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Q05722 (CO9A1_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 123. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Collagen alpha-1(IX) chain
Gene names
Name:Col9a1
OrganismMus musculus (Mouse) [Reference proteome]
Taxonomic identifier10090 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus

Protein attributes

Sequence length921 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Structural component of hyaline cartilage and vitreous of the eye.

Subunit structure

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

Subcellular location

Secretedextracellular spaceextracellular matrix By similarity.

Domain

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.

Post-translational modification

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.

Sequence similarities

Belongs to the fibril-associated collagens with interrupted helices (FACIT) family.

Contains 9 collagen-like domains.

Contains 1 laminin G-like domain.

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Note: Additional isoforms seem to exist.
Isoform Long (identifier: Q05722-1)

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.
Isoform Short (identifier: Q05722-2)

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

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2323 Potential
Chain24 – 921898Collagen alpha-1(IX) chain
PRO_0000005766

Regions

Domain50 – 244195Laminin G-like
Domain269 – 32557Collagen-like 1
Domain326 – 35631Collagen-like 2
Domain358 – 40346Collagen-like 3
Domain416 – 47257Collagen-like 4
Domain473 – 51240Collagen-like 5
Domain604 – 65653Collagen-like 6
Domain657 – 71155Collagen-like 7
Domain712 – 75544Collagen-like 8
Domain790 – 84758Collagen-like 9
Region24 – 268245Nonhelical region (NC4)
Region269 – 405137Triple-helical region (COL3)
Region406 – 41712Nonhelical region (NC3)
Region418 – 756339Triple-helical region (COL2)
Region757 – 78630Nonhelical region (NC2)
Region787 – 901115Triple-helical region (COL1)
Region902 – 92120Nonhelical region (NC1)

Sites

Metal binding2131Zinc By similarity
Metal binding2151Zinc By similarity
Metal binding2531Zinc By similarity

Amino acid modifications

Disulfide bond44 ↔ 242 By similarity
Disulfide bond198 ↔ 252 By similarity
Disulfide bond411Interchain By similarity
Disulfide bond415Interchain By similarity

Natural variations

Alternative sequence1 – 260260Missing in isoform Short.
VSP_001143
Alternative sequence2611T → MAWAAWGRGVLGLSLMLSGL RLCAAQT in isoform Short.
VSP_001144

Experimental info

Sequence conflict1101E → R in AAA21834. Ref.2
Sequence conflict2381M → V in AAA21834. Ref.2
Sequence conflict2891D → G in AAA21834. Ref.2
Sequence conflict4611A → D in AAA21834. Ref.2
Sequence conflict5161K → E in AAA21834. Ref.2
Sequence conflict569 – 5702LQ → IA in AAA21834. Ref.2
Sequence conflict7401E → D in AAA21834. Ref.2
Sequence conflict7751V → A in AAA21834. Ref.2
Sequence conflict7751V → A in CAA41049. Ref.3

Sequences

Sequence LengthMass (Da)Tools
Isoform Long [UniParc].

Last modified July 15, 1999. Version 2.
Checksum: BC79177D36DCFFFC

FASTA92192,092
        10         20         30         40         50         60 
MKNFWKISVF FCVCSCLGPW VSATLKRRAR FPANSISNGG SELCPKIRIG QDDLPGFDLI 

        70         80         90        100        110        120 
SQFQIEKAAS RRTIQRVVGS TALQVAYKLG SNVDFRIPTR HLYPSGLPEE YSFLTTFRMT 

       130        140        150        160        170        180 
GSTLEKHWNI WQIQDSAGRE QVGVKINGQT KSVAFSYKGL DGSLQTAAFL NLPSLFDSRW 

       190        200        210        220        230        240 
HKLMIGVERT SATLFIDCIR IESLPIKPRG QIDADGFAVL GKLVDNPQVS VPFELQWMLI 

       250        260        270        280        290        300 
HCDPLRPRRE TCHELPIRIT TSQTTDERGP PGEQGPPGPP GPPGVPGIDG IDGDRGPKGP 

       310        320        330        340        350        360 
PGPPGPPGDP GKPGAPGKPG TPGADGLTGP DGSPGSVGPR GQKGEPGVPG SRGFPGRGIP 

       370        380        390        400        410        420 
GPPGPPGTTG LPGELGRVGP IGDPGKRGPP GPPGPPGPSG TIGFHDGDPL CPNSCPPGRS 

       430        440        450        460        470        480 
GYPGLPGMRG HKGAKGEIGE PGRQGHKGEE GDQGELGEVG AQGPPGPQGL RGITGIVGDK 

       490        500        510        520        530        540 
GEKGARGFDG EPGPQGIPGA AGDQGQRGPP GETGPKGDRG IQGSRGIPGS PGPKGDTGLP 

       550        560        570        580        590        600 
GVDGRDGIPG MPGTKGEAGK PGPPGDVGLQ GLPGVPGIPG AKGVAGEKGN TGAPGKPGQL 

       610        620        630        640        650        660 
GSSGKPGQQG PPGEVGPRGP RGLPGSRGPV GPEGSPGIPG KLGSVGSPGL PGLPGPPGLP 

       670        680        690        700        710        720 
GMKGDRGVFG EPGPKGEQGA SGEEGEAGAR GDLGDMGQPG PKGSVGNPGE PGLRGPEGIR 

       730        740        750        760        770        780 
GLPGVEGPRG PPGPRGMQGE QGATGLPGIQ GPPGRAPTDQ HIKQVCMRVV QEHFVEMAAS 

       790        800        810        820        830        840 
LKRPDTGASG LPGRPGPPGP PGPPGENGFP GQMGIRGLPG IKGPPGALGL RGPKGDLGEK 

       850        860        870        880        890        900 
GERGPPGRGP KGLPGAIGLP GDPGPASYGK NGRDGEQGPP GVAGIPGVPG PPGPPGPPGF 

       910        920 
CEPASCTLQS GQRAFSKGPD K 

« Hide

Isoform Short [UniParc].

Checksum: 9F20E93756155B19
Show »

FASTA68765,493

References

[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.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
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.
PIRA35980.
S40495.
S42617.
RefSeqNP_031766.3. NM_007740.3.
UniGeneMm.154662.

3D structure databases

ProteinModelPortalQ05722.
SMRQ05722. Positions 42-256.
ModBaseSearch...
MobiDBSearch...

PTM databases

PhosphoSiteQ05722.

Proteomic databases

PaxDbQ05722.
PRIDEQ05722.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID12839.
KEGGmmu:12839.

Organism-specific databases

CTD1297.
MGIMGI:88465. Col9a1.

Phylogenomic databases

eggNOGNOG12793.
HOGENOMHOG000085653.
HOVERGENHBG004933.
InParanoidQ05722.
KOK08131.
PhylomeDBQ05722.

Gene expression databases

CleanExMM_COL9A1.
GenevestigatorQ05722.

Family and domain databases

InterProIPR008160. Collagen.
IPR008985. ConA-like_lec_gl_sf.
IPR001791. Laminin_G.
[Graphical view]
PfamPF01391. Collagen. 9 hits.
[Graphical view]
SMARTSM00210. TSPN. 1 hit.
[Graphical view]
SUPFAMSSF49899. SSF49899. 1 hit.
ProtoNetSearch...

Other

NextBio282364.
PROQ05722.
SOURCESearch...

Entry information

Entry nameCO9A1_MOUSE
AccessionPrimary (citable) accession number: Q05722
Secondary accession number(s): Q61269 expand/collapse secondary AC list , Q61270, Q61433, Q61940
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: July 15, 1999
Last modified: April 16, 2014
This is version 123 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

MGD cross-references

Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot