Protein Info for Psyr_4938 in Pseudomonas syringae pv. syringae B728a

Annotation: Helix-turn-helix, Fis-type

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 50 100 150 200 250 300 350 400 463 PF00072: Response_reg" amino acids 13 to 122 (110 residues), 97.7 bits, see alignment E=1.7e-31 PF00158: Sigma54_activat" amino acids 152 to 318 (167 residues), 227.3 bits, see alignment E=3.3e-71 PF14532: Sigma54_activ_2" amino acids 153 to 323 (171 residues), 80 bits, see alignment E=7.1e-26 PF07728: AAA_5" amino acids 175 to 293 (119 residues), 35.5 bits, see alignment E=3.3e-12 PF07724: AAA_2" amino acids 175 to 277 (103 residues), 30 bits, see alignment E=1.8e-10 PF18024: HTH_50" amino acids 402 to 450 (49 residues), 32 bits, see alignment 2.8e-11

Best Hits

Swiss-Prot: 77% identical to DCTD_PSEAE: C4-dicarboxylate transport transcriptional regulatory protein DctD (dctD) from Pseudomonas aeruginosa (strain ATCC 15692 / DSM 22644 / CIP 104116 / JCM 14847 / LMG 12228 / 1C / PRS 101 / PAO1)

KEGG orthology group: K10126, two-component system, NtrC family, C4-dicarboxylate transport response regulator DctD (inferred from 100% identity to psb:Psyr_4938)

Predicted SEED Role

"C4-dicarboxylate transport transcriptional regulatory protein"

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 Q4ZLK7 at UniProt or InterPro

Protein Sequence (463 amino acids)

>Psyr_4938 Helix-turn-helix, Fis-type (Pseudomonas syringae pv. syringae B728a)
MSSDTAIDSQIQVVLIDDDSHLRQALRQTLDLAGLNVLSLPEATGLAERIGRDWPGVVVS
DIRMQGMDGLELLDQLHAQDPDLPVLLITGHGDVPLAVKAMRAGAYDFLEKPFASDAMLD
SVRRALALRRLVLDNRSLRLALSDRQQLSTRLIGQSPPILRLREQIGALAGTRADVLILG
ETGAGKEVVARALHDLSNRRSGPFVAINAGALAESVVESELFGHEPGAFTGAQKRRIGKF
EFANGGTLFLDEIESMSLDVQVKLLRLLQERVVERMGSNQQIPLDIRIIAATKEDLRHAA
DQGRFRADLYYRLNVASLRIPPLRERGEDALMLFEHYADAASMRHGIPKHELKPGQRALL
LRHNWPGNVRELQNAAERFALGLELELEPEGVDAEQAPPPGGGLSDQVESFERALIAAEL
ARPHSSVRSLAEALGVPRKTLHDKLRKHGLTFGDSSGASDDTD