P51885 (LUM_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Lumican

Alternative name(s):
Keratan sulfate proteoglycan lumican
Short name=KSPG lumican

Gene names

Name:	Lum
Synonyms:	Lcn, Ldc

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	338 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

Subunit structure	Binds to laminin By similarity.
Subcellular location	Secreted › extracellular space › extracellular matrix By similarity.
Tissue specificity	Cornea and other tissues.
Post-translational modification	Cys-37, Cys-41, Cys-43 and Cys-53 are involved in disulfide bonds.
Sequence similarities	Belongs to the small leucine-rich proteoglycan (SLRP) family. SLRP class II subfamily. Contains 11 LRR (leucine-rich) repeats. Contains 1 LRRNT domain.

Ontologies

Keywords
Cellular component	Extracellular matrix Secreted
Domain	Leucine-rich repeat Repeat Signal
PTM	Disulfide bond Glycoprotein Proteoglycan Pyrrolidone carboxylic acid Sulfation
Technical term	Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	cartilage development Inferred from electronic annotation. Source: Compara collagen fibril organization Inferred from electronic annotation. Source: InterPro positive regulation of transcription from RNA polymerase II promoter Inferred from direct assay PubMed 15849191. Source: MGI response to growth factor stimulus Inferred from electronic annotation. Source: Compara response to organic cyclic compound Inferred from electronic annotation. Source: Compara visual perception Inferred from electronic annotation. Source: InterPro
Cellular_component	extracellular space Inferred from electronic annotation. Source: Compara fibrillar collagen Inferred from electronic annotation. Source: Compara proteinaceous extracellular matrix Inferred from direct assay PubMed 12128073. Source: MGI
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Signal peptide	1 – 18	18
	Chain	19 – 338	320	Lumican		PRO_0000032734
Regions
	Domain	28 – 66	39	LRRNT
	Repeat	67 – 88	22	LRR 1
	Repeat	91 – 114	24	LRR 2
	Repeat	117 – 137	21	LRR 3
	Repeat	138 – 159	22	LRR 4
	Repeat	160 – 181	22	LRR 5
	Repeat	185 – 205	21	LRR 6
	Repeat	206 – 227	22	LRR 7
	Repeat	230 – 250	21	LRR 8
	Repeat	255 – 276	22	LRR 9
	Repeat	277 – 296	20	LRR 10
	Repeat	305 – 326	22	LRR 11
	Compositional bias	37 – 53	17	Cys-rich
Amino acid modifications
	Modified residue	19	1	Pyrrolidone carboxylic acid
	Modified residue	20	1	Sulfotyrosine Ref.5
	Modified residue	21	1	Sulfotyrosine Ref.5
	Modified residue	23	1	Sulfotyrosine Ref.5
	Modified residue	30	1	Sulfotyrosine Ref.5
	Glycosylation	88	1	N-linked (GlcNAc...) (keratan sulfate) Potential
	Glycosylation	127	1	N-linked (GlcNAc...) (keratan sulfate) Potential
	Glycosylation	160	1	N-linked (GlcNAc...) (keratan sulfate) Potential
	Glycosylation	252	1	N-linked (GlcNAc...) (keratan sulfate) Potential
	Disulfide bond	295 ↔ 328		By similarity
Experimental info
	Sequence conflict	57	1	K → M in BAB29264. Ref.3
	Sequence conflict	109	1	G → E Ref.1
	Sequence conflict	109	1	G → E Ref.2
	Sequence conflict	293	1	S → T Ref.1
	Sequence conflict	293	1	S → T Ref.2

Sequences

	Sequence		Length	Mass (Da)
	P51885 [UniParc]. Last modified June 20, 2002. Version 2. Checksum: FF1E050C89779140	FASTA	338	38,265
	10 20 30 40 50 60 MNVCAFSLAL ALVGSVSGQY YDYDIPLFMY GQISPNCAPE CNCPHSYPTA MYCDDLKLKS 70 80 90 100 110 120 VPMVPPGIKY LYLRNNQIDH IDEKAFENVT DLQWLILDHN LLENSKIKGK VFSKLKQLKK 130 140 150 160 170 180 LHINYNNLTE SVGPLPKSLQ DLQLTNNKIS KLGSFDGLVN LTFIYLQHNQ LKEDAVSASL 190 200 210 220 230 240 KGLKSLEYLD LSFNQMSKLP AGLPTSLLTL YLDNNKISNI PDEYFKRFTG LQYLRLSHNE 250 260 270 280 290 300 LADSGVPGNS FNISSLLELD LSYNKLKSIP TVNENLENYY LEVNELEKFD VKSFCKILGP 310 320 330 LSYSKIKHLR LDGNPLTQSS LPPDMYECLR VANEITVN

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Sequence, molecular properties, and chromosomal mapping of mouse lumican." Funderburgh J.L., Funderburgh M.L., Hevelone N.D., Stech M.E., Justice M.J., Liu C.-Y., Kao W.W.-Y., Conrad G.W. Invest. Ophthalmol. Vis. Sci. 36:2296-2303(1995) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA]. Tissue: Cornea.
[2]	Ying S., Shiraishi A., Kao C.W.-C., Converse R.L., Funderburgh J.L., Swiergiel J., Roth M.R., Kao W.W.-Y. Submitted (JUL-1997) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE.
[3]	"The transcriptional landscape of the mammalian genome." Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J. , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y. Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Strain: C57BL/6J. Tissue: Cerebellum, Embryonic head and Mammary gland.
[4]	"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: Mammary gland.
[5]	"Determination of the sites of tyrosine O-sulfation in peptides and proteins." Yu Y., Hoffhines A.J., Moore K.L., Leary J.A. Nat. Methods 4:583-588(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 29-52, SULFATION AT TYR-20; TYR-21; TYR-23 AND TYR-30, PYROGLUTAMATE FORMATION AT GLN-19, DISULFIDE BONDS, MASS SPECTROMETRY.
[6]	"Proteome-wide characterization of N-glycosylation events by diagonal chromatography." Ghesquiere B., Van Damme J., Martens L., Vandekerckhove J., Gevaert K. J. Proteome Res. 5:2438-2447(2006) [PubMed] [Europe PMC] [Abstract] Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-127, MASS SPECTROMETRY. Strain: C57BL/6. Tissue: Plasma.
[7]	"Enhanced analysis of the mouse plasma proteome using cysteine-containing tryptic glycopeptides." Bernhard O.K., Kapp E.A., Simpson R.J. J. Proteome Res. 6:987-995(2007) [PubMed] [Europe PMC] [Abstract] Cited for: GLYCOSYLATION [LARGE SCALE ANALYSIS] AT ASN-127 AND ASN-160, MASS SPECTROMETRY. Strain: C57BL/6. Tissue: Plasma.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	S79461 mRNA. Translation: AAB35361.1. AF013262 Genomic DNA. Translation: AAB87767.1. AK014312 mRNA. Translation: BAB29264.1. AK075737 mRNA. Translation: BAC35919.1. AK164774 mRNA. Translation: BAE37912.1. BC005550 mRNA. Translation: AAH05550.1.
IPI	IPI00313900.
RefSeq	NP_032550.2. NM_008524.2.
UniGene	Mm.18888.
3D structure databases
ProteinModelPortal	P51885.
SMR	P51885. Positions 43-329.
ModBase	Search...
PTM databases
PhosphoSite	P51885.
Proteomic databases
PaxDb	P51885.
PRIDE	P51885.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSMUST00000038160; ENSMUSP00000040877; ENSMUSG00000036446.
GeneID	17022.
KEGG	mmu:17022.
UCSC	uc007gwz.2. mouse.
Organism-specific databases
CTD	4060.
MGI	MGI:109347. Lum.
Phylogenomic databases
eggNOG	COG4886.
GeneTree	ENSGT00600000084286.
HOGENOM	HOG000234447.
HOVERGEN	HBG108061.
InParanoid	P51885.
KO	K08122.
OMA	LHINYNN.
OrthoDB	EOG4CZBGK.
Gene expression databases
Bgee	P51885.
CleanEx	MM_LUM.
Genevestigator	P51885.
GermOnline	ENSMUSG00000036446. Mus musculus.
Family and domain databases
InterPro	IPR001611. Leu-rich_rpt. IPR003591. Leu-rich_rpt_typical-subtyp. IPR000372. LRR-contain_N. IPR027219. Lumican. [Graphical view]
PANTHER	PTHR24371:SF1. PTHR24371:SF1. 1 hit.
Pfam	PF01462. LRRNT. 1 hit. [Graphical view]
SMART	SM00369. LRR_TYP. 1 hit. SM00013. LRRNT. 1 hit. [Graphical view]
PROSITE	PS51450. LRR. 10 hits. [Graphical view]
ProtoNet	Search...
Other
NextBio	291134.
SOURCE	Search...

Entry information

Entry name

LUM_MOUSE

Accession

Primary (citable) accession number: P51885
Secondary accession number(s): Q3TP25, Q99JZ3, Q9CXK0

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1996
Last sequence update:	June 20, 2002
Last modified:	May 1, 2013
This is version 117 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program