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Protein

Glycophorin-B

Gene

GYPB

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

Functioni

This protein is a minor sialoglycoprotein in erythrocyte membranes.

Keywords - Molecular functioni

Blood group antigen

Keywords - Ligandi

Sialic acid

Enzyme and pathway databases

BioCyciZFISH:G66-31247-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Glycophorin-B
Alternative name(s):
PAS-3
SS-active sialoglycoprotein
Sialoglycoprotein delta
CD_antigen: CD235b
Gene namesi
Name:GYPB
Synonyms:GPB
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 4

Organism-specific databases

HGNCiHGNC:4703. GYPB.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini20 – 59ExtracellularSequence analysisAdd BLAST40
Transmembranei60 – 81HelicalSequence analysisAdd BLAST22
Topological domaini82 – 91CytoplasmicSequence analysis10

GO - Cellular componenti

  • integral component of plasma membrane Source: ProtInc
  • plasma membrane Source: ProtInc
Complete GO annotation...

Keywords - Cellular componenti

Cell membrane, Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi2994.
MalaCardsiGYPB.
MIMi111740. gene+phenotype.
OpenTargetsiENSG00000250361.
PharmGKBiPA29081.

Polymorphism and mutation databases

BioMutaiGYPB.
DMDMi380865467.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 193 PublicationsAdd BLAST19
ChainiPRO_000001213620 – 91Glycophorin-BAdd BLAST72

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Glycosylationi36O-linked (GalNAc...)1 Publication1
Glycosylationi38O-linked (GalNAc...)1 Publication1

Post-translational modificationi

The N-terminal extracellular domain is heavily glycosylated on serine and threonine residues.1 Publication

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei33Not glycosylated1
Sitei34Not glycosylated1

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiP06028.
PRIDEiP06028.

PTM databases

iPTMnetiP06028.
PhosphoSitePlusiP06028.
UniCarbKBiP06028.

Expressioni

Gene expression databases

BgeeiENSG00000250361.
CleanExiHS_GYPB.
ExpressionAtlasiP06028. baseline and differential.
GenevisibleiP06028. HS.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
UBQLN1Q9UMX03EBI-10194756,EBI-741480
UBQLN1Q9UMX0-23EBI-10194756,EBI-10173939

Protein-protein interaction databases

BioGridi109249. 48 interactors.
IntActiP06028. 1 interactor.
STRINGi9606.ENSP00000427690.

Structurei

3D structure databases

ProteinModelPortaliP06028.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the glycophorin-A family.Curated

Keywords - Domaini

Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410KCDX. Eukaryota.
ENOG4110P2G. LUCA.
GeneTreeiENSGT00840000131023.
HOGENOMiHOG000089933.
HOVERGENiHBG005850.
InParanoidiP06028.
KOiK06575.
OMAiIFEMTAV.
PhylomeDBiP06028.
TreeFamiTF338555.

Family and domain databases

InterProiIPR001195. Glycophorin.
IPR018938. Glycophorin_CS.
[Graphical view]
PANTHERiPTHR13813. PTHR13813. 1 hit.
PROSITEiPS00312. GLYCOPHORIN_A. 1 hit.
[Graphical view]

Sequences (2)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

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

Isoform 1 (identifier: P06028-1) [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
MYGKIIFVLL LSEIVSISAL STTEVAMHTS TSSSVTKSYI SSQTNGETGQ
60 70 80 90
LVHRFTVPAP VVIILIILCV MAGIIGTILL ISYSIRRLIK A
Length:91
Mass (Da):9,782
Last modified:March 21, 2012 - v3
Checksum:iEF15A64BAA929B7B
GO
Isoform 2 (identifier: P06028-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     13-45: Missing.

Show »
Length:58
Mass (Da):6,352
Checksum:i1DE98AE83FBB43A2
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti69C → S AA sequence (PubMed:3595615).Curated1
Sequence conflicti69C → S AA sequence (PubMed:3571235).Curated1

Polymorphismi

Along with GYPA, GYPB is responsible for the MNS blood group system. The molecular basis of the S/s blood group antigen is a single variation in position 48; Thr-48 corresponds to s=MSN4 and Met-48 to S=MNS3.

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_04794822T → S in M(v) antigen. 1 PublicationCorresponds to variant rs199937833dbSNPEnsembl.1
Natural variantiVAR_00319248T → M in S antigen and Mit antigen. 1 PublicationCorresponds to variant rs7683365dbSNPEnsembl.1
Natural variantiVAR_04794954R → H in Mit antigen. 1 PublicationCorresponds to variant rs370332485dbSNPEnsembl.1
Natural variantiVAR_04795058P → R in s(D) antigen. 1 PublicationCorresponds to variant rs374811215dbSNPEnsembl.1
Natural variantiVAR_03078584S → T.3 PublicationsCorresponds to variant rs1132783dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_04782413 – 45Missing in isoform 2. 1 PublicationAdd BLAST33

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02982 mRNA. Translation: AAA52573.1.
X08055 mRNA. Translation: CAB42645.1.
M24137
, M24130, M24131, M24135 Genomic DNA. Translation: AAA58626.1.
AY950609 mRNA. Translation: AAX53130.1.
AY950610 mRNA. Translation: AAX53131.1.
AY950611 mRNA. Translation: AAX53132.1.
EU338223 mRNA. Translation: ACA96781.1.
EU338235 mRNA. Translation: ACA96793.1.
AC093890 Genomic DNA. No translation available.
AC107223 Genomic DNA. No translation available.
AC110762 Genomic DNA. No translation available.
CH471056 Genomic DNA. Translation: EAX05058.1.
BC069310 mRNA. Translation: AAH69310.1.
BC121077 mRNA. Translation: AAI21078.1.
BC121078 mRNA. Translation: AAI21079.1.
M60708 Genomic DNA. Translation: AAC63048.1.
CCDSiCCDS54809.1. [P06028-1]
PIRiB33931.
RefSeqiNP_001291311.1. NM_001304382.1.
NP_002091.3. NM_002100.5.
UniGeneiHs.654368.

Genome annotation databases

EnsembliENST00000502664; ENSP00000427690; ENSG00000250361. [P06028-1]
ENST00000513128; ENSP00000425244; ENSG00000250361. [P06028-2]
GeneIDi2994.
KEGGihsa:2994.
UCSCiuc003ijm.2. human. [P06028-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Web resourcesi

dbRBC/BGMUT

Blood group antigen gene mutation database

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
J02982 mRNA. Translation: AAA52573.1.
X08055 mRNA. Translation: CAB42645.1.
M24137
, M24130, M24131, M24135 Genomic DNA. Translation: AAA58626.1.
AY950609 mRNA. Translation: AAX53130.1.
AY950610 mRNA. Translation: AAX53131.1.
AY950611 mRNA. Translation: AAX53132.1.
EU338223 mRNA. Translation: ACA96781.1.
EU338235 mRNA. Translation: ACA96793.1.
AC093890 Genomic DNA. No translation available.
AC107223 Genomic DNA. No translation available.
AC110762 Genomic DNA. No translation available.
CH471056 Genomic DNA. Translation: EAX05058.1.
BC069310 mRNA. Translation: AAH69310.1.
BC121077 mRNA. Translation: AAI21078.1.
BC121078 mRNA. Translation: AAI21079.1.
M60708 Genomic DNA. Translation: AAC63048.1.
CCDSiCCDS54809.1. [P06028-1]
PIRiB33931.
RefSeqiNP_001291311.1. NM_001304382.1.
NP_002091.3. NM_002100.5.
UniGeneiHs.654368.

3D structure databases

ProteinModelPortaliP06028.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi109249. 48 interactors.
IntActiP06028. 1 interactor.
STRINGi9606.ENSP00000427690.

PTM databases

iPTMnetiP06028.
PhosphoSitePlusiP06028.
UniCarbKBiP06028.

Polymorphism and mutation databases

BioMutaiGYPB.
DMDMi380865467.

Proteomic databases

PaxDbiP06028.
PRIDEiP06028.

Protocols and materials databases

DNASUi2994.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000502664; ENSP00000427690; ENSG00000250361. [P06028-1]
ENST00000513128; ENSP00000425244; ENSG00000250361. [P06028-2]
GeneIDi2994.
KEGGihsa:2994.
UCSCiuc003ijm.2. human. [P06028-1]

Organism-specific databases

CTDi2994.
DisGeNETi2994.
GeneCardsiGYPB.
HGNCiHGNC:4703. GYPB.
MalaCardsiGYPB.
MIMi111740. gene+phenotype.
neXtProtiNX_P06028.
OpenTargetsiENSG00000250361.
PharmGKBiPA29081.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410KCDX. Eukaryota.
ENOG4110P2G. LUCA.
GeneTreeiENSGT00840000131023.
HOGENOMiHOG000089933.
HOVERGENiHBG005850.
InParanoidiP06028.
KOiK06575.
OMAiIFEMTAV.
PhylomeDBiP06028.
TreeFamiTF338555.

Enzyme and pathway databases

BioCyciZFISH:G66-31247-MONOMER.

Miscellaneous databases

GeneWikiiGYPB.
GenomeRNAii2994.
PROiP06028.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000250361.
CleanExiHS_GYPB.
ExpressionAtlasiP06028. baseline and differential.
GenevisibleiP06028. HS.

Family and domain databases

InterProiIPR001195. Glycophorin.
IPR018938. Glycophorin_CS.
[Graphical view]
PANTHERiPTHR13813. PTHR13813. 1 hit.
PROSITEiPS00312. GLYCOPHORIN_A. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiGLPB_HUMAN
AccessioniPrimary (citable) accession number: P06028
Secondary accession number(s): B8Q174
, E2QBW7, Q0VAF4, Q58HE9, Q58HF0, Q58HF1, Q9UCH7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: March 21, 2012
Last modified: November 30, 2016
This is version 152 of the entry and version 3 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, Direct protein sequencing, Reference proteome

Documents

  1. Blood group antigen proteins
    Nomenclature of blood group antigens and list of entries
  2. Human cell differentiation molecules
    CD nomenclature of surface proteins of human leucocytes and list of entries
  3. Human chromosome 4
    Human chromosome 4: entries, gene names and cross-references to MIM
  4. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  5. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  6. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  7. 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.