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Protein

Probable pyruvoyl-dependent arginine decarboxylase

Gene

pdaD

Organism
Pelodictyon luteolum (strain DSM 273) (Chlorobium luteolum (strain DSM 273))
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Protein inferred from homologyi

Functioni

Catalytic activityi

L-arginine = agmatine + CO2.UniRule annotation

Cofactori

pyruvateUniRule annotationNote: Binds 1 pyruvoyl group covalently per subunit.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei42 – 432Cleavage (non-hydrolytic)UniRule annotation

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Ligandi

Pyruvate

Enzyme and pathway databases

BioCyciPLUT319225:GHDM-581-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Probable pyruvoyl-dependent arginine decarboxylaseUniRule annotation (EC:4.1.1.19UniRule annotation)
Short name:
PvlArgDCUniRule annotation
Cleaved into the following 2 chains:
Pyruvoyl-dependent arginine decarboxylase subunit betaUniRule annotation
Pyruvoyl-dependent arginine decarboxylase subunit alphaUniRule annotation
Gene namesi
Name:pdaDUniRule annotation
Ordered Locus Names:Plut_0567
OrganismiPelodictyon luteolum (strain DSM 273) (Chlorobium luteolum (strain DSM 273))
Taxonomic identifieri319225 [NCBI]
Taxonomic lineageiBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobium/Pelodictyon groupPelodictyon
ProteomesiUP000002709 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 4242Pyruvoyl-dependent arginine decarboxylase subunit betaUniRule annotationPRO_1000068401Add
BLAST
Chaini43 – 181139Pyruvoyl-dependent arginine decarboxylase subunit alphaUniRule annotationPRO_1000068402Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei43 – 431Pyruvic acid (Ser)UniRule annotation

Interactioni

Protein-protein interaction databases

STRINGi319225.Plut_0567.

Structurei

3D structure databases

ProteinModelPortaliQ3B5D1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the PdaD family.UniRule annotation

Phylogenomic databases

eggNOGiCOG1945.
HOGENOMiHOG000012204.
KOiK02626.
OMAiSEHHSFG.
OrthoDBiEOG6JHRMR.

Family and domain databases

Gene3Di3.50.20.10. 1 hit.
HAMAPiMF_01404. PvlArgDC.
InterProiIPR016104. Pyr-dep_his/arg-deCO2ase.
IPR016105. Pyr-dep_his/arg-deCO2ase_sand.
IPR002724. Pyruvoyl-dep_arg_deCO2ase.
[Graphical view]
PfamiPF01862. PvlArgDC. 1 hit.
[Graphical view]
PIRSFiPIRSF005216. Pyruvoyl-dep_arg_deCO2ase. 1 hit.
ProDomiPD010449. Pyruvoyl-dep_arg_deCO2ase. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMiSSF56271. SSF56271. 1 hit.
TIGRFAMsiTIGR00286. TIGR00286. 1 hit.

Sequencei

Sequence statusi: Complete.

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

Q3B5D1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSFVPSKVFF TKGVGRHKEY LSSFELALRD AKIEKCNLVT VSSIFPPKCE
60 70 80 90 100
RVSVEEGVKM LTPGQITFAV MARNSTNEYN RLIAASIGVA IPADDTQYGY
110 120 130 140 150
LSEHHPFGED AEQSGEYAED LAATMLATTL GIEFDPNKDW DEREGIYKMS
160 170 180
GKIINSYNIT QSAEGENGMW TTVISCAVLL P
Length:181
Mass (Da):19,988
Last modified:November 22, 2005 - v1
Checksum:i7C61194128C950C0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000096 Genomic DNA. Translation: ABB23450.1.
RefSeqiWP_011357325.1. NC_007512.1.

Genome annotation databases

EnsemblBacteriaiABB23450; ABB23450; Plut_0567.
KEGGiplt:Plut_0567.
PATRICi21378624. VBIChlLut1287_0590.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000096 Genomic DNA. Translation: ABB23450.1.
RefSeqiWP_011357325.1. NC_007512.1.

3D structure databases

ProteinModelPortaliQ3B5D1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi319225.Plut_0567.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiABB23450; ABB23450; Plut_0567.
KEGGiplt:Plut_0567.
PATRICi21378624. VBIChlLut1287_0590.

Phylogenomic databases

eggNOGiCOG1945.
HOGENOMiHOG000012204.
KOiK02626.
OMAiSEHHSFG.
OrthoDBiEOG6JHRMR.

Enzyme and pathway databases

BioCyciPLUT319225:GHDM-581-MONOMER.

Family and domain databases

Gene3Di3.50.20.10. 1 hit.
HAMAPiMF_01404. PvlArgDC.
InterProiIPR016104. Pyr-dep_his/arg-deCO2ase.
IPR016105. Pyr-dep_his/arg-deCO2ase_sand.
IPR002724. Pyruvoyl-dep_arg_deCO2ase.
[Graphical view]
PfamiPF01862. PvlArgDC. 1 hit.
[Graphical view]
PIRSFiPIRSF005216. Pyruvoyl-dep_arg_deCO2ase. 1 hit.
ProDomiPD010449. Pyruvoyl-dep_arg_deCO2ase. 1 hit.
[Graphical view] [Entries sharing at least one domain]
SUPFAMiSSF56271. SSF56271. 1 hit.
TIGRFAMsiTIGR00286. TIGR00286. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "Complete sequence of Pelodictyon luteolum DSM 273."
    US DOE Joint Genome Institute
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Bryant D., Schmutz J., Larimer F., Land M., Kyrpides N., Ivanova N., Richardson P.
    Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 273.

Entry informationi

Entry nameiPDAD_PELLD
AccessioniPrimary (citable) accession number: Q3B5D1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 5, 2008
Last sequence update: November 22, 2005
Last modified: July 22, 2015
This is version 56 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.