Protein Info for PP_1650 in Pseudomonas putida KT2440

Annotation: Sensor protein GacS

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 850 917 transmembrane" amino acids 12 to 32 (21 residues), see Phobius details amino acids 170 to 189 (20 residues), see Phobius details PF09984: sCache_4" amino acids 36 to 169 (134 residues), 65.3 bits, see alignment E=1.7e-21 PF00672: HAMP" amino acids 191 to 241 (51 residues), 46.8 bits, see alignment 8.8e-16 PF00512: HisKA" amino acids 286 to 350 (65 residues), 80 bits, see alignment 3.1e-26 PF02518: HATPase_c" amino acids 397 to 512 (116 residues), 100 bits, see alignment E=3.3e-32 PF00072: Response_reg" amino acids 670 to 784 (115 residues), 90.8 bits, see alignment E=2e-29 PF01627: Hpt" amino acids 830 to 911 (82 residues), 57.6 bits, see alignment E=3.8e-19

Best Hits

Swiss-Prot: 75% identical to GACS_PSEPH: Sensor histidine kinase GacS (gacS) from Pseudomonas protegens (strain DSM 19095 / LMG 27888 / CHA0)

KEGG orthology group: K07678, two-component system, NarL family, sensor histidine kinase BarA [EC: 2.7.13.3] (inferred from 100% identity to ppu:PP_1650)

Predicted SEED Role

"BarA sensory histidine kinase (= VarS = GacS)" in subsystem Type III secretion system orphans

Isozymes

Compare fitness of predicted isozymes for: 2.7.13.3

Use Curated BLAST to search for 2.7.13.3

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 Q88MC3 at UniProt or InterPro

Protein Sequence (917 amino acids)

>PP_1650 Sensor protein GacS (Pseudomonas putida KT2440)
MLDRLGIRSRVLLLALLPAGLMALVLGSYFTWLQQNDLRTQLLQRGKMIAEQLAPLAAPA
MARLAPAQLERIAAQTLEQADVRAVAFLAPDRTRLAHAGPSMLNLPPSGGTGTQLLQRSG
NDATRYLMPVFGHHRDLATDAVPAEAERLLGWVEIELSHDGTLLRGYRNLFTSLLLILAC
LALSGLLALRMSRTINDPIERIKHAVNQLKDGHLEERLPTMGSHELDELAHGINRMAETL
QNAHEELQHSIDQATEDVRQNLETIEIQNIELDMARKEALEASRIKSEFLANMSHEIRTP
LNGILGFTHLLQKSEMTPRQLDYLNTIEKSADNLLGIINEILDFSKIEAGKLVLDSIPFN
LRDLIQDTLTILAPAAHAKQLELLSLIYRDTPASLVGDPLRLKQILTNLVSNAIKFTREG
TIVVRAMLEDEHEDCAQLRISVQDTGIGLSPQDVRTLFQAFSQADNSLARQPGGTGLGLV
ISKRLIEQMGGEIGVDSTPGEGSQFWISLNLPKAHDDAEALPPQPLLGRRAAIVDGHELA
RQALEHQLEDCGLSVSLFASYDQLLQGVQAASQAGLPFEFAVLGANLGNLSPEQLGHYHQ
QLERYHCQCVVLCPTTEQALYHPYLPNGHGQLLSKPTCTRKLRRLLLELVQPRRPLAEGS
NPNGQRRPKILCVDDNAANLLLVKTLLEDLGAEVLAVNNGYAAVQAVQEELFDLVLMDVQ
MPGMDGRACTEQIRLWENTQSGNPLPIVALTAHAMANEKRALLHSGMDDYLTKPISERQL
AQVVMKWTGLSLGTPQQAQAELLTNGDELKVLDPEEGLRLAAGKADLAADMLSMLLASLD
TDREAIRAARAADDRNGLIEQVHRLNGASRYCGVPQLRAACQRSETLLKQDNPQAQQALD
ELDSAISRLAAQARLSA