Protein Info for Shew_3123 in Shewanella loihica PV-4

Annotation: penicillin-binding protein 1B (RefSeq)

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 789 transmembrane" amino acids 49 to 68 (20 residues), see Phobius details TIGR02071: penicillin-binding protein 1B" amino acids 49 to 770 (722 residues), 885.8 bits, see alignment E=1.1e-270 PF14814: UB2H" amino acids 94 to 178 (85 residues), 86.2 bits, see alignment E=1.9e-28 PF00912: Transgly" amino acids 190 to 359 (170 residues), 196.9 bits, see alignment E=2.9e-62 PF00905: Transpeptidase" amino acids 454 to 720 (267 residues), 84.4 bits, see alignment E=1.3e-27

Best Hits

Swiss-Prot: 46% identical to PBPB_VIBCH: Penicillin-binding protein 1B (mrcB) from Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

KEGG orthology group: K05365, penicillin-binding protein 1B [EC: 2.4.1.129 3.4.-.-] (inferred from 100% identity to slo:Shew_3123)

Predicted SEED Role

"Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-)" in subsystem Peptidoglycan Biosynthesis or Type IV pilus (EC 2.4.1.129, EC 3.4.-.-)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 2.4.1.129, 3.4.-.-

Use Curated BLAST to search for 2.4.1.129 or 3.4.-.-

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 A3QHP1 at UniProt or InterPro

Protein Sequence (789 amino acids)

>Shew_3123 penicillin-binding protein 1B (RefSeq) (Shewanella loihica PV-4)
MTNKETPTPRRPRKSTNSKAGNSQSSKRKSASKSTATARPGWGRRIWSLSWKLGLILFAA
MTIYSIYLDQIIARKFEGQKWHLPAQVFSRSMALYPGAAVSHDQLIAELKLLGYRKVANP
RQVGEFSASKTKVDLWRRPFLHPQGSQEAQRMMISFDSQGVASVARSSDHRELAVFHLEP
VLLDRMITGDGEDRLFVATDKIPKAIVDALILVEDRSFYEHHGVNPFAIIRAAMVNISAG
RTVQGGSTLTQQLAKNFFLSSERSIIRKLREALMAIIIDFRYDKDEILEAYLNEVYMGQD
KSRAVHGMGLASQFYFGRPIAELTLPQQAFLVAAIKGPSYYNPWRFPERAQERRDLVLRL
LMESGQLPVAQYKAAVESPLGVRKASKPVHQKLPAFFAVVRGELSRRFGDSLLQQSGIKV
YTTLDPLAQEAAEQAVRSTMKNLEQRDKALQVGMVVTDKYSAGIAAMVGDKVPSYQGFNR
AVEIRRPIGSLIKPFVYATALTHGDKYTLATPLKDEPITLTNSQGKTWSPQNVNKQFSGE
VPLMTAFKKSMNVPTVNLGMAIGTDAVATTLAKSGWDETIPEYPSMLLGAVNGSPLMVAQ
VYQTLADNGRYRQLNAVTHVLDADNQPLSASQRGADQAISVASDFLVQHAMTQVVQSGTA
TKLGQAFPGVTLAGKTGTSNDSRDSWFAGFDERNVAAVWVGLDDNGKTSLYGSSGAMAVY
QAFLKQRAPISLRRTPVNGVVSGYFDAKTGVAKQGNCGNVVAVPALAESYRPAKNCGEPL
SWWQKLMGG