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O15347

- HMGB3_HUMAN

UniProt

O15347 - HMGB3_HUMAN

Protein

High mobility group protein B3

Gene

HMGB3

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 124 (01 Oct 2014)
      Sequence version 4 (23 Jan 2007)
      Previous versions | rss
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    Functioni

    Binds preferentially single-stranded DNA and unwinds double-stranded DNA.By similarity

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi9 – 7971HMG box 1PROSITE-ProRule annotationAdd
    BLAST
    DNA bindingi93 – 16169HMG box 2PROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. DNA binding, bending Source: UniProtKB
    2. double-stranded DNA binding Source: UniProtKB
    3. poly(A) RNA binding Source: UniProtKB

    GO - Biological processi

    1. DNA recombination Source: UniProtKB
    2. multicellular organismal development Source: ProtInc

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    High mobility group protein B3
    Alternative name(s):
    High mobility group protein 2a
    Short name:
    HMG-2a
    High mobility group protein 4
    Short name:
    HMG-4
    Gene namesi
    Name:HMGB3
    Synonyms:HMG2A, HMG4
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome X

    Organism-specific databases

    HGNCiHGNC:5004. HMGB3.

    Subcellular locationi

    Nucleus PROSITE-ProRule annotation. Chromosome By similarity

    GO - Cellular componenti

    1. chromosome Source: UniProtKB-SubCell
    2. nucleus Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Chromosome, Nucleus

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA35092.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 200200High mobility group protein B3PRO_0000048539Add
    BLAST

    Proteomic databases

    MaxQBiO15347.
    PaxDbiO15347.
    PeptideAtlasiO15347.
    PRIDEiO15347.

    PTM databases

    PhosphoSiteiO15347.

    Expressioni

    Tissue specificityi

    Expressed predominantly in placenta.

    Gene expression databases

    ArrayExpressiO15347.
    BgeeiO15347.
    CleanExiHS_HMGB3.
    GenevestigatoriO15347.

    Organism-specific databases

    HPAiHPA062583.

    Interactioni

    Protein-protein interaction databases

    BioGridi109392. 18 interactions.
    IntActiO15347. 1 interaction.
    MINTiMINT-5002211.
    STRINGi9606.ENSP00000359393.

    Structurei

    Secondary structure

    1
    200
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Beta strandi6 – 83
    Helixi15 – 3016
    Helixi38 – 5013
    Helixi54 – 7825
    Helixi99 – 11416
    Helixi120 – 13314
    Helixi136 – 16025

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    2EQZNMR-A1-79[»]
    2YQINMR-A91-164[»]
    ProteinModelPortaliO15347.
    SMRiO15347. Positions 1-164.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiO15347.

    Family & Domainsi

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi181 – 20020Asp/Glu-rich (acidic)Add
    BLAST

    Sequence similaritiesi

    Belongs to the HMGB family.Curated
    Contains 2 HMG box DNA-binding domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiNOG320947.
    HOGENOMiHOG000197861.
    HOVERGENiHBG009000.
    InParanoidiO15347.
    KOiK11296.
    OMAiNEKQPYN.
    PhylomeDBiO15347.
    TreeFamiTF105371.

    Family and domain databases

    Gene3Di1.10.30.10. 2 hits.
    InterProiIPR009071. HMG_box_dom.
    IPR017967. HMG_boxA_CS.
    [Graphical view]
    PfamiPF00505. HMG_box. 1 hit.
    PF09011. HMG_box_2. 1 hit.
    [Graphical view]
    SMARTiSM00398. HMG. 2 hits.
    [Graphical view]
    SUPFAMiSSF47095. SSF47095. 2 hits.
    PROSITEiPS00353. HMG_BOX_1. 1 hit.
    PS50118. HMG_BOX_2. 2 hits.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O15347-1 [UniParc]FASTAAdd to Basket

    « Hide

    MAKGDPKKPK GKMSAYAFFV QTCREEHKKK NPEVPVNFAE FSKKCSERWK    50
    TMSGKEKSKF DEMAKADKVR YDREMKDYGP AKGGKKKKDP NAPKRPPSGF 100
    FLFCSEFRPK IKSTNPGISI GDVAKKLGEM WNNLNDSEKQ PYITKAAKLK 150
    EKYEKDVADY KSKGKFDGAK GPAKVARKKV EEEDEEEEEE EEEEEEEEDE 200
    Length:200
    Mass (Da):22,980
    Last modified:January 23, 2007 - v4
    Checksum:i31C090FAA4D581E6
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti13 – 131M → T in CAA71143. (PubMed:9370291)Curated
    Sequence conflicti52 – 521M → V in CAA71143. (PubMed:9370291)Curated
    Sequence conflicti187 – 1871E → Q in CAA71143. (PubMed:9370291)Curated

    Natural variant

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Natural varianti51 – 511T → A.
    Corresponds to variant rs16995792 [ dbSNP | Ensembl ].
    VAR_049558
    Natural varianti56 – 561E → Q.1 Publication
    VAR_064162

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y10043 mRNA. Translation: CAA71143.1.
    AF003626 Genomic DNA. No translation available.
    BC070482 mRNA. Translation: AAH70482.1.
    CCDSiCCDS35428.1.
    RefSeqiNP_005333.2. NM_005342.2.
    XP_005274724.1. XM_005274667.1.
    UniGeneiHs.19114.

    Genome annotation databases

    EnsembliENST00000325307; ENSP00000359393; ENSG00000029993.
    ENST00000448905; ENSP00000442758; ENSG00000029993.
    GeneIDi3149.
    KEGGihsa:3149.
    UCSCiuc004fep.3. human.

    Keywords - Coding sequence diversityi

    Polymorphism

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Y10043 mRNA. Translation: CAA71143.1 .
    AF003626 Genomic DNA. No translation available.
    BC070482 mRNA. Translation: AAH70482.1 .
    CCDSi CCDS35428.1.
    RefSeqi NP_005333.2. NM_005342.2.
    XP_005274724.1. XM_005274667.1.
    UniGenei Hs.19114.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    2EQZ NMR - A 1-79 [» ]
    2YQI NMR - A 91-164 [» ]
    ProteinModelPortali O15347.
    SMRi O15347. Positions 1-164.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 109392. 18 interactions.
    IntActi O15347. 1 interaction.
    MINTi MINT-5002211.
    STRINGi 9606.ENSP00000359393.

    PTM databases

    PhosphoSitei O15347.

    Proteomic databases

    MaxQBi O15347.
    PaxDbi O15347.
    PeptideAtlasi O15347.
    PRIDEi O15347.

    Protocols and materials databases

    DNASUi 3149.
    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000325307 ; ENSP00000359393 ; ENSG00000029993 .
    ENST00000448905 ; ENSP00000442758 ; ENSG00000029993 .
    GeneIDi 3149.
    KEGGi hsa:3149.
    UCSCi uc004fep.3. human.

    Organism-specific databases

    CTDi 3149.
    GeneCardsi GC0XP150148.
    HGNCi HGNC:5004. HMGB3.
    HPAi HPA062583.
    MIMi 300193. gene.
    neXtProti NX_O15347.
    PharmGKBi PA35092.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG320947.
    HOGENOMi HOG000197861.
    HOVERGENi HBG009000.
    InParanoidi O15347.
    KOi K11296.
    OMAi NEKQPYN.
    PhylomeDBi O15347.
    TreeFami TF105371.

    Miscellaneous databases

    EvolutionaryTracei O15347.
    GeneWikii HMGB3.
    GenomeRNAii 3149.
    NextBioi 12480.
    PROi O15347.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi O15347.
    Bgeei O15347.
    CleanExi HS_HMGB3.
    Genevestigatori O15347.

    Family and domain databases

    Gene3Di 1.10.30.10. 2 hits.
    InterProi IPR009071. HMG_box_dom.
    IPR017967. HMG_boxA_CS.
    [Graphical view ]
    Pfami PF00505. HMG_box. 1 hit.
    PF09011. HMG_box_2. 1 hit.
    [Graphical view ]
    SMARTi SM00398. HMG. 2 hits.
    [Graphical view ]
    SUPFAMi SSF47095. SSF47095. 2 hits.
    PROSITEi PS00353. HMG_BOX_1. 1 hit.
    PS50118. HMG_BOX_2. 2 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Isolation of human and mouse HMG2a cDNAs: evidence for an HMG2a-specific 3' untranslated region."
      Wilke K., Wiemann S., Gaul R., Gong W., Poustka A.
      Gene 198:269-274(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    2. "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].
    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].
      Tissue: Eye.
    4. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    5. "Solution structure of the first and second HMG-box domain from high mobility group protein B3."
      RIKEN structural genomics initiative (RSGI)
      Submitted (APR-2008) to the PDB data bank
      Cited for: STRUCTURE BY NMR OF 1-164.
    6. Cited for: VARIANT GLN-56.

    Entry informationi

    Entry nameiHMGB3_HUMAN
    AccessioniPrimary (citable) accession number: O15347
    Secondary accession number(s): O95556, Q6NS40
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: March 27, 2002
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 124 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

    3D-structure, 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. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    5. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references
    6. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3