Protein Info for PP_4673 in Pseudomonas putida KT2440

Annotation: Chi activated ATP-dependent DNA helicase and dsDNA/ssDNA exonuclease

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

1 100 200 300 400 500 600 700 800 900 1000 1100 1224 transmembrane" amino acids 632 to 649 (18 residues), see Phobius details amino acids 859 to 875 (17 residues), see Phobius details TIGR00609: exodeoxyribonuclease V, beta subunit" amino acids 9 to 1207 (1199 residues), 1099.4 bits, see alignment E=0 PF00580: UvrD-helicase" amino acids 13 to 444 (432 residues), 170.4 bits, see alignment E=1.7e-53 PF13245: AAA_19" amino acids 18 to 432 (415 residues), 40.6 bits, see alignment E=7.3e-14 PF13361: UvrD_C" amino acids 703 to 839 (137 residues), 51.8 bits, see alignment E=2.2e-17 PF12705: PDDEXK_1" amino acids 979 to 1203 (225 residues), 23.6 bits, see alignment E=1.2e-08

Best Hits

KEGG orthology group: K03582, exodeoxyribonuclease V beta subunit [EC: 3.1.11.5] (inferred from 70% identity to pfs:PFLU5213)

Predicted SEED Role

"Exodeoxyribonuclease V beta 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 Q88DZ5 at UniProt or InterPro

Protein Sequence (1224 amino acids)

>PP_4673 Chi activated ATP-dependent DNA helicase and dsDNA/ssDNA exonuclease (Pseudomonas putida KT2440)
MTQDRPLALSFPLHGSQLIEASAGTGKTFTISALYLRLILGHGGEQGFERELLPPQILVV
TFTDAATKELRERIRARLAEAARFFRGELEGADPLLHQLRDDYPQENWPRCAGRLEIAVQ
WMDEAAVSTIHGWCQRMLREHAFDSGSLFTQTLETDHSELLGQVMRDYWRRFCYGMQGDA
LAWVRGNWGSPDALLPRIRPLFGRVRAQQNGPEPAALIQASLQQRGAQLARIKAPWAQWA
EELRQICRDALAAKQVDGRKMQARYFEPWFDKLCAWASDEQLVELDLGTGFTRLTPAGMA
EAWKGEPPEHPALNAMQHLQQQLQALDSPDAPLLEHAASWVSARFEVEKRRRAEMGFDDM
LVRLQHALASEAGERLASLIREQFPVALIDEFQDTDPVQYGIFERIYQISENRAETGLFM
IGDPKQAIYAFRGADIYTYLAARRATSGRLHSLDTNYRSSKAMVAAVNQVFLQAEAREAG
RGAFLFREADDNPLPFIEVRAKGRGEQLLIDGEVSAALQCWQLESEEPVSSSVYRQQMAA
SCASHIVALLNGGQQGTSGFRNAEGELRACLPSDIAILVRDGHEAQMVRAELAAREVRSV
YLSDKDSVFAAQEAHDLLAWLKACAEPDSERLLKAALASLTLGLSLAALDRLNQDERVWE
SWVMRFRLYRDTWQRQGVLPMLRHLLHDFQLPRTLIRRSDGERVLTNLLHLAELLQQAAG
ELDGEQALIRHLAEHLASSGQAGEEQILRLESDEQLVKVVTIHKSKGLEYPLVYLPFICT
SKPVDGSRLPLAWHDSEGNAHLTLTPDQEQIERADDERLAEDLRLLYVALTRAQHACWLG
VADLKRGNLKSSQLHRSAFGYLLGGGLALAGSAQLTDWLQALAASCPHITCPGLPQADEQ
MYRMPHAERELLPARRPRHAAAEHWWIASYSALRVGDQTLGADSSQAQQLLDDEVPDAQV
LREVPADSGDIHRFPRGPNPGTFLHGLLEWAGREGFSEVSANPQLIERTVGQRCNRRDWA
GWIPTLSHWMQRLLSEALPLPGSDQSVTLGQLRHYQIEMEFWFASHRVDAEQLDRLVARH
THPGLARPAAQPTVLNGMFKGFIDLAFELDGRYYVTDYKSNWLGADIQAYDAMAMEKAIL
EHRYDLQYVLYLLALHRQLRARLADYDYDRHVGGALFIFLRGASSSGHGVYHAKPPRELI
ESLDALFRGEHAPVQQDLFAGVAP