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Protein

Variable charge X-linked protein 3B

Gene

VCX3B

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

May mediate a process in spermatogenesis or may play a role in sex ratio distortion.

GO - Biological processi

Complete GO annotation...

Names & Taxonomyi

Protein namesi
Recommended name:
Variable charge X-linked protein 3B
Alternative name(s):
Variably charged protein X-C
Short name:
VCX-C
Gene namesi
Name:VCX3B
Synonyms:VCXC
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome X

Organism-specific databases

HGNCiHGNC:31838. VCX3B.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134866686.

Polymorphism and mutation databases

BioMutaiVCX3B.
DMDMi166215027.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 246246Variable charge X-linked protein 3BPRO_0000184662Add
BLAST

Proteomic databases

PaxDbiQ9H321.
PRIDEiQ9H321.

PTM databases

iPTMnetiQ9H321.
PhosphoSiteiC9JS46.

Expressioni

Tissue specificityi

Expressed exclusively in testis.

Gene expression databases

BgeeiQ9H321.
CleanExiHS_VCX3B.
ExpressionAtlasiQ9H321. baseline and differential.
GenevisibleiQ9H321. HS.

Organism-specific databases

HPAiHPA044996.
HPA049357.

Interactioni

Protein-protein interaction databases

STRINGi9606.ENSP00000370420.

Structurei

3D structure databases

ProteinModelPortaliQ9H321.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati104 – 113101
Repeati114 – 123102
Repeati124 – 133103
Repeati134 – 143104
Repeati144 – 153105
Repeati154 – 163106
Repeati164 – 173107
Repeati174 – 183108
Repeati184 – 193109
Repeati194 – 2031010
Repeati204 – 2131011
Repeati214 – 2231012
Repeati224 – 2331013
Repeati234 – 2431014

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni104 – 24314014 X 10 AA tandem repeats of L-S-Q-E-S-[EQ]-V-E-E-PAdd
BLAST

Sequence similaritiesi

Belongs to the VCX/VCY family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiENOG410J6ZU. Eukaryota.
ENOG4111QYX. LUCA.
GeneTreeiENSGT00440000034745.
HOGENOMiHOG000074166.
InParanoidiQ9H321.
OMAiSDEPVCE.

Family and domain databases

InterProiIPR026653. VCX/VCY1.
[Graphical view]
PANTHERiPTHR15251. PTHR15251. 1 hit.
PfamiPF15231. VCX_VCY. 6 hits.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q9H321-1) [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
MSPKPRASGP PAKAKEAGKR KSSSQPSPSD PKKKTTKVAK KGKAVRRGRR
60 70 80 90 100
GKKGAATKMA AVTAPEAESG PAAPGPSDQP SQELPQHELP PEEPVSEGTQ
110 120 130 140 150
HDPLSQESEL EEPLSQESEV EEPLSQESQV EEPLSQESEV EEPLSQESQV
160 170 180 190 200
EEPLSQESEV EEPLSQESEV EEPLSQESQV EEPLSQESEV EEPLSQESQV
210 220 230 240
EEPLSQESEM EEPLSQESQV EEPLSQESEM EEPLSQESEM EELPSV
Length:246
Mass (Da):26,878
Last modified:April 16, 2014 - v4
Checksum:iBAEE4B909BE74AD7
GO
Isoform 2 (identifier: Q9H321-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     169-198: Missing.

Show »
Length:216
Mass (Da):23,494
Checksum:iE484B89804562E95
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti98 – 1025GTQHD → VEE in AAH98143 (PubMed:15489334).Curated
Sequence conflicti109 – 1102EL → QV in AAH98143 (PubMed:15489334).Curated
Sequence conflicti120 – 1201V → M in AAH98143 (PubMed:15489334).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti15 – 151K → T.1 Publication
Corresponds to variant rs5934423 [ dbSNP | Ensembl ].
VAR_037644

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei169 – 19830Missing in isoform 2. 2 PublicationsVSP_054105Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC006062 Genomic DNA. No translation available.
AF167080 mRNA. Translation: AAG41766.2.
BC098143 mRNA. Translation: AAH98143.1.
CCDSiCCDS48077.2. [Q9H321-1]
RefSeqiNP_001001888.3. NM_001001888.3. [Q9H321-1]
UniGeneiHs.279737.
Hs.534814.

Genome annotation databases

EnsembliENST00000381032; ENSP00000370420; ENSG00000205642. [Q9H321-1]
GeneIDi425054.
KEGGihsa:425054.
UCSCiuc011mht.3. human. [Q9H321-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AC006062 Genomic DNA. No translation available.
AF167080 mRNA. Translation: AAG41766.2.
BC098143 mRNA. Translation: AAH98143.1.
CCDSiCCDS48077.2. [Q9H321-1]
RefSeqiNP_001001888.3. NM_001001888.3. [Q9H321-1]
UniGeneiHs.279737.
Hs.534814.

3D structure databases

ProteinModelPortaliQ9H321.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi9606.ENSP00000370420.

PTM databases

iPTMnetiQ9H321.
PhosphoSiteiC9JS46.

Polymorphism and mutation databases

BioMutaiVCX3B.
DMDMi166215027.

Proteomic databases

PaxDbiQ9H321.
PRIDEiQ9H321.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000381032; ENSP00000370420; ENSG00000205642. [Q9H321-1]
GeneIDi425054.
KEGGihsa:425054.
UCSCiuc011mht.3. human. [Q9H321-1]

Organism-specific databases

CTDi425054.
GeneCardsiVCX3B.
HGNCiHGNC:31838. VCX3B.
HPAiHPA044996.
HPA049357.
neXtProtiNX_Q9H321.
PharmGKBiPA134866686.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410J6ZU. Eukaryota.
ENOG4111QYX. LUCA.
GeneTreeiENSGT00440000034745.
HOGENOMiHOG000074166.
InParanoidiQ9H321.
OMAiSDEPVCE.

Miscellaneous databases

GenomeRNAii425054.
PROiQ9H321.

Gene expression databases

BgeeiQ9H321.
CleanExiHS_VCX3B.
ExpressionAtlasiQ9H321. baseline and differential.
GenevisibleiQ9H321. HS.

Family and domain databases

InterProiIPR026653. VCX/VCY1.
[Graphical view]
PANTHERiPTHR15251. PTHR15251. 1 hit.
PfamiPF15231. VCX_VCY. 6 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The DNA sequence of the human X chromosome."
    Ross M.T., Grafham D.V., Coffey A.J., Scherer S., McLay K., Muzny D., Platzer M., Howell G.R., Burrows C., Bird C.P., Frankish A., Lovell F.L., Howe K.L., Ashurst J.L., Fulton R.S., Sudbrak R., Wen G., Jones M.C.
    , Hurles M.E., Andrews T.D., Scott C.E., Searle S., Ramser J., Whittaker A., Deadman R., Carter N.P., Hunt S.E., Chen R., Cree A., Gunaratne P., Havlak P., Hodgson A., Metzker M.L., Richards S., Scott G., Steffen D., Sodergren E., Wheeler D.A., Worley K.C., Ainscough R., Ambrose K.D., Ansari-Lari M.A., Aradhya S., Ashwell R.I., Babbage A.K., Bagguley C.L., Ballabio A., Banerjee R., Barker G.E., Barlow K.F., Barrett I.P., Bates K.N., Beare D.M., Beasley H., Beasley O., Beck A., Bethel G., Blechschmidt K., Brady N., Bray-Allen S., Bridgeman A.M., Brown A.J., Brown M.J., Bonnin D., Bruford E.A., Buhay C., Burch P., Burford D., Burgess J., Burrill W., Burton J., Bye J.M., Carder C., Carrel L., Chako J., Chapman J.C., Chavez D., Chen E., Chen G., Chen Y., Chen Z., Chinault C., Ciccodicola A., Clark S.Y., Clarke G., Clee C.M., Clegg S., Clerc-Blankenburg K., Clifford K., Cobley V., Cole C.G., Conquer J.S., Corby N., Connor R.E., David R., Davies J., Davis C., Davis J., Delgado O., Deshazo D., Dhami P., Ding Y., Dinh H., Dodsworth S., Draper H., Dugan-Rocha S., Dunham A., Dunn M., Durbin K.J., Dutta I., Eades T., Ellwood M., Emery-Cohen A., Errington H., Evans K.L., Faulkner L., Francis F., Frankland J., Fraser A.E., Galgoczy P., Gilbert J., Gill R., Gloeckner G., Gregory S.G., Gribble S., Griffiths C., Grocock R., Gu Y., Gwilliam R., Hamilton C., Hart E.A., Hawes A., Heath P.D., Heitmann K., Hennig S., Hernandez J., Hinzmann B., Ho S., Hoffs M., Howden P.J., Huckle E.J., Hume J., Hunt P.J., Hunt A.R., Isherwood J., Jacob L., Johnson D., Jones S., de Jong P.J., Joseph S.S., Keenan S., Kelly S., Kershaw J.K., Khan Z., Kioschis P., Klages S., Knights A.J., Kosiura A., Kovar-Smith C., Laird G.K., Langford C., Lawlor S., Leversha M., Lewis L., Liu W., Lloyd C., Lloyd D.M., Loulseged H., Loveland J.E., Lovell J.D., Lozado R., Lu J., Lyne R., Ma J., Maheshwari M., Matthews L.H., McDowall J., McLaren S., McMurray A., Meidl P., Meitinger T., Milne S., Miner G., Mistry S.L., Morgan M., Morris S., Mueller I., Mullikin J.C., Nguyen N., Nordsiek G., Nyakatura G., O'dell C.N., Okwuonu G., Palmer S., Pandian R., Parker D., Parrish J., Pasternak S., Patel D., Pearce A.V., Pearson D.M., Pelan S.E., Perez L., Porter K.M., Ramsey Y., Reichwald K., Rhodes S., Ridler K.A., Schlessinger D., Schueler M.G., Sehra H.K., Shaw-Smith C., Shen H., Sheridan E.M., Shownkeen R., Skuce C.D., Smith M.L., Sotheran E.C., Steingruber H.E., Steward C.A., Storey R., Swann R.M., Swarbreck D., Tabor P.E., Taudien S., Taylor T., Teague B., Thomas K., Thorpe A., Timms K., Tracey A., Trevanion S., Tromans A.C., d'Urso M., Verduzco D., Villasana D., Waldron L., Wall M., Wang Q., Warren J., Warry G.L., Wei X., West A., Whitehead S.L., Whiteley M.N., Wilkinson J.E., Willey D.L., Williams G., Williams L., Williamson A., Williamson H., Wilming L., Woodmansey R.L., Wray P.W., Yen J., Zhang J., Zhou J., Zoghbi H., Zorilla S., Buck D., Reinhardt R., Poustka A., Rosenthal A., Lehrach H., Meindl A., Minx P.J., Hillier L.W., Willard H.F., Wilson R.K., Waterston R.H., Rice C.M., Vaudin M., Coulson A., Nelson D.L., Weinstock G., Sulston J.E., Durbin R.M., Hubbard T., Gibbs R.A., Beck S., Rogers J., Bentley D.R.
    Nature 434:325-337(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  2. "A member of a gene family on Xp22.3, VCX-A, is deleted in patients with X-linked nonspecific mental retardation."
    Fukami M., Kirsch S., Schiller S., Richter A., Benes V., Franco B., Muroya K., Rao E., Merker S., Niesler B., Ballabio A., Ansorge W., Ogata T., Rappold G.A.
    Am. J. Hum. Genet. 67:563-573(2000) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), VARIANT THR-15.
  3. "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] (ISOFORM 2).

Entry informationi

Entry nameiVCX3B_HUMAN
AccessioniPrimary (citable) accession number: Q9H321
Secondary accession number(s): C9JS46, Q4KN12
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 16, 2001
Last sequence update: April 16, 2014
Last modified: June 8, 2016
This is version 85 of the entry and version 4 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 X
    Human chromosome X: 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. 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.