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Q57764

- PDAD_METJA

UniProt

Q57764 - PDAD_METJA

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Protein

Pyruvoyl-dependent arginine decarboxylase

Gene

pdaD

Organism
Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli

Functioni

Catalytic activityi

L-arginine = agmatine + CO2.

Cofactori

Pyruvoyl group.

Temperature dependencei

Thermostable.

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sitei52 – 532Cleavage (non-hydrolytic)

GO - Molecular functioni

  1. arginine decarboxylase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. arginine catabolic process Source: InterPro
Complete GO annotation...

Keywords - Molecular functioni

Decarboxylase, Lyase

Keywords - Ligandi

Pyruvate

Enzyme and pathway databases

SABIO-RKQ57764.

Names & Taxonomyi

Protein namesi
Recommended name:
Pyruvoyl-dependent arginine decarboxylase (EC:4.1.1.19)
Short name:
PvlArgDC
Cleaved into the following 2 chains:
Gene namesi
Name:pdaD
Ordered Locus Names:MJ0316
OrganismiMethanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440) (Methanococcus jannaschii)
Taxonomic identifieri243232 [NCBI]
Taxonomic lineageiArchaeaEuryarchaeotaMethanococciMethanococcalesMethanocaldococcaceaeMethanocaldococcus
ProteomesiUP000000805: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 5252Pyruvoyl-dependent arginine decarboxylase subunit betaPRO_0000023314Add
BLAST
Chaini53 – 165113Pyruvoyl-dependent arginine decarboxylase subunit alphaPRO_0000023315Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei53 – 531Pyruvic acid (Ser)

Interactioni

Subunit structurei

Trimer of an alpha-beta dimer.

Protein-protein interaction databases

STRINGi243232.MJ0316.

Structurei

Secondary structure

1
165
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi10 – 123
Beta strandi17 – 2610
Helixi30 – 4112
Beta strandi46 – 516
Beta strandi53 – 553
Beta strandi72 – 8211
Beta strandi88 – 10013
Beta strandi105 – 11410
Helixi116 – 13419
Beta strandi138 – 14912
Beta strandi151 – 16313

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1MT1X-ray2.20A/C/E/G/I/K1-52[»]
B/D/F/H/J/L53-165[»]
1N13X-ray1.40A/C/E/G/I/K1-52[»]
B/D/F/H/J/L53-165[»]
1N2MX-ray1.90A/B/C/D/E/F1-165[»]
2QQCX-ray2.00A/C/E/G/I/K1-52[»]
B/D/F/H/J/L54-165[»]
2QQDX-ray2.00A/D1-52[»]
B/E54-165[»]
C/F/G/H1-165[»]
ProteinModelPortaliQ57764.
SMRiQ57764. Positions 3-165.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ57764.

Family & Domainsi

Sequence similaritiesi

Belongs to the PdaD family.Curated

Phylogenomic databases

eggNOGiCOG1945.
InParanoidiQ57764.
KOiK02626.
OMAiISSIMPP.
PhylomeDBiQ57764.

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.

Q57764 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MNAEINPLHA YFKLPNTVSL VAGSSEGETP LNAFDGALLN AGIGNVNLIR
60 70 80 90 100
ISSIMPPEAE IVPLPKLPMG ALVPTAYGYI ISDVPGETIS AAISVAIPKD
110 120 130 140 150
KSLCGLIMEY EGKCSKKEAE KTVREMAKIG FEMRGWELDR IESIAVEHTV
160
EKLGCAFAAA ALWYK
Length:165
Mass (Da):17,708
Last modified:November 1, 1996 - v1
Checksum:i04C7F8AB3AEC2342
GO

Mass spectrometryi

Molecular mass is 5436±11 Da from positions 1 - 52. Determined by MALDI. 1 Publication
Molecular mass is 12356±57 Da from positions 53 - 165. Determined by MALDI. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
L77117 Genomic DNA. Translation: AAB98302.1.
PIRiE64339.
RefSeqiNP_247289.1. NC_000909.1.
WP_010869814.1. NC_000909.1.

Genome annotation databases

EnsemblBacteriaiAAB98302; AAB98302; MJ_0316.
GeneIDi1451171.
KEGGimja:MJ_0316.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
L77117 Genomic DNA. Translation: AAB98302.1 .
PIRi E64339.
RefSeqi NP_247289.1. NC_000909.1.
WP_010869814.1. NC_000909.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
1MT1 X-ray 2.20 A/C/E/G/I/K 1-52 [» ]
B/D/F/H/J/L 53-165 [» ]
1N13 X-ray 1.40 A/C/E/G/I/K 1-52 [» ]
B/D/F/H/J/L 53-165 [» ]
1N2M X-ray 1.90 A/B/C/D/E/F 1-165 [» ]
2QQC X-ray 2.00 A/C/E/G/I/K 1-52 [» ]
B/D/F/H/J/L 54-165 [» ]
2QQD X-ray 2.00 A/D 1-52 [» ]
B/E 54-165 [» ]
C/F/G/H 1-165 [» ]
ProteinModelPortali Q57764.
SMRi Q57764. Positions 3-165.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 243232.MJ0316.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAB98302 ; AAB98302 ; MJ_0316 .
GeneIDi 1451171.
KEGGi mja:MJ_0316.

Phylogenomic databases

eggNOGi COG1945.
InParanoidi Q57764.
KOi K02626.
OMAi ISSIMPP.
PhylomeDBi Q57764.

Enzyme and pathway databases

SABIO-RK Q57764.

Miscellaneous databases

EvolutionaryTracei Q57764.

Family and domain databases

Gene3Di 3.50.20.10. 1 hit.
HAMAPi MF_01404. PvlArgDC.
InterProi IPR016104. Pyr-dep_his/arg-deCO2ase.
IPR016105. Pyr-dep_his/arg-deCO2ase_sand.
IPR002724. Pyruvoyl-dep_arg_deCO2ase.
[Graphical view ]
Pfami PF01862. PvlArgDC. 1 hit.
[Graphical view ]
PIRSFi PIRSF005216. Pyruvoyl-dep_arg_deCO2ase. 1 hit.
ProDomi PD010449. Pyruvoyl-dep_arg_deCO2ase. 1 hit.
[Graphical view ] [Entries sharing at least one domain ]
SUPFAMi SSF56271. SSF56271. 1 hit.
TIGRFAMsi TIGR00286. TIGR00286. 1 hit.
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440.
  2. "Methanococcus jannaschii uses a pyruvoyl-dependent arginine decarboxylase in polyamine biosynthesis."
    Graham D.E., Xu H., White R.H.
    J. Biol. Chem. 277:23500-23507(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: CHARACTERIZATION, MASS SPECTROMETRY.
    Strain: ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440.

Entry informationi

Entry nameiPDAD_METJA
AccessioniPrimary (citable) accession number: Q57764
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1996
Last modified: October 29, 2014
This is version 108 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Methanococcus jannaschii
    Methanococcus jannaschii: entries and gene names
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3