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Protein

Procollagen-lysine,2-oxoglutarate 5-dioxygenase 3

Gene

Plod3

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at transcript leveli

Functioni

Forms hydroxylysine residues in -Xaa-Lys-Gly- sequences in collagens. These hydroxylysines serve as sites of attachment for carbohydrate units and are essential for the stability of the intermolecular collagen cross-links (By similarity).By similarity

Catalytic activityi

L-lysine-[procollagen] + 2-oxoglutarate + O2 = (2S,5R)-5-hydroxy-L-lysine-[procollagen] + succinate + CO2.

Cofactori

Protein has several cofactor binding sites:

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi670 – 6701IronPROSITE-ProRule annotation
Metal bindingi672 – 6721IronPROSITE-ProRule annotation
Metal bindingi722 – 7221IronPROSITE-ProRule annotation
Active sitei732 – 7321Sequence analysis

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Dioxygenase, Oxidoreductase

Keywords - Ligandi

Iron, Metal-binding, Vitamin C

Enzyme and pathway databases

ReactomeiR-RNO-1650814. Collagen biosynthesis and modifying enzymes.

Names & Taxonomyi

Protein namesi
Recommended name:
Procollagen-lysine,2-oxoglutarate 5-dioxygenase 3 (EC:1.14.11.4)
Alternative name(s):
Lysyl hydroxylase 3
Short name:
LH3
Gene namesi
Name:Plod3
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 12

Organism-specific databases

RGDi631339. Plod3.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Endoplasmic reticulum, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2727Sequence analysisAdd
BLAST
Chaini28 – 741714Procollagen-lysine,2-oxoglutarate 5-dioxygenase 3PRO_0000041774Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi66 – 661N-linked (GlcNAc...)Sequence analysis
Glycosylationi551 – 5511N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Glycoprotein

Proteomic databases

PaxDbiQ5U367.
PRIDEiQ5U367.

Expressioni

Gene expression databases

GenevisibleiQ5U367. RN.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

IntActiQ5U367. 1 interaction.
MINTiMINT-4997169.
STRINGi10116.ENSRNOP00000001921.

Structurei

3D structure databases

ProteinModelPortaliQ5U367.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini650 – 74192Fe2OG dioxygenasePROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 Fe2OG dioxygenase domain.PROSITE-ProRule annotation

Keywords - Domaini

Signal

Phylogenomic databases

eggNOGiKOG1971. Eukaryota.
ENOG410Y4QU. LUCA.
GeneTreeiENSGT00550000074427.
HOGENOMiHOG000231099.
HOVERGENiHBG053618.
InParanoidiQ5U367.
KOiK13646.
OMAiYPEVEGK.
OrthoDBiEOG79PJNP.
PhylomeDBiQ5U367.
TreeFamiTF313826.

Family and domain databases

InterProiIPR029044. Nucleotide-diphossugar_trans.
IPR005123. Oxoglu/Fe-dep_dioxygenase.
IPR006620. Pro_4_hyd_alph.
IPR001006. Procol_lys_dOase.
[Graphical view]
SMARTiSM00702. P4Hc. 1 hit.
[Graphical view]
SUPFAMiSSF53448. SSF53448. 1 hit.
PROSITEiPS51471. FE2OG_OXY. 1 hit.
PS01325. LYS_HYDROXYLASE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

Q5U367-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAASVPEPRL LLLLLLLLPP LPPVTSASDR PRGANPVNPD KLLVITVATA
60 70 80 90 100
ETEGYRRFLQ SAEFFNYTVR TLGLGQEWRG GDVARTVGGG QKVRWLKKEM
110 120 130 140 150
EKYASQEDMI IMFVDSYDVI LASSPTELLK KFVQSGSHLL FSAESFCWPD
160 170 180 190 200
WGLAEQYPEV GVGKRFLNSG GFIGFAPTIH RIVRQWKYKD DDDDQLFYTQ
210 220 230 240 250
LYLDPGLREK LKLSLDHKSR IFQNLNGALD EVVLKFDQNR VRIRNVAYDT
260 270 280 290 300
LPVVVHGNGP TKLQLNYLGN YVPNGWTPQG GCGFCNLNRR TLPGGQPPPR
310 320 330 340 350
VLLAVFVEQP TPFLPRFLQR LLLLDYPPDR ISLFLHNNEV YHEPHIADAW
360 370 380 390 400
PQLQDHFSAV KLVGPEEALS SGEARDMAMD SCRQNPECEF YFSLDADAVL
410 420 430 440 450
TNPETLRILI EQNRKVIAPM LSRHGKLWSN FWGALSPDEY YARSEDYVEL
460 470 480 490 500
VQRKRVGLWN VPYISQAYVI RGETLRTELP EKEVFSSSDT DPDMAFCRSV
510 520 530 540 550
RDKGIFLHLS NQHEFGRLLS TSHYDTDHLH PDLWQIFDNP VDWREQYIHE
560 570 580 590 600
NYSRALDGEG LVEQPCPDVY WFPLLTEQMC DELVEEMEHY GQWSGGRHED
610 620 630 640 650
SRLAGGYENV PTVDIHMKQV GYEDQWLQLL RTYVGPMTEH LFPGYHTKTR
660 670 680 690 700
AVMNFVVRYR PDEQPSLRPH HDSSTFTLNV ALNHKGVDYE GGGCRFLRYD
710 720 730 740
CRVSSPRKGW ALLHPGRLTH YHEGLPTTRG TRYIMVSFVD P
Length:741
Mass (Da):85,060
Last modified:December 7, 2004 - v1
Checksum:iE14883A4D2522767
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti4 – 107SVPEPRL → ISPGTPA in CAD23628 (PubMed:12878181).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ430859 mRNA. Translation: CAD23628.1.
BC085683 mRNA. Translation: AAH85683.1.
RefSeqiNP_835202.2. NM_178101.3.
UniGeneiRn.90152.

Genome annotation databases

EnsembliENSRNOT00000001921; ENSRNOP00000001921; ENSRNOG00000001417.
GeneIDi288583.
KEGGirno:288583.
UCSCiRGD:631339. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ430859 mRNA. Translation: CAD23628.1.
BC085683 mRNA. Translation: AAH85683.1.
RefSeqiNP_835202.2. NM_178101.3.
UniGeneiRn.90152.

3D structure databases

ProteinModelPortaliQ5U367.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiQ5U367. 1 interaction.
MINTiMINT-4997169.
STRINGi10116.ENSRNOP00000001921.

Proteomic databases

PaxDbiQ5U367.
PRIDEiQ5U367.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000001921; ENSRNOP00000001921; ENSRNOG00000001417.
GeneIDi288583.
KEGGirno:288583.
UCSCiRGD:631339. rat.

Organism-specific databases

CTDi8985.
RGDi631339. Plod3.

Phylogenomic databases

eggNOGiKOG1971. Eukaryota.
ENOG410Y4QU. LUCA.
GeneTreeiENSGT00550000074427.
HOGENOMiHOG000231099.
HOVERGENiHBG053618.
InParanoidiQ5U367.
KOiK13646.
OMAiYPEVEGK.
OrthoDBiEOG79PJNP.
PhylomeDBiQ5U367.
TreeFamiTF313826.

Enzyme and pathway databases

ReactomeiR-RNO-1650814. Collagen biosynthesis and modifying enzymes.

Miscellaneous databases

PROiQ5U367.

Gene expression databases

GenevisibleiQ5U367. RN.

Family and domain databases

InterProiIPR029044. Nucleotide-diphossugar_trans.
IPR005123. Oxoglu/Fe-dep_dioxygenase.
IPR006620. Pro_4_hyd_alph.
IPR001006. Procol_lys_dOase.
[Graphical view]
SMARTiSM00702. P4Hc. 1 hit.
[Graphical view]
SUPFAMiSSF53448. SSF53448. 1 hit.
PROSITEiPS51471. FE2OG_OXY. 1 hit.
PS01325. LYS_HYDROXYLASE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Identification, expression, and tissue distribution of the three rat lysyl hydroxylase isoforms."
    Mercer D.K., Nicol P.F., Wright M.C., Robins S.P.
    Biochem. Biophys. Res. Commun. 307:803-809(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: Sprague-Dawley.
    Tissue: Liver.
  2. "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: Kidney.

Entry informationi

Entry nameiPLOD3_RAT
AccessioniPrimary (citable) accession number: Q5U367
Secondary accession number(s): Q811A5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 13, 2005
Last sequence update: December 7, 2004
Last modified: June 8, 2016
This is version 86 of the entry and version 1 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. 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.