Protein Info for PP_4672 in Pseudomonas putida KT2440

Annotation: ATP-dependent DNA helicase and dsDNA/ssDNA exonuclease, ssDNA endonuclease

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 50 100 150 200 250 300 350 400 450 500 550 600 650 691 TIGR01447: exodeoxyribonuclease V, alpha subunit" amino acids 34 to 688 (655 residues), 647.3 bits, see alignment E=1.2e-198 PF21185: RecD_N" amino acids 39 to 155 (117 residues), 96.9 bits, see alignment E=3.8e-31 PF13245: AAA_19" amino acids 204 to 356 (153 residues), 115.3 bits, see alignment E=1e-36 PF13604: AAA_30" amino acids 209 to 371 (163 residues), 94 bits, see alignment E=4.5e-30 PF13086: AAA_11" amino acids 212 to 270 (59 residues), 27.9 bits, see alignment 9.1e-10 PF00580: UvrD-helicase" amino acids 213 to 295 (83 residues), 23.7 bits, see alignment E=1.7e-08 PF13401: AAA_22" amino acids 213 to 337 (125 residues), 34.5 bits, see alignment E=1e-11 PF05127: Helicase_RecD" amino acids 218 to 337 (120 residues), 37.3 bits, see alignment E=1.2e-12 PF13538: UvrD_C_2" amino acids 618 to 660 (43 residues), 39.4 bits, see alignment 2e-13

Best Hits

KEGG orthology group: K03581, exodeoxyribonuclease V alpha subunit [EC: 3.1.11.5] (inferred from 100% identity to ppu:PP_4672)

Predicted SEED Role

"Exodeoxyribonuclease V alpha chain (EC 3.1.11.5)" in subsystem DNA-replication (EC 3.1.11.5)

Isozymes

Compare fitness of predicted isozymes for: 3.1.11.5

Use Curated BLAST to search for 3.1.11.5

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 Q88DZ6 at UniProt or InterPro

Protein Sequence (691 amino acids)

>PP_4672 ATP-dependent DNA helicase and dsDNA/ssDNA exonuclease, ssDNA endonuclease (Pseudomonas putida KT2440)
MSRSLVDLLPTPLHAEHLLALAPQHNSADLLQLLDRWVERGWLRALDRAFVSFLEERAPG
SDPLLLLAAALASHQLGHGHVCLDLQQTLAEPDFALSLPPEGDALIGPLLLPSQLLANLD
LNAWLQRISASPLVAAGDTPGQQARPLVRSGERLYLRRYWSYERRIDQALRQRLSQAEAP
PADLPERLAQLFEGGAPAGQVDWQKLACALATRAGFSIITGGPGTGKTTTVVRLLALLQA
PAVEQGRPLRIRLAAPTGKAAARLTESIGQQVERLQVSAEVRGQIPTEVSTVHRLLGSRP
GSRHFRHHAGNPLPLDVLVVDEASMIDLEMMANLLDALPPRARLVLLGDKDQLASVEAGA
VLGDLCRDAEEGFYSPATAAWLQQVSGESLAGSGLKAGDEQRHPLAQQVVMLRFSRRFGE
GSGIGQLARLVNRQDAHAARNLLAAPPADVHSLSLKHEQDRAFDRLLLDGLNRGTDGPQG
YRSYLRTLGRYRPALDTAFDDPAWEQWAGKVLRSFEDFQLLCAVRRGAWGVEGLNERVAR
VLHNAGLIDSQQPWYEGRPVLVTRNDYGLGLMNGDIGIALRLPDEHGQPLLRVAFPRNDG
SGGVRFVLPSRLNEVETVFAMTVHKSQGSEFSHTALVLPEALNPVLTKELVYTGITRAKH
CFSLVEPRQGIFEEAVARKVRRISGLMLEQV