Protein Info for Psest_3366 in Pseudomonas stutzeri RCH2
Updated annotation (from data): Biosynthetic arginine decarboxylase (EC 4.1.1.19)
Rationale: Specifically important for utilizing L-Arginine. Automated validation from mutant phenotype: the predicted function (ARGDECARBOX-RXN) was linked to the condition via a MetaCyc pathway. This annotation was also checked manually.
Original annotation: arginine decarboxylase, biosynthetic
These analyses and tools can help you predict a protein's function, but be skeptical. For enzymes, over 10% of annotations from KEGG or SEED are probably incorrect. For other types of proteins, the error rates may be much higher. MetaCyc and Swiss-Prot have low error rates, but the best hits in these databases are often quite distant, so this protein's function may not be the same. TIGRFam has low error rates. Finally, many experimentally-characterized proteins are not in any of these databases. To find relevant papers, use PaperBLAST.
Protein Families and Features
Best Hits
Swiss-Prot: 84% identical to SPEA_PSEPK: Biosynthetic arginine decarboxylase (speA) from Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
KEGG orthology group: K01585, arginine decarboxylase [EC: 4.1.1.19] (inferred from 99% identity to psa:PST_0978)MetaCyc: 84% identical to arginine decarboxylase, biosynthetic (Pseudomonas aeruginosa)
Arginine decarboxylase. [EC: 4.1.1.19]
Predicted SEED Role
"Biosynthetic arginine decarboxylase (EC 4.1.1.19)" in subsystem Acid resistance mechanisms or Arginine and Ornithine Degradation or Polyamine Metabolism (EC 4.1.1.19)
MetaCyc Pathways
- superpathway of arginine and polyamine biosynthesis (14/17 steps found)
- L-arginine degradation IV (arginine decarboxylase/agmatine deiminase pathway) (3/3 steps found)
- putrescine biosynthesis II (3/3 steps found)
- arginine dependent acid resistance (1/1 steps found)
- L-arginine degradation III (arginine decarboxylase/agmatinase pathway) (1/2 steps found)
- putrescine biosynthesis I (1/2 steps found)
- superpathway of polyamine biosynthesis I (5/8 steps found)
- superpathway of polyamine biosynthesis II (5/8 steps found)
- superpathway of putrescine biosynthesis (2/4 steps found)
- superpathway of L-arginine and L-ornithine degradation (8/13 steps found)
- spermidine biosynthesis III (1/4 steps found)
- superpathway of L-arginine, putrescine, and 4-aminobutanoate degradation (6/11 steps found)
KEGG Metabolic Maps
Isozymes
Compare fitness of predicted isozymes for: 4.1.1.19
Use Curated BLAST to search for 4.1.1.19
Sequence Analysis Tools
PaperBLAST (search for papers about homologs of this protein)
Search CDD (the Conserved Domains Database, which includes COG and superfam)
Compare to protein structures
Predict protein localization: PSORTb (Gram-negative bacteria)
Predict transmembrane helices and signal peptides: Phobius
Check the current SEED with FIGfam search
Find homologs in fast.genomics or the ENIGMA genome browser
See L0GPC3 at UniProt or InterPro
Protein Sequence (637 amino acids)
>Psest_3366 Biosynthetic arginine decarboxylase (EC 4.1.1.19) (Pseudomonas stutzeri RCH2) MPVRRTRKDDGSQWTAADSRSIYGIRHWGAGYFAISDEGNVEVRPQGPSGEPIEFNGLIE QLREAGLSLPLLVRFPGILQDRVRRLTGAFDANIERMEYAGKYTALYPIKVNQQEAVVEN IIATQNVSIGLEAGSKPELMAVLALAPKGGTIVCNGYKDREFIRLALMGQKLGHKVFIVI EKESEVGLVIEEANELKLTPQVGLRVRLSSLASSKWADTGGERSKFGLSAAQLLSVIERF RAAEMDQGIRLLHFHMGSQIANLADYRQGFREAIRYYAELRALNLPVDYIDVGGGLGVDY DGTHSRNASSINYDIDEYAGTVVGMLKEFCEAQGLPHPNIFSESGRAMTAHHAVLVMQVT DVERHNDELPVIENYDELPEIVQSLADLLGPTDPEMVTETYWRATHYMSESSAQYASGKL TLAQKALAEQSYFAICRRLYNQLKARQRSHRAVLDELNDKLADKYICNFSVFQSLPDTWA IDQILPIVPLQRLSEEPVRRAVLQDLTCDSDGKIKHYVDEQSIESSMPVHEVAPGEEYFL GVFLVGAYQEILGDMHNLFGDTDSVNVYQREDGSYYHAGIETHDTIEDMLRYVHLSPEEL MTYYRDKVASAKLSAKERTQYIDALRLGLTRSSYLTP