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Q05722

- CO9A1_MOUSE

UniProt

Q05722 - CO9A1_MOUSE

Protein

Collagen alpha-1(IX) chain

Gene

Col9a1

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 126 (01 Oct 2014)
      Sequence version 2 (15 Jul 1999)
      Previous versions | rss
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    Functioni

    Structural component of hyaline cartilage and vitreous of the eye.

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi213 – 2131ZincBy similarity
    Metal bindingi215 – 2151ZincBy similarity
    Metal bindingi253 – 2531ZincBy similarity

    GO - Molecular functioni

    1. metal ion binding Source: UniProtKB-KW

    GO - Biological processi

    1. cartilage development Source: MGI
    2. growth plate cartilage development Source: MGI
    3. tissue homeostasis Source: MGI

    Keywords - Ligandi

    Metal-binding, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Collagen alpha-1(IX) chain
    Gene namesi
    Name:Col9a1
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Unplaced

    Organism-specific databases

    MGIiMGI:88465. Col9a1.

    Subcellular locationi

    GO - Cellular componenti

    1. collagen trimer Source: UniProtKB-KW
    2. proteinaceous extracellular matrix Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Extracellular matrix, Secreted

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 2323Sequence AnalysisAdd
    BLAST
    Chaini24 – 921898Collagen alpha-1(IX) chainPRO_0000005766Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Disulfide bondi44 ↔ 242By similarity
    Disulfide bondi198 ↔ 252By similarity
    Disulfide bondi411 – 411InterchainBy similarity
    Disulfide bondi415 – 415InterchainBy similarity

    Post-translational modificationi

    Covalently linked to the telopeptides of type II collagen by lysine-derived cross-links.
    Prolines at the third position of the tripeptide repeating unit (G-X-Y) are hydroxylated in some or all of the chains.

    Keywords - PTMi

    Disulfide bond, Hydroxylation

    Proteomic databases

    PaxDbiQ05722.
    PRIDEiQ05722.

    PTM databases

    PhosphoSiteiQ05722.

    Expressioni

    Gene expression databases

    CleanExiMM_COL9A1.
    GenevestigatoriQ05722.

    Interactioni

    Subunit structurei

    Heterotrimer of an alpha 1(IX), an alpha 2(IX) and an alpha 3(IX) chain.

    Structurei

    3D structure databases

    ProteinModelPortaliQ05722.
    SMRiQ05722. Positions 42-256.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini50 – 244195Laminin G-likeAdd
    BLAST
    Domaini269 – 32557Collagen-like 1Add
    BLAST
    Domaini326 – 35631Collagen-like 2Add
    BLAST
    Domaini358 – 40346Collagen-like 3Add
    BLAST
    Domaini416 – 47257Collagen-like 4Add
    BLAST
    Domaini473 – 51240Collagen-like 5Add
    BLAST
    Domaini604 – 65653Collagen-like 6Add
    BLAST
    Domaini657 – 71155Collagen-like 7Add
    BLAST
    Domaini712 – 75544Collagen-like 8Add
    BLAST
    Domaini790 – 84758Collagen-like 9Add
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni24 – 268245Nonhelical region (NC4)Add
    BLAST
    Regioni269 – 405137Triple-helical region (COL3)Add
    BLAST
    Regioni406 – 41712Nonhelical region (NC3)Add
    BLAST
    Regioni418 – 756339Triple-helical region (COL2)Add
    BLAST
    Regioni757 – 78630Nonhelical region (NC2)Add
    BLAST
    Regioni787 – 901115Triple-helical region (COL1)Add
    BLAST
    Regioni902 – 92120Nonhelical region (NC1)Add
    BLAST

    Domaini

    Each subunit is composed of three triple-helical domains interspersed with non-collagenous domains. The globular domain at the N-terminus of type IX collagen molecules represents the NC4 domain which may participate in electrostatic interactions with polyanionic glycosaminoglycans in cartilage.

    Sequence similaritiesi

    Contains 9 collagen-like domains.Curated
    Contains 1 laminin G-like domain.Curated

    Keywords - Domaini

    Collagen, Repeat, Signal

    Phylogenomic databases

    eggNOGiNOG12793.
    HOGENOMiHOG000085653.
    HOVERGENiHBG004933.
    InParanoidiQ05722.
    KOiK08131.
    PhylomeDBiQ05722.

    Family and domain databases

    InterProiIPR008160. Collagen.
    IPR008985. ConA-like_lec_gl_sf.
    IPR001791. Laminin_G.
    [Graphical view]
    PfamiPF01391. Collagen. 9 hits.
    [Graphical view]
    SMARTiSM00210. TSPN. 1 hit.
    [Graphical view]
    SUPFAMiSSF49899. SSF49899. 1 hit.

    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

    Note: Additional isoforms seem to exist.

    Isoform Long (identifier: Q05722-1) [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

    MKNFWKISVF FCVCSCLGPW VSATLKRRAR FPANSISNGG SELCPKIRIG    50
    QDDLPGFDLI SQFQIEKAAS RRTIQRVVGS TALQVAYKLG SNVDFRIPTR 100
    HLYPSGLPEE YSFLTTFRMT GSTLEKHWNI WQIQDSAGRE QVGVKINGQT 150
    KSVAFSYKGL DGSLQTAAFL NLPSLFDSRW HKLMIGVERT SATLFIDCIR 200
    IESLPIKPRG QIDADGFAVL GKLVDNPQVS VPFELQWMLI HCDPLRPRRE 250
    TCHELPIRIT TSQTTDERGP PGEQGPPGPP GPPGVPGIDG IDGDRGPKGP 300
    PGPPGPPGDP GKPGAPGKPG TPGADGLTGP DGSPGSVGPR GQKGEPGVPG 350
    SRGFPGRGIP GPPGPPGTTG LPGELGRVGP IGDPGKRGPP GPPGPPGPSG 400
    TIGFHDGDPL CPNSCPPGRS GYPGLPGMRG HKGAKGEIGE PGRQGHKGEE 450
    GDQGELGEVG AQGPPGPQGL RGITGIVGDK GEKGARGFDG EPGPQGIPGA 500
    AGDQGQRGPP GETGPKGDRG IQGSRGIPGS PGPKGDTGLP GVDGRDGIPG 550
    MPGTKGEAGK PGPPGDVGLQ GLPGVPGIPG AKGVAGEKGN TGAPGKPGQL 600
    GSSGKPGQQG PPGEVGPRGP RGLPGSRGPV GPEGSPGIPG KLGSVGSPGL 650
    PGLPGPPGLP GMKGDRGVFG EPGPKGEQGA SGEEGEAGAR GDLGDMGQPG 700
    PKGSVGNPGE PGLRGPEGIR GLPGVEGPRG PPGPRGMQGE QGATGLPGIQ 750
    GPPGRAPTDQ HIKQVCMRVV QEHFVEMAAS LKRPDTGASG LPGRPGPPGP 800
    PGPPGENGFP GQMGIRGLPG IKGPPGALGL RGPKGDLGEK GERGPPGRGP 850
    KGLPGAIGLP GDPGPASYGK NGRDGEQGPP GVAGIPGVPG PPGPPGPPGF 900
    CEPASCTLQS GQRAFSKGPD K 921
    Length:921
    Mass (Da):92,092
    Last modified:July 15, 1999 - v2
    Checksum:iBC79177D36DCFFFC
    GO
    Isoform Short (identifier: Q05722-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-260: Missing.
         261-261: T → MAWAAWGRGVLGLSLMLSGLRLCAAQT

    Show »
    Length:687
    Mass (Da):65,493
    Checksum:i9F20E93756155B19
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti110 – 1101E → R in AAA21834. (PubMed:8061915)Curated
    Sequence conflicti238 – 2381M → V in AAA21834. (PubMed:8061915)Curated
    Sequence conflicti289 – 2891D → G in AAA21834. (PubMed:8061915)Curated
    Sequence conflicti461 – 4611A → D in AAA21834. (PubMed:8061915)Curated
    Sequence conflicti516 – 5161K → E in AAA21834. (PubMed:8061915)Curated
    Sequence conflicti569 – 5702LQ → IA in AAA21834. (PubMed:8061915)Curated
    Sequence conflicti740 – 7401E → D in AAA21834. (PubMed:8061915)Curated
    Sequence conflicti775 – 7751V → A in AAA21834. (PubMed:8061915)Curated
    Sequence conflicti775 – 7751V → A in CAA41049. (PubMed:2054384)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 260260Missing in isoform Short. CuratedVSP_001143Add
    BLAST
    Alternative sequencei261 – 2611T → MAWAAWGRGVLGLSLMLSGL RLCAAQT in isoform Short. CuratedVSP_001144

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    D17511 mRNA. Translation: BAA04463.1.
    L12215 mRNA. Translation: AAA21834.1.
    X57984 Genomic DNA. Translation: CAA41049.1.
    M32136, M32132 Genomic DNA. Translation: AAA53523.1.
    M32136, M32134 Genomic DNA. Translation: AAA53522.1.
    CCDSiCCDS35527.1. [Q05722-1]
    PIRiA35980.
    S40495.
    S42617.
    RefSeqiNP_031766.3. NM_007740.3.
    UniGeneiMm.154662.

    Genome annotation databases

    GeneIDi12839.
    KEGGimmu:12839.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    D17511 mRNA. Translation: BAA04463.1 .
    L12215 mRNA. Translation: AAA21834.1 .
    X57984 Genomic DNA. Translation: CAA41049.1 .
    M32136 , M32132 Genomic DNA. Translation: AAA53523.1 .
    M32136 , M32134 Genomic DNA. Translation: AAA53522.1 .
    CCDSi CCDS35527.1. [Q05722-1 ]
    PIRi A35980.
    S40495.
    S42617.
    RefSeqi NP_031766.3. NM_007740.3.
    UniGenei Mm.154662.

    3D structure databases

    ProteinModelPortali Q05722.
    SMRi Q05722. Positions 42-256.
    ModBasei Search...
    MobiDBi Search...

    PTM databases

    PhosphoSitei Q05722.

    Proteomic databases

    PaxDbi Q05722.
    PRIDEi Q05722.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    GeneIDi 12839.
    KEGGi mmu:12839.

    Organism-specific databases

    CTDi 1297.
    MGIi MGI:88465. Col9a1.

    Phylogenomic databases

    eggNOGi NOG12793.
    HOGENOMi HOG000085653.
    HOVERGENi HBG004933.
    InParanoidi Q05722.
    KOi K08131.
    PhylomeDBi Q05722.

    Miscellaneous databases

    NextBioi 282364.
    PROi Q05722.
    SOURCEi Search...

    Gene expression databases

    CleanExi MM_COL9A1.
    Genevestigatori Q05722.

    Family and domain databases

    InterProi IPR008160. Collagen.
    IPR008985. ConA-like_lec_gl_sf.
    IPR001791. Laminin_G.
    [Graphical view ]
    Pfami PF01391. Collagen. 9 hits.
    [Graphical view ]
    SMARTi SM00210. TSPN. 1 hit.
    [Graphical view ]
    SUPFAMi SSF49899. SSF49899. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "The complete primary structure of the long form of mouse alpha 1(IX) collagen chain and its expression during limb development."
      Abe N., Yoshioka H., Inoue H., Ninomiya Y.
      Biochim. Biophys. Acta 1204:61-67(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM LONG).
    2. "Assembly and sequencing of a cDNA covering the entire mouse alpha 1(IX) collagen chain."
      Rokos I., Muragaki Y., Warman M., Olsen B.R.
      Matrix Biol. 14:1-8(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM LONG).
      Tissue: Embryo.
    3. "Specific hybridization probes for mouse type I, II, III and IX collagen mRNAs."
      Metsaeranta M., Toman D., de Crombrugghe B., Vuorio E.
      Biochim. Biophys. Acta 1089:241-243(1991) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 759-906.
    4. "The alpha 1 (IX) collagen gene gives rise to two different transcripts in both mouse embryonic and human fetal RNA."
      Muragaki Y., Nishimura I., Henney A., Ninomiya Y., Olsen B.R.
      Proc. Natl. Acad. Sci. U.S.A. 87:2400-2404(1990) [PubMed] [Europe PMC] [Abstract]
      Cited for: ALTERNATIVE SPLICING.
      Strain: BALB/c.
      Tissue: Liver and Spleen.

    Entry informationi

    Entry nameiCO9A1_MOUSE
    AccessioniPrimary (citable) accession number: Q05722
    Secondary accession number(s): Q61269
    , Q61270, Q61433, Q61940
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1995
    Last sequence update: July 15, 1999
    Last modified: October 1, 2014
    This is version 126 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3