Protein Info for PP_0006 in Pseudomonas putida KT2440

Annotation: probable membrane protein insertase

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 50 100 150 200 250 300 350 400 450 500 560 transmembrane" amino acids 6 to 23 (18 residues), see Phobius details amino acids 343 to 361 (19 residues), see Phobius details amino acids 371 to 392 (22 residues), see Phobius details amino acids 435 to 457 (23 residues), see Phobius details amino acids 469 to 494 (26 residues), see Phobius details amino acids 515 to 535 (21 residues), see Phobius details TIGR03593: membrane protein insertase, YidC/Oxa1 family, N-terminal domain" amino acids 4 to 369 (366 residues), 372.7 bits, see alignment E=2.8e-115 PF14849: YidC_periplas" amino acids 83 to 360 (278 residues), 308 bits, see alignment E=9.6e-96 TIGR03592: membrane protein insertase, YidC/Oxa1 family" amino acids 370 to 549 (180 residues), 242.8 bits, see alignment E=3e-76 PF02096: 60KD_IMP" amino acids 371 to 549 (179 residues), 221.6 bits, see alignment E=6.1e-70

Best Hits

Swiss-Prot: 100% identical to YIDC_PSEPU: Membrane protein insertase YidC (yidC) from Pseudomonas putida

KEGG orthology group: K03217, preprotein translocase subunit YidC (inferred from 100% identity to ppu:PP_0006)

MetaCyc: 48% identical to membrane protein insertase YidC (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-403

Predicted SEED Role

"Inner membrane protein translocase component YidC, long form"

MetaCyc Pathways

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 P0A140 at UniProt or InterPro

Protein Sequence (560 amino acids)

>PP_0006 probable membrane protein insertase (Pseudomonas putida KT2440)
MDIKRTILIAALAVVSYVMVLKWNDDYGQAALPTQNTAASTVAPGLPDGVPAGNNGASAD
VPSANAESSPAELAPVALSKDLIRVKTDVLELAIDPVGGDIVQLNLPKYPRRQDHPNIPF
QLFDNGGERVYLAQSGLTGTDGPDARASGRPLYAAEQKSYQLADGQEQLVVDLKFSDNGV
NYIKRFSFKRGEYDLNVSYLIDNQSGQAWNGNMFAQLKRDASGDPSSSTATGTATYLGAA
LWTASEPYKKVSMKDIDKGSLKENVSGGWVAWLQHYFVTAWIPAKSDNNVVQTRKDSQGN
YIIGYTGPVISVPAGGKVETSALLYAGPKIQSKLKELSPGLELTVDYGFLWFIAQPIFWL
LQHIHSLLGNWGWSIIVLTMLIKGLFFPLSAASYRSMARMRAVAPKLAALKERFGDDRQK
MSQAMMELYKKEKINPLGGCLPILVQMPVFLALYWVLLESVEMRQAPWILWITDLSIKDP
FFILPIIMGATMFIQQRLNPTPPDPMQAKVMKMMPIIFTFFFLWFPAGLVLYWVVNNCLS
ISQQWYITRRIEAATKKAAA