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P06028

- GLPB_HUMAN

UniProt

P06028 - GLPB_HUMAN

Protein

Glycophorin-B

Gene

GYPB

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

    This protein is a minor sialoglycoprotein in erythrocyte membranes.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei33 – 331Not glycosylated
    Sitei34 – 341Not glycosylated

    Keywords - Molecular functioni

    Blood group antigen

    Keywords - Ligandi

    Sialic acid

    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
    ProteomesiUP000005640: Chromosome 4

    Organism-specific databases

    HGNCiHGNC:4703. GYPB.

    Subcellular locationi

    GO - Cellular componenti

    1. integral component of plasma membrane Source: ProtInc
    2. plasma membrane Source: ProtInc

    Keywords - Cellular componenti

    Cell membrane, Membrane

    Pathology & Biotechi

    Organism-specific databases

    MIMi111740. gene+phenotype.
    PharmGKBiPA29081.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 19193 PublicationsAdd
    BLAST
    Chaini20 – 9172Glycophorin-BPRO_0000012136Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Glycosylationi36 – 361O-linked (GalNAc...)1 Publication
    Glycosylationi38 – 381O-linked (GalNAc...)1 Publication

    Post-translational modificationi

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

    Keywords - PTMi

    Glycoprotein

    PTM databases

    UniCarbKBiP06028.

    Expressioni

    Gene expression databases

    ArrayExpressiP06028.
    BgeeiP06028.
    CleanExiHS_GYPB.
    GenevestigatoriP06028.

    Structurei

    3D structure databases

    ProteinModelPortaliP06028.
    SMRiP06028. Positions 49-91.
    ModBaseiSearch...
    MobiDBiSearch...

    Topological domain

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Topological domaini20 – 5940ExtracellularSequence AnalysisAdd
    BLAST
    Topological domaini82 – 9110CytoplasmicSequence Analysis

    Transmembrane

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transmembranei60 – 8122HelicalSequence AnalysisAdd
    BLAST

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the glycophorin-A family.Curated

    Keywords - Domaini

    Signal, Transmembrane, Transmembrane helix

    Phylogenomic databases

    HOGENOMiHOG000089933.
    HOVERGENiHBG005850.
    KOiK06575.
    OMAiADSKERY.
    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. Align

    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

    MYGKIIFVLL LSEIVSISAL STTEVAMHTS TSSSVTKSYI SSQTNGETGQ   50
    LVHRFTVPAP VVIILIILCV MAGIIGTILL ISYSIRRLIK A 91
    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)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti69 – 691C → S AA sequence (PubMed:3595615)Curated
    Sequence conflicti69 – 691C → S AA sequence (PubMed:3571235)Curated

    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)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti22 – 221T → S in M(v) antigen. 1 Publication
    VAR_047948
    Natural varianti48 – 481T → M in S antigen and Mit antigen. 1 Publication
    Corresponds to variant rs7683365 [ dbSNP | Ensembl ].
    VAR_003192
    Natural varianti54 – 541R → H in Mit antigen. 1 Publication
    VAR_047949
    Natural varianti58 – 581P → R in s(D) antigen. 1 Publication
    VAR_047950
    Natural varianti84 – 841S → T.3 Publications
    Corresponds to variant rs1132783 [ dbSNP | Ensembl ].
    VAR_030785

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei13 – 4533Missing in isoform 2. 1 PublicationVSP_047824Add
    BLAST

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    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_002091.3. NM_002100.4.
    UniGeneiHs.654368.

    Genome annotation databases

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

    Polymorphism databases

    DMDMi380865467.

    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:
    EMBL
    GenBank
    DDBJ
    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 .
    CCDSi CCDS54809.1. [P06028-1 ]
    PIRi B33931.
    RefSeqi NP_002091.3. NM_002100.4.
    UniGenei Hs.654368.

    3D structure databases

    ProteinModelPortali P06028.
    SMRi P06028. Positions 49-91.
    ModBasei Search...
    MobiDBi Search...

    PTM databases

    UniCarbKBi P06028.

    Polymorphism databases

    DMDMi 380865467.

    Protocols and materials databases

    DNASUi 2994.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000502664 ; ENSP00000427690 ; ENSG00000250361 . [P06028-1 ]
    ENST00000513128 ; ENSP00000425244 ; ENSG00000250361 . [P06028-2 ]
    GeneIDi 2994.
    KEGGi hsa:2994.

    Organism-specific databases

    CTDi 2994.
    GeneCardsi GC04M144918.
    HGNCi HGNC:4703. GYPB.
    MIMi 111740. gene+phenotype.
    neXtProti NX_P06028.
    PharmGKBi PA29081.
    GenAtlasi Search...

    Phylogenomic databases

    HOGENOMi HOG000089933.
    HOVERGENi HBG005850.
    KOi K06575.
    OMAi ADSKERY.
    PhylomeDBi P06028.
    TreeFami TF338555.

    Miscellaneous databases

    GeneWikii GYPB.
    GenomeRNAii 2994.
    NextBioi 11866.
    PROi P06028.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi P06028.
    Bgeei P06028.
    CleanExi HS_GYPB.
    Genevestigatori P06028.

    Family and domain databases

    InterProi IPR001195. Glycophorin.
    IPR018938. Glycophorin_CS.
    [Graphical view ]
    PANTHERi PTHR13813. PTHR13813. 1 hit.
    PROSITEi PS00312. GLYCOPHORIN_A. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Molecular cloning of a human glycophorin B cDNA: nucleotide sequence and genomic relationship to glycophorin A."
      Siebert P.D., Fukuda M.
      Proc. Natl. Acad. Sci. U.S.A. 84:6735-6739(1987) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), VARIANT THR-84.
    2. "Isolation of cDNA clones for human erythrocyte membrane sialoglycoproteins alpha and delta."
      Tate C.G., Tanner M.J.A.
      Biochem. J. 254:743-750(1988) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    3. "Structural organization of glycophorin A and B genes: glycophorin B gene evolved by homologous recombination at Alu repeat sequences."
      Kudo S., Fukuda M.
      Proc. Natl. Acad. Sci. U.S.A. 86:4619-4623(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], VARIANT THR-84.
    4. "Extensive alternative splicing of glycophorins in Southeast Asian populations."
      Hsu K., Chi N., Lin M.
      Submitted (DEC-2007) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2), ALTERNATIVE SPLICING.
      Tissue: Blood.
    5. "Generation and annotation of the DNA sequences of human chromosomes 2 and 4."
      Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., Du H.
      , Sun H., Bradshaw-Cordum H., Ali J., Carter J., Cordes M., Harris A., Isak A., van Brunt A., Nguyen C., Du F., Courtney L., Kalicki J., Ozersky P., Abbott S., Armstrong J., Belter E.A., Caruso L., Cedroni M., Cotton M., Davidson T., Desai A., Elliott G., Erb T., Fronick C., Gaige T., Haakenson W., Haglund K., Holmes A., Harkins R., Kim K., Kruchowski S.S., Strong C.M., Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K., McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N., Swearengen-Shahid S., Snider J., Strong J.T., Thompson J., Yoakum M., Leonard S., Pearman C., Trani L., Radionenko M., Waligorski J.E., Wang C., Rock S.M., Tin-Wollam A.-M., Maupin R., Latreille P., Wendl M.C., Yang S.-P., Pohl C., Wallis J.W., Spieth J., Bieri T.A., Berkowicz N., Nelson J.O., Osborne J., Ding L., Meyer R., Sabo A., Shotland Y., Sinha P., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Jones T.A., She X., Ciccarelli F.D., Izaurralde E., Taylor J., Schmutz J., Myers R.M., Cox D.R., Huang X., McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C., Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S., Miller W., Eichler E.E., Bork P., Suyama M., Torrents D., Waterston R.H., Wilson R.K.
      Nature 434:724-731(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    6. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    7. "The low-incidence MNS antigens M(v), s(D), and Mit arise from single amino acid substitutions on GPB."
      Storry J.R., Reid M.E., MacLennan S., Lubenko A., Nortman P.
      Transfusion 41:269-275(2001) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), VARIANT M(V) SER-22, VARIANTS MIT MET-48 AND HIS-54, VARIANT S(D) ARG-58, VARIANT THR-84.
      Tissue: Blood.
    8. "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 1).
    9. "Molecular genetics of human erythrocyte MiIII and MiVI glycophorins. Use of a pseudoexon in construction of two delta-alpha-delta hybrid genes resulting in antigenic diversification."
      Huang C.-H., Blumenfeld O.O.
      J. Biol. Chem. 266:7248-7255(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 13-58.
      Tissue: Blood.
    10. "Hybrid glycophorins from human erythrocyte membranes. I. Isolation and complete structural analysis of the hybrid sialoglycoprotein from Dantu-positive red cells of the N.E. variety."
      Dahr W., Beyreuther K., Moulds J., Unger P.
      Eur. J. Biochem. 166:31-36(1987) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 20-90.
    11. "Glycophorins B and C from human erythrocyte membranes. Purification and sequence analysis."
      Blanchard D., Dahr W., Hummel M., Latron F., Beyreuther K., Cartron J.-P.
      J. Biol. Chem. 262:5808-5811(1987) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 20-90.
    12. "Molecular basis for the human erythrocyte glycophorin specifying the Miltenberger class I (MiI) phenotype."
      Huang C.-H., Spruell P., Moulds J.J., Blumenfeld O.O.
      Blood 80:257-263(1992) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 20-45.
    13. Cited for: PROTEIN SEQUENCE OF 20-40, GLYCOSYLATION AT THR-36 AND SER-38.

    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: October 1, 2014
    This is version 132 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

    External Data

    Dasty 3