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Q05722

- CO9A1_MOUSE

UniProt

Q05722 - CO9A1_MOUSE

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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

Functioni

Structural component of hyaline cartilage and vitreous of the eye.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi213 – 2131Zinc By similarity
Metal bindingi215 – 2151Zinc By similarity
Metal bindingi253 – 2531Zinc By 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
Complete GO annotation...

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
Complete GO annotation...

Keywords - Cellular componenti

Extracellular matrix, Secreted

PTM / Processingi

Molecule processing

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

Amino acid modifications

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

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

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

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 260260Missing in isoform Short. VSP_001143Add
BLAST
Alternative sequencei261 – 2611T → MAWAAWGRGVLGLSLMLSGL RLCAAQT in isoform Short. VSP_001144

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti110 – 1101E → R in AAA21834. 1 Publication
Sequence conflicti238 – 2381M → V in AAA21834. 1 Publication
Sequence conflicti289 – 2891D → G in AAA21834. 1 Publication
Sequence conflicti461 – 4611A → D in AAA21834. 1 Publication
Sequence conflicti516 – 5161K → E in AAA21834. 1 Publication
Sequence conflicti569 – 5702LQ → IA in AAA21834. 1 Publication
Sequence conflicti740 – 7401E → D in AAA21834. 1 Publication
Sequence conflicti775 – 7751V → A in AAA21834. 1 Publication
Sequence conflicti775 – 7751V → A in CAA41049. 1 Publication

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: July 9, 2014
This is version 125 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

Similar proteinsi