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Protein

Ornithine cyclodeaminase

Gene

ocd

Organism
Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Catalyzes the conversion of L-ornithine into L-proline with release of ammonia. Is likely involved in the L-ornithine degradation pathway that allows P.putida to utilize this compound as sole carbon and nitrogen source.1 Publication

Catalytic activityi

L-ornithine = L-proline + NH3.1 Publication

Cofactori

NAD+1 PublicationNote: Binds 1 NAD+ pers subunit.1 Publication

Pathwayi: L-proline biosynthesis

This protein is involved in step 1 of the subpathway that synthesizes L-proline from L-ornithine.1 Publication
Proteins known to be involved in this subpathway in this organism are:
  1. Ornithine cyclodeaminase (ocd)
This subpathway is part of the pathway L-proline biosynthesis, which is itself part of Amino-acid biosynthesis.
View all proteins of this organism that are known to be involved in the subpathway that synthesizes L-proline from L-ornithine, the pathway L-proline biosynthesis and in Amino-acid biosynthesis.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei45L-ornithineCombined sources1 Publication1
Binding sitei69L-ornithineCombined sources1 Publication1
Binding sitei84NADCombined sources1 Publication1
Binding sitei112L-ornithineCombined sources1 Publication1
Binding sitei112NADCombined sources1 Publication1
Binding sitei161NADCombined sources1 Publication1
Binding sitei202NAD; via carbonyl oxygenCombined sources1 Publication1
Active sitei228Proton donor/acceptorCombined sources1 Publication1
Binding sitei228L-ornithineCombined sources1 Publication1
Binding sitei232NADCombined sources1 Publication1
Binding sitei293NADCombined sources1 Publication1
Binding sitei294L-ornithine; via carbonyl oxygenCombined sources1 Publication1
Binding sitei331NADCombined sources1 Publication1

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi139 – 140NADCombined sources1 Publication2
Nucleotide bindingi225 – 228NADCombined sources1 Publication4

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionLyase
Biological processAmino-acid biosynthesis
LigandNAD, Nucleotide-binding

Enzyme and pathway databases

BioCyciPPUT160488:GIXO-3576-MONOMER.
BRENDAi4.3.1.12. 6163.
UniPathwayiUPA00098; UER00357.

Names & Taxonomyi

Protein namesi
Recommended name:
Ornithine cyclodeaminase1 Publication (EC:4.3.1.121 Publication)
Short name:
OCD1 Publication
Gene namesi
Name:ocd1 Publication
Ordered Locus Names:PP_3533Imported
OrganismiPseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
Taxonomic identifieri160488 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesPseudomonadaceaePseudomonas
Proteomesi
  • UP000000556 Componenti: Chromosome

Pathology & Biotechi

Biotechnological usei

Can be used for biotechnological production of L-proline when heterologously overexpressed in C.glutamicum.1 Publication

Chemistry databases

DrugBankiDB03814. 2-(N-Morpholino)-Ethanesulfonic Acid.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004417221 – 350Ornithine cyclodeaminaseAdd BLAST350

Interactioni

Subunit structurei

Homodimer.1 Publication

Protein-protein interaction databases

STRINGi160488.PP_3533.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1U7HX-ray1.80A/B1-350[»]
1X7DX-ray1.60A/B1-350[»]
ProteinModelPortaliQ88H32.
SMRiQ88H32.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ88H32.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiENOG4107QWB. Bacteria.
COG2423. LUCA.
HOGENOMiHOG000137262.
KOiK01750.
OMAiDMIEPGM.

Family and domain databases

Gene3Di3.30.1780.10. 1 hit.
InterProiView protein in InterPro
IPR036291. NAD(P)-bd_dom_sf.
IPR003462. ODC_Mu_crystall.
IPR023401. ODC_N.
PANTHERiPTHR13812. PTHR13812. 1 hit.
PfamiView protein in Pfam
PF02423. OCD_Mu_crystall. 1 hit.
PIRSFiPIRSF001439. CryM. 1 hit.
SUPFAMiSSF51735. SSF51735. 1 hit.

Sequencei

Sequence statusi: Complete.

Q88H32-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTYFIDVPTM SDLVHDIGVA PFIGELAAAL RDDFKRWQAF DKSARVASHS
60 70 80 90 100
EVGVIELMPV ADKSRYAFKY VNGHPANTAR NLHTVMAFGV LADVDSGYPV
110 120 130 140 150
LLSELTIATA LRTAATSLMA AQALARPNAR KMALIGNGAQ SEFQALAFHK
160 170 180 190 200
HLGIEEIVAY DTDPLATAKL IANLKEYSGL TIRRASSVAE AVKGVDIITT
210 220 230 240 250
VTADKAYATI ITPDMLEPGM HLNAVGGDCP GKTELHADVL RNARVFVEYE
260 270 280 290 300
PQTRIEGEIQ QLPADFPVVD LWRVLRGETE GRQSDSQVTV FDSVGFALED
310 320 330 340 350
YTVLRYVLQQ AEKRGMGTKI DLVPWVEDDP KDLFSHTRGR AGKRRIRRVA
Length:350
Mass (Da):38,425
Last modified:June 1, 2003 - v1
Checksum:i29323AD3D54F847B
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE015451 Genomic DNA. Translation: AAN69134.1.
RefSeqiNP_745670.1. NC_002947.4.
WP_010954390.1. NC_002947.4.

Genome annotation databases

EnsemblBacteriaiAAN69134; AAN69134; PP_3533.
GeneIDi1046312.
KEGGippu:PP_3533.
PATRICifig|160488.4.peg.3757.

Similar proteinsi

Entry informationi

Entry nameiOCD_PSEPK
AccessioniPrimary (citable) accession number: Q88H32
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 27, 2017
Last sequence update: June 1, 2003
Last modified: October 25, 2017
This is version 93 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families