Protein Info for PP_0323 in Pseudomonas putida KT2440

Annotation: sarcosine oxidase subunit beta

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 50 100 150 200 250 300 350 416 transmembrane" amino acids 33 to 50 (18 residues), see Phobius details TIGR01373: sarcosine oxidase, beta subunit family" amino acids 3 to 408 (406 residues), 750.2 bits, see alignment E=2.6e-230 PF01266: DAO" amino acids 34 to 380 (347 residues), 220.4 bits, see alignment E=1.1e-68 PF00890: FAD_binding_2" amino acids 34 to 224 (191 residues), 24.6 bits, see alignment E=2.8e-09 PF13450: NAD_binding_8" amino acids 37 to 93 (57 residues), 25 bits, see alignment 3.8e-09

Best Hits

Swiss-Prot: 60% identical to SOXB_CORS1: Sarcosine oxidase subunit beta (soxB) from Corynebacterium sp. (strain P-1)

KEGG orthology group: K00303, sarcosine oxidase, subunit beta [EC: 1.5.3.1] (inferred from 100% identity to ppf:Pput_0345)

MetaCyc: 60% identical to sarcosine oxidase beta subunit (Corynebacterium sp.)
RXN-22742 [EC: 1.5.3.24]

Predicted SEED Role

"Sarcosine oxidase beta subunit (EC 1.5.3.1)" in subsystem Choline and Betaine Uptake and Betaine Biosynthesis (EC 1.5.3.1)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 1.5.3.1

Use Curated BLAST to search for 1.5.3.1 or 1.5.3.24

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

Search 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 Q88R11 at UniProt or InterPro

Protein Sequence (416 amino acids)

>PP_0323 sarcosine oxidase subunit beta (Pseudomonas putida KT2440)
MQRYSGFGLFKHSLSHHENWQRMWRTPTPKKVYDVVIVGGGGHGLATAYYLAKEHGITNV
AVIEKGYLGGGNTARNTTIVRSNYLWDESAHLYEHAMKLWEGLSQDLNYNVMFSQRGVYN
LCHTLQDMRDSERRVSANRLNGVDGELLNTAQVAAEIPYLDCSKNTRYPILGATVQRRGG
VARHDAVAWGFARAADALGVDLIQQTEVIGFRKENGAVIGVETNKGFIGAKRVGVVTAGN
SGHMAKLAGFRLPLESHPLQALVSEPIKPIIDSVIMSNAVHGYISQSDKGDLVIGAGIDG
WVGYGQRGSYPVIEHTLQAIVEMFPNLSRVRMNRQWGGIVDTSPDACPIITKTPVKNMFF
NCGWGTGGFKATPGSGNVFAASLAKGEMHPLAAPFSMDRFYNGALIDEHGAAAVAH