Protein Info for PP_4644 in Pseudomonas putida KT2440

Annotation: DNA repair enzyme

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

1 50 100 150 200 250 300 350 400 456 TIGR00416: DNA repair protein RadA" amino acids 1 to 451 (451 residues), 662.8 bits, see alignment E=1.3e-203 PF18073: Zn_ribbon_LapB" amino acids 8 to 35 (28 residues), 39.4 bits, see alignment (E = 9.6e-14) PF13481: AAA_25" amino acids 74 to 222 (149 residues), 47.8 bits, see alignment E=3.6e-16 PF06745: ATPase" amino acids 79 to 149 (71 residues), 40.1 bits, see alignment E=6.8e-14 PF13541: ChlI" amino acids 363 to 430 (68 residues), 30 bits, see alignment E=1e-10 PF05362: Lon_C" amino acids 372 to 454 (83 residues), 27.5 bits, see alignment E=5.5e-10

Best Hits

Swiss-Prot: 90% identical to RADA_PSEAE: DNA repair protein RadA (radA) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K04485, DNA repair protein RadA/Sms (inferred from 100% identity to ppg:PputGB1_4638)

Predicted SEED Role

"DNA repair protein RadA" in subsystem DNA repair, bacterial

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 Q88E24 at UniProt or InterPro

Protein Sequence (456 amino acids)

>PP_4644 DNA repair enzyme (Pseudomonas putida KT2440)
MAKAKRLYGCTECGATFPKWAGQCGECGAWNTLVETMIESGGAAAPSSGRAGWTGQQAQI
KTLAEVSVEEIPRFTTSSTELDRVLGGGLVDGSVVLIGGDPGIGKSTILLQTLCNIAVGM
PALYVTGEESQQQVAMRSRRLGLPQDQLKVMTETCIETIIATARVEKPRVMVIDSIQTIF
TEQLQSAPGGVAQVRESTALLVRYAKQSGTAIFLVGHVTKEGSLAGPRVLEHMVDTVLYF
EGESDGRLRLLRAVKNRFGAVNELGVFGMTDRGLKEVSNPSAIFLNRTQEEVPGSVVMAT
WEGTRPMLVEVQALVDDSHLANPRRVTLGLDQNRLAMLLAVLHRHGGIPTHDQDVFLNVV
GGVKVLETASDLALLAAVMSSLRNRPLAHGLLVFGEIGLSGEVRPVPSGQERLKEAAKHG
FKRAIVPKGNAPKEAPAGLQVIAVTRLEQALDALFE