFWGS → MGSSWCLYGCC
     695-695: Missing.

Show »
Length:513
Mass (Da):58,077
Checksum:i1B78E20F34C4FD65
GO

Sequence cautioni

The sequence AAF61269.2 differs from that shown. Reason: Erroneous initiation. Curated
The sequence AAH75044.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence AAH75045.1 differs from that shown. Reason: Erroneous initiation. Curated
The sequence BAA76786.2 differs from that shown. Reason: Erroneous initiation. Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti186 – 1861T → M.
Corresponds to variant rs7016219 [ dbSNP | Ensembl ].
VAR_036947
Natural varianti186 – 1861T → P.
Corresponds to variant rs7003060 [ dbSNP | Ensembl ].
VAR_036948
Natural varianti293 – 2931P → L.
Corresponds to variant rs13263453 [ dbSNP | Ensembl ].
VAR_036949

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 534534Missing in isoform 3. 1 PublicationVSP_029155Add
BLAST
Alternative sequencei535 – 54511KGTPEIAFWGS → MGSSWCLYGCC in isoform 3. 1 PublicationVSP_029156Add
BLAST
Alternative sequencei695 – 6951Missing in isoform 2 and isoform 3. 3 PublicationsVSP_023029

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB023159 mRNA. Translation: BAA76786.2. Different initiation.
GU727648 mRNA. Translation: ADU87649.1.
AC009884 Genomic DNA. No translation available.
AC087821 Genomic DNA. No translation available.
AC090420 Genomic DNA. No translation available.
AC100800 Genomic DNA. No translation available.
AC120051 Genomic DNA. No translation available.
AF519767 mRNA. Translation: AAM74203.1.
AF243495 mRNA. Translation: AAF61269.2. Different initiation.
BC075044 mRNA. Translation: AAH75044.1. Different initiation.
BC075045 mRNA. Translation: AAH75045.1. Different initiation.
CCDSiCCDS34854.1. [Q9NYI0-3]
CCDS43720.1. [Q9NYI0-2]
RefSeqiNP_056125.3. NM_015310.3. [Q9NYI0-2]
NP_996792.1. NM_206909.2. [Q9NYI0-3]
UniGeneiHs.434255.

Genome annotation databases

EnsembliENST00000286485; ENSP00000286485; ENSG00000156011. [Q9NYI0-3]
ENST00000327040; ENSP00000324127; ENSG00000156011. [Q9NYI0-2]
ENST00000440756; ENSP00000401704; ENSG00000156011. [Q9NYI0-1]
GeneIDi23362.
KEGGihsa:23362.
UCSCiuc003wyy.4. human. [Q9NYI0-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB023159 mRNA. Translation: BAA76786.2. Different initiation.
GU727648 mRNA. Translation: ADU87649.1.
AC009884 Genomic DNA. No translation available.
AC087821 Genomic DNA. No translation available.
AC090420 Genomic DNA. No translation available.
AC100800 Genomic DNA. No translation available.
AC120051 Genomic DNA. No translation available.
AF519767 mRNA. Translation: AAM74203.1.
AF243495 mRNA. Translation: AAF61269.2. Different initiation.
BC075044 mRNA. Translation: AAH75044.1. Different initiation.
BC075045 mRNA. Translation: AAH75045.1. Different initiation.
CCDSiCCDS34854.1. [Q9NYI0-3]
CCDS43720.1. [Q9NYI0-2]
RefSeqiNP_056125.3. NM_015310.3. [Q9NYI0-2]
NP_996792.1. NM_206909.2. [Q9NYI0-3]
UniGeneiHs.434255.

3D structure databases

ProteinModelPortaliQ9NYI0.
SMRiQ9NYI0. Positions 588-742, 786-991.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi116943. 5 interactions.
IntActiQ9NYI0. 20 interactions.
STRINGi9606.ENSP00000324127.

PTM databases

iPTMnetiQ9NYI0.
PhosphoSiteiQ9NYI0.
SwissPalmiQ9NYI0.

Polymorphism and mutation databases

BioMutaiPSD3.
DMDMi160332377.

Proteomic databases

EPDiQ9NYI0.
MaxQBiQ9NYI0.
PaxDbiQ9NYI0.
PeptideAtlasiQ9NYI0.
PRIDEiQ9NYI0.

Protocols and materials databases

DNASUi23362.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000286485; ENSP00000286485; ENSG00000156011. [Q9NYI0-3]
ENST00000327040; ENSP00000324127; ENSG00000156011. [Q9NYI0-2]
ENST00000440756; ENSP00000401704; ENSG00000156011. [Q9NYI0-1]
GeneIDi23362.
KEGGihsa:23362.
UCSCiuc003wyy.4. human. [Q9NYI0-1]

Organism-specific databases

CTDi23362.
GeneCardsiPSD3.
H-InvDBHIX0007347.
HGNCiHGNC:19093. PSD3.
MIMi614440. gene.
neXtProtiNX_Q9NYI0.
PharmGKBiPA128394629.
HUGEiSearch...
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0932. Eukaryota.
COG5307. LUCA.
GeneTreeiENSGT00760000119036.
HOGENOMiHOG000115732.
HOVERGENiHBG108299.
InParanoidiQ9NYI0.
KOiK12494.
OrthoDBiEOG7G7KNS.
PhylomeDBiQ9NYI0.
TreeFamiTF319755.

Miscellaneous databases

ChiTaRSiPSD3. human.
GenomeRNAii23362.
PROiQ9NYI0.
SOURCEiSearch...

Gene expression databases

BgeeiQ9NYI0.
CleanExiHS_PSD3.
ExpressionAtlasiQ9NYI0. baseline and differential.
GenevisibleiQ9NYI0. HS.

Family and domain databases

Gene3Di1.10.1000.11. 1 hit.
2.30.29.30. 1 hit.
InterProiIPR011993. PH_dom-like.
IPR001849. PH_domain.
IPR023394. Sec7_alpha_orthog.
IPR000904. Sec7_dom.
[Graphical view]
PfamiPF01369. Sec7. 1 hit.
[Graphical view]
SMARTiSM00233. PH. 1 hit.
SM00222. Sec7. 1 hit.
[Graphical view]
SUPFAMiSSF48425. SSF48425. 1 hit.
SSF50729. SSF50729. 1 hit.
PROSITEiPS50003. PH_DOMAIN. 1 hit.
PS50190. SEC7. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Prediction of the coding sequences of unidentified human genes. XIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro."
    Nagase T., Ishikawa K., Suyama M., Kikuno R., Hirosawa M., Miyajima N., Tanaka A., Kotani H., Nomura N., Ohara O.
    DNA Res. 6:63-70(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3).
    Tissue: Brain.
  2. "Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones."
    Nakajima D., Okazaki N., Yamakawa H., Kikuno R., Ohara O., Nagase T.
    DNA Res. 9:99-106(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: SEQUENCE REVISION.
  3. "Systematic mapping and functional analysis of a family of human epididymal secretory sperm-located proteins."
    Li J., Liu F., Wang H., Liu X., Liu J., Li N., Wan F., Wang W., Zhang C., Jin S., Liu J., Zhu P., Liu Y.
    Mol. Cell. Proteomics 9:2517-2528(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), TISSUE SPECIFICITY.
    Tissue: Epididymis.
  4. "DNA sequence and analysis of human chromosome 8."
    Nusbaum C., Mikkelsen T.S., Zody M.C., Asakawa S., Taudien S., Garber M., Kodira C.D., Schueler M.G., Shimizu A., Whittaker C.A., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Yang X., Allen N.R., Anderson S., Asakawa T.
    , Blechschmidt K., Bloom T., Borowsky M.L., Butler J., Cook A., Corum B., DeArellano K., DeCaprio D., Dooley K.T., Dorris L. III, Engels R., Gloeckner G., Hafez N., Hagopian D.S., Hall J.L., Ishikawa S.K., Jaffe D.B., Kamat A., Kudoh J., Lehmann R., Lokitsang T., Macdonald P., Major J.E., Matthews C.D., Mauceli E., Menzel U., Mihalev A.H., Minoshima S., Murayama Y., Naylor J.W., Nicol R., Nguyen C., O'Leary S.B., O'Neill K., Parker S.C.J., Polley A., Raymond C.K., Reichwald K., Rodriguez J., Sasaki T., Schilhabel M., Siddiqui R., Smith C.L., Sneddon T.P., Talamas J.A., Tenzin P., Topham K., Venkataraman V., Wen G., Yamazaki S., Young S.K., Zeng Q., Zimmer A.R., Rosenthal A., Birren B.W., Platzer M., Shimizu N., Lander E.S.
    Nature 439:331-335(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  5. "Large scale identification of human hepatocellular carcinoma-associated antigens by autoantibodies."
    Wang Y., Han K.-J., Pang X.-W., Vaughan H.A., Qu W., Dong X.-Y., Peng J.-R., Zhao H.-T., Rui J.-A., Leng X.-S., Cebon J., Burgess A.W., Chen W.-F.
    J. Immunol. 169:1102-1109(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 500-1048 (ISOFORM 1).
    Tissue: Hepatoma.
  6. "Cloning and expression of EFA6R, an exchange factor of ARF6 homolog."
    Hong W., Tham J.M., Li H.
    Submitted (JUN-2002) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 500-1048 (ISOFORM 1).
  7. "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] OF 506-1048 (ISOFORMS 1 AND 2).
    Tissue: Brain.
  8. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-770 AND SER-1020, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  9. "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome."
    Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., Ye M., Zou H.
    J. Proteomics 96:253-262(2014) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-76, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.

Entry informationi

Entry nameiPSD3_HUMAN
AccessioniPrimary (citable) accession number: Q9NYI0
Secondary accession number(s): A6NFQ4
, E9KL50, Q6B003, Q9Y2F1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 10, 2003
Last sequence update: November 13, 2007
Last modified: July 6, 2016
This is version 137 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 8
    Human chromosome 8: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

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 one 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.