O42163 (COCH_CHICK) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Cochlin

Alternative name(s):
COCH-5B2

Gene names

Name:	COCH
Synonyms:	COCH5B2

Organism

Gallus gallus (Chicken) [Reference proteome]

Taxonomic identifier

9031 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Sauropsida › Sauria › Archosauria › Dinosauria › Saurischia › Theropoda › Coelurosauria › Aves › Neognathae › Galliformes › Phasianidae › Phasianinae › Gallus

Protein attributes

Sequence length	547 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at transcript level

General annotation (Comments)

Function	Plays a role in the control of cell shape and motility in the trabecular meshwork By similarity.
Subcellular location	Secreted Potential.
Tissue specificity	Expressed in inner ear structures; the spindle-shaped cells of the basilar papilla. Weaker expression found in the inferior and superior fibrocartilaginous plates and skeletal muscle. Ref.1
Developmental stage	Specifically expressed at the late developmental stages in the cochlea. Ref.1
Sequence similarities	Contains 1 LCCL domain. Contains 2 VWFA domains.

Ontologies

Keywords
Cellular component	Secreted
Domain	Repeat Signal
PTM	Disulfide bond Glycoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Cellular_component	extracellular region Inferred from electronic annotation. Source: UniProtKB-SubCell
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 19	19	Potential
	Chain	20 – 547	528	Cochlin		PRO_0000020967
Regions
	Domain	24 – 117	94	LCCL
	Domain	162 – 347	186	VWFA 1
	Domain	364 – 534	171	VWFA 2
Amino acid modifications
	Glycosylation	218	1	N-linked (GlcNAc...) Potential
	Disulfide bond	30 ↔ 46		By similarity
	Disulfide bond	50 ↔ 70		By similarity

Sequences

	Sequence		Length	Mass (Da)
	O42163 [UniParc]. Last modified January 1, 1998. Version 1. Checksum: 172724242641DF88	FASTA	547	59,427
	10 20 30 40 50 60 MQFAPLLLGV FLLCGSARGS DSSASNAITC FTRGLDLRKE TEDVLCPANC PLWQFYVFGD 70 80 90 100 110 120 GIYASLSSVC GAAIHRGVIT NAGGAVRVQT LPGQENYPAV HANGIQSQVL SRWASSFSVT 130 140 150 160 170 180 PGTNNLALEA VGRSVATARP ATGKRPKKTL EKKAGNKDCK ADIAFLIDGS YNIGQRRFNL 190 200 210 220 230 240 QKNFVGKVAV MLGIGTEGPH VGVVQASEHP KIEFYLKNFT AAKEVLFAIK ELGFRGGNSN 250 260 270 280 290 300 TGKALKHAAQ KFFSMENGAR KGIPKIIVVF LDGWPSDDLE EAGIVAREFG VNVFIVSVAK 310 320 330 340 350 360 PTTEELGMVQ DIGFIDKAVC RNNGFFSYQM PSWFGTTKYV KPLVQKLCSH EQMLCSKTCY 370 380 390 400 410 420 NSVNIGFLID GSSSVGESNF RLMLEFISNV AKAFEISDIG SKIATVQFTY DQRTEFSFTD 430 440 450 460 470 480 YTTKEKVLSA IRNIRYMSGG TATGDAISFT TRNVFGPVKD GANKNFLVIL TDGQSYDDVR 490 500 510 520 530 540 GPAVAAQKAG ITVFSVGVAW APLDDLKDMA SEPRESHTFF TREFTGLEQM VPDVIRGICK DFLDSKQ

References

[1]

"Molecular markers for cell types of the inner ear and candidate genes for hearing disorders." Heller S., Sheane C.A., Javed Z., Hudspeth A.J. Proc. Natl. Acad. Sci. U.S.A. 95:11400-11405(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY, DEVELOPMENTAL STAGE. Strain: White leghorn. Tissue: Basilar papilla.

Web resources

Protein Spotlight

The Japanese Horseshoe Crab and Deafness - Issue 4 of November 2000

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF012252 mRNA. Translation: AAC62253.1.
IPI	IPI00578917.
RefSeq	NP_990268.1. NM_204937.1.
UniGene	Gga.2805.
3D structure databases
ProteinModelPortal	O42163.
SMR	O42163. Positions 23-120.
ModBase	Search...
Protein-protein interaction databases
IntAct	O42163. 1 interaction.
STRING	9031.ENSGALP00000037066.
Proteomic databases
PaxDb	O42163.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSGALT00000016132; ENSGALP00000016113; ENSGALG00000009920.
GeneID	395779.
KEGG	gga:395779.
Organism-specific databases
CTD	1690.
Phylogenomic databases
eggNOG	NOG277584.
GeneTree	ENSGT00700000104272.
HOGENOM	HOG000013195.
HOVERGEN	HBG005372.
Family and domain databases
Gene3D	2.170.130.20. 1 hit.
InterPro	IPR004043. LCCL. IPR002035. VWF_A. [Graphical view]
Pfam	PF03815. LCCL. 1 hit. PF00092. VWA. 2 hits. [Graphical view]
SMART	SM00603. LCCL. 1 hit. SM00327. VWA. 2 hits. [Graphical view]
SUPFAM	SSF69848. LCCL. 1 hit.
PROSITE	PS50820. LCCL. 1 hit. PS50234. VWFA. 2 hits. [Graphical view]
ProtoNet	Search...
Other
NextBio	20815847.

Entry information

Entry name

COCH_CHICK

Accession

Primary (citable) accession number: O42163

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 30, 2000
Last sequence update:	January 1, 1998
Last modified:	April 3, 2013
This is version 81 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program