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Protein

Lumican

Gene

LUM

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

GO - Molecular functioni

  • collagen binding Source: UniProtKB
  • extracellular matrix structural constituent Source: UniProtKB

GO - Biological processi

Complete GO annotation...

Enzyme and pathway databases

BioCyciZFISH:ENSG00000139329-MONOMER.
ReactomeiR-HSA-2022854. Keratan sulfate biosynthesis.
R-HSA-2022857. Keratan sulfate degradation.
R-HSA-216083. Integrin cell surface interactions.
R-HSA-3000178. ECM proteoglycans.
R-HSA-3656225. Defective CHST6 causes MCDC1.
R-HSA-3656243. Defective ST3GAL3 causes MCT12 and EIEE15.
R-HSA-3656244. Defective B4GALT1 causes B4GALT1-CDG (CDG-2d).

Names & Taxonomyi

Protein namesi
Recommended name:
Lumican
Alternative name(s):
Keratan sulfate proteoglycan lumican
Short name:
KSPG lumican
Gene namesi
Name:LUM
Synonyms:LDC, SLRR2D
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 12

Organism-specific databases

HGNCiHGNC:6724. LUM.

Subcellular locationi

GO - Cellular componenti

  • extracellular exosome Source: UniProtKB
  • extracellular region Source: UniProtKB
  • extracellular space Source: BHF-UCL
  • fibrillar collagen trimer Source: UniProtKB
  • Golgi lumen Source: Reactome
  • lysosomal lumen Source: Reactome
  • proteinaceous extracellular matrix Source: ProtInc
Complete GO annotation...

Keywords - Cellular componenti

Extracellular matrix, Secreted

Pathology & Biotechi

Organism-specific databases

DisGeNETi4060.
OpenTargetsiENSG00000139329.
PharmGKBiPA30486.

Polymorphism and mutation databases

BioMutaiLUM.
DMDMi20141464.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 18Add BLAST18
ChainiPRO_000003273319 – 338LumicanAdd BLAST320

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei19Pyrrolidone carboxylic acid1 Publication1
Modified residuei20SulfotyrosineBy similarity1
Modified residuei21SulfotyrosineBy similarity1
Modified residuei23SulfotyrosineBy similarity1
Modified residuei30SulfotyrosineBy similarity1
Glycosylationi88N-linked (GlcNAc...) (keratan sulfate)3 Publications1
Glycosylationi127N-linked (GlcNAc...) (keratan sulfate)Sequence analysis1
Glycosylationi160N-linked (GlcNAc...) (keratan sulfate)3 Publications1
Glycosylationi252N-linked (GlcNAc...) (keratan sulfate)Sequence analysis1
Disulfide bondi295 ↔ 328By similarity
Modified residuei304PhosphoserineBy similarity1

Post-translational modificationi

Sulfated on tyrosine residue(s).1 Publication

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein, Proteoglycan, Pyrrolidone carboxylic acid, Sulfation

Proteomic databases

EPDiP51884.
MaxQBiP51884.
PaxDbiP51884.
PeptideAtlasiP51884.
PRIDEiP51884.
TopDownProteomicsiP51884.

PTM databases

iPTMnetiP51884.
PhosphoSitePlusiP51884.

Miscellaneous databases

PMAP-CutDBP51884.

Expressioni

Tissue specificityi

Cornea and other tissues.

Developmental stagei

Present in the extracellular matrix of human articular cartilage at all ages, although its abundance is far greater in the adult. In the adult cartilage lumican exists predominantly in a glycoprotein form lacking keratan sulfate, whereas the juvenile form of the molecule is a proteoglycan.

Gene expression databases

BgeeiENSG00000139329.
CleanExiHS_LUM.
GenevisibleiP51884. HS.

Organism-specific databases

HPAiCAB022193.
HPA001522.

Interactioni

Subunit structurei

Binds to laminin.By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
MMP14P502812EBI-725780,EBI-992788

GO - Molecular functioni

  • collagen binding Source: UniProtKB

Protein-protein interaction databases

BioGridi110238. 9 interactors.
IntActiP51884. 3 interactors.
MINTiMINT-1422554.
STRINGi9606.ENSP00000266718.

Structurei

3D structure databases

ProteinModelPortaliP51884.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini28 – 66LRRNTAdd BLAST39
Repeati67 – 88LRR 1Add BLAST22
Repeati91 – 114LRR 2Add BLAST24
Repeati117 – 137LRR 3Add BLAST21
Repeati138 – 159LRR 4Add BLAST22
Repeati160 – 181LRR 5Add BLAST22
Repeati185 – 205LRR 6Add BLAST21
Repeati206 – 227LRR 7Add BLAST22
Repeati230 – 253LRR 8Add BLAST24
Repeati255 – 276LRR 9Add BLAST22
Repeati277 – 296LRR 10Add BLAST20
Repeati305 – 326LRR 11Add BLAST22

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi37 – 53Cys-richAdd BLAST17

Sequence similaritiesi

Contains 11 LRR (leucine-rich) repeats.Curated
Contains 1 LRRNT domain.Curated

Keywords - Domaini

Leucine-rich repeat, Repeat, Signal

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118969.
HOGENOMiHOG000234447.
HOVERGENiHBG108061.
InParanoidiP51884.
KOiK08122.
OMAiKKLHINY.
OrthoDBiEOG091G09XE.
PhylomeDBiP51884.
TreeFamiTF334562.

Family and domain databases

Gene3Di3.80.10.10. 2 hits.
InterProiIPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
IPR000372. LRRNT.
IPR027219. Lumican.
[Graphical view]
PANTHERiPTHR24373:SF119. PTHR24373:SF119. 1 hit.
PfamiPF13516. LRR_6. 1 hit.
PF13855. LRR_8. 3 hits.
PF01462. LRRNT. 1 hit.
[Graphical view]
SMARTiSM00369. LRR_TYP. 8 hits.
SM00013. LRRNT. 1 hit.
[Graphical view]
SUPFAMiSSF52058. SSF52058. 1 hit.
PROSITEiPS51450. LRR. 10 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P51884-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSLSAFTLFL ALIGGTSGQY YDYDFPLSIY GQSSPNCAPE CNCPESYPSA
60 70 80 90 100
MYCDELKLKS VPMVPPGIKY LYLRNNQIDH IDEKAFENVT DLQWLILDHN
110 120 130 140 150
LLENSKIKGR VFSKLKQLKK LHINHNNLTE SVGPLPKSLE DLQLTHNKIT
160 170 180 190 200
KLGSFEGLVN LTFIHLQHNR LKEDAVSAAF KGLKSLEYLD LSFNQIARLP
210 220 230 240 250
SGLPVSLLTL YLDNNKISNI PDEYFKRFNA LQYLRLSHNE LADSGIPGNS
260 270 280 290 300
FNVSSLVELD LSYNKLKNIP TVNENLENYY LEVNQLEKFD IKSFCKILGP
310 320 330
LSYSKIKHLR LDGNRISETS LPPDMYECLR VANEVTLN
Length:338
Mass (Da):38,429
Last modified:January 23, 2002 - v2
Checksum:i905D2EBD370CC59D
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti27L → P in AAA85268 (PubMed:7665616).Curated1
Sequence conflicti101L → V in AAA85268 (PubMed:7665616).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_065763199L → P Found in patients with amyotrophic lateral sclerosis. 1 PublicationCorresponds to variant rs147975710dbSNPEnsembl.1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U18728 mRNA. Translation: AAA85268.1.
U21128 mRNA. Translation: AAA91639.1.
BT006707 mRNA. Translation: AAP35353.1.
AK312682 mRNA. Translation: BAG35562.1.
CH471054 Genomic DNA. Translation: EAW97449.1.
BC007038 mRNA. Translation: AAH07038.1.
BC035997 mRNA. Translation: AAH35997.1.
CCDSiCCDS9038.1.
RefSeqiNP_002336.1. NM_002345.3.
UniGeneiHs.406475.

Genome annotation databases

EnsembliENST00000266718; ENSP00000266718; ENSG00000139329.
GeneIDi4060.
KEGGihsa:4060.
UCSCiuc001tbm.4. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U18728 mRNA. Translation: AAA85268.1.
U21128 mRNA. Translation: AAA91639.1.
BT006707 mRNA. Translation: AAP35353.1.
AK312682 mRNA. Translation: BAG35562.1.
CH471054 Genomic DNA. Translation: EAW97449.1.
BC007038 mRNA. Translation: AAH07038.1.
BC035997 mRNA. Translation: AAH35997.1.
CCDSiCCDS9038.1.
RefSeqiNP_002336.1. NM_002345.3.
UniGeneiHs.406475.

3D structure databases

ProteinModelPortaliP51884.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi110238. 9 interactors.
IntActiP51884. 3 interactors.
MINTiMINT-1422554.
STRINGi9606.ENSP00000266718.

PTM databases

iPTMnetiP51884.
PhosphoSitePlusiP51884.

Polymorphism and mutation databases

BioMutaiLUM.
DMDMi20141464.

Proteomic databases

EPDiP51884.
MaxQBiP51884.
PaxDbiP51884.
PeptideAtlasiP51884.
PRIDEiP51884.
TopDownProteomicsiP51884.

Protocols and materials databases

DNASUi4060.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000266718; ENSP00000266718; ENSG00000139329.
GeneIDi4060.
KEGGihsa:4060.
UCSCiuc001tbm.4. human.

Organism-specific databases

CTDi4060.
DisGeNETi4060.
GeneCardsiLUM.
HGNCiHGNC:6724. LUM.
HPAiCAB022193.
HPA001522.
MIMi600616. gene.
neXtProtiNX_P51884.
OpenTargetsiENSG00000139329.
PharmGKBiPA30486.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0619. Eukaryota.
COG4886. LUCA.
GeneTreeiENSGT00760000118969.
HOGENOMiHOG000234447.
HOVERGENiHBG108061.
InParanoidiP51884.
KOiK08122.
OMAiKKLHINY.
OrthoDBiEOG091G09XE.
PhylomeDBiP51884.
TreeFamiTF334562.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000139329-MONOMER.
ReactomeiR-HSA-2022854. Keratan sulfate biosynthesis.
R-HSA-2022857. Keratan sulfate degradation.
R-HSA-216083. Integrin cell surface interactions.
R-HSA-3000178. ECM proteoglycans.
R-HSA-3656225. Defective CHST6 causes MCDC1.
R-HSA-3656243. Defective ST3GAL3 causes MCT12 and EIEE15.
R-HSA-3656244. Defective B4GALT1 causes B4GALT1-CDG (CDG-2d).

Miscellaneous databases

ChiTaRSiLUM. human.
GeneWikiiLUM.
GenomeRNAii4060.
PMAP-CutDBP51884.
PROiP51884.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000139329.
CleanExiHS_LUM.
GenevisibleiP51884. HS.

Family and domain databases

Gene3Di3.80.10.10. 2 hits.
InterProiIPR032675. L_dom-like.
IPR001611. Leu-rich_rpt.
IPR003591. Leu-rich_rpt_typical-subtyp.
IPR000372. LRRNT.
IPR027219. Lumican.
[Graphical view]
PANTHERiPTHR24373:SF119. PTHR24373:SF119. 1 hit.
PfamiPF13516. LRR_6. 1 hit.
PF13855. LRR_8. 3 hits.
PF01462. LRRNT. 1 hit.
[Graphical view]
SMARTiSM00369. LRR_TYP. 8 hits.
SM00013. LRRNT. 1 hit.
[Graphical view]
SUPFAMiSSF52058. SSF52058. 1 hit.
PROSITEiPS51450. LRR. 10 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiLUM_HUMAN
AccessioniPrimary (citable) accession number: P51884
Secondary accession number(s): B2R6R5, Q96QM7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: January 23, 2002
Last modified: November 2, 2016
This is version 163 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 12
    Human chromosome 12: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.