Protein Info for PP_4806 in Pseudomonas putida KT2440

Annotation: murein transpeptidase factor

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 50 100 150 200 250 300 374 transmembrane" amino acids 20 to 43 (24 residues), see Phobius details amino acids 49 to 69 (21 residues), see Phobius details amino acids 79 to 100 (22 residues), see Phobius details amino acids 114 to 133 (20 residues), see Phobius details amino acids 142 to 159 (18 residues), see Phobius details amino acids 165 to 183 (19 residues), see Phobius details amino acids 189 to 207 (19 residues), see Phobius details amino acids 274 to 298 (25 residues), see Phobius details amino acids 310 to 334 (25 residues), see Phobius details amino acids 343 to 364 (22 residues), see Phobius details TIGR02210: rod shape-determining protein RodA" amino acids 21 to 369 (349 residues), 444.2 bits, see alignment E=1.8e-137 PF01098: FTSW_RODA_SPOVE" amino acids 29 to 369 (341 residues), 372.7 bits, see alignment E=9.4e-116

Best Hits

Swiss-Prot: 54% identical to RODA_ECOLI: Peptidoglycan glycosyltransferase MrdB (mrdB) from Escherichia coli (strain K12)

KEGG orthology group: K05837, rod shape determining protein RodA (inferred from 100% identity to ppf:Pput_4681)

MetaCyc: 54% identical to peptidoglycan glycosyltransferase MrdB (Escherichia coli K-12 substr. MG1655)
Peptidoglycan glycosyltransferase. [EC: 2.4.1.129]

Predicted SEED Role

"Rod shape-determining protein RodA" in subsystem Bacterial Cytoskeleton or Peptidoglycan Biosynthesis

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.4.1.129

Use Curated BLAST to search for 2.4.1.129

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 Q88DL9 at UniProt or InterPro

Protein Sequence (374 amino acids)

>PP_4806 murein transpeptidase factor (Pseudomonas putida KT2440)
MLSSEDVMRRRASFLQRIHIDGPLLIILLTLAAGSLFVLYSASGKNWDLLLKQATSFGIG
LVSMFVIAQLEPRFMARWVPLAYLAGVLLLVVVDVMGHNAMGATRWINIPGVIRFQPSEF
MKIIMPATIAWYLSKRTLPPHLKHVAISLVLIGVPFMLIVRQPDLGTALLILASGAFVLF
MGGLRWRWILSVLAAAVPVAVAMWFFVMHDYQKQRVLTFLDPESDPLGTGWNIIQSKAAI
GSGGVFGKGWLLGTQSHLDFLPESHTDFIIAVLGEEFGLVGICLLLIVYLLLIGRGLVIT
AQAQTLFGKLLAGSLTMTFFVYVFVNIGMVSGLLPVVGVPLPFISYGGTSLVTLLSAFGV
LMSIHTHRKWIAQV