Protein Info for EX28DRAFT_2011 in Enterobacter asburiae PDN3

Annotation: Uncharacterized protein conserved in bacteria

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 50 100 150 200 250 300 350 400 450 500 550 607 signal peptide" amino acids 1 to 31 (31 residues), see Phobius details PF20142: Scaffold" amino acids 98 to 229 (132 residues), 66.7 bits, see alignment E=5.7e-22 PF01471: PG_binding_1" amino acids 308 to 340 (33 residues), 29.9 bits, see alignment (E = 7.5e-11) PF03734: YkuD" amino acids 368 to 534 (167 residues), 86.1 bits, see alignment E=5.7e-28

Best Hits

Swiss-Prot: 78% identical to YCBB_ECOLI: Probable L,D-transpeptidase YcbB (ycbB) from Escherichia coli (strain K12)

KEGG orthology group: None (inferred from 92% identity to enc:ECL_02728)

MetaCyc: 78% identical to L,D-transpeptidase LdtD (Escherichia coli K-12 substr. MG1655)
Muramoyltetrapeptide carboxypeptidase. [EC: 3.4.17.13]; RXN-16660 [EC: 3.4.17.13]; RXN-16665 [EC: 3.4.17.13]

Predicted SEED Role

"L,D-transpeptidase YcbB"

MetaCyc Pathways

Isozymes

Compare fitness of predicted isozymes for: 3.4.17.13

Use Curated BLAST to search for 3.4.17.13

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

Find the best match in UniProt

Protein Sequence (607 amino acids)

>EX28DRAFT_2011 Uncharacterized protein conserved in bacteria (Enterobacter asburiae PDN3)
MLLKKECGRQLSALSLCLAVMFAPLLTAQADEPEIVPTDSSATTGAQPTSLSQPLDQSPA
TAIMAGIKPLPEGIDAESLSQQLQSGLPSGYTPVYINQLTLLYAARDMKPMWENRDAVRA
FQQQLAEVAIAGFQPQFTKWVELLTDPAVTGQARDVVLSDAMMGYLQFVAGIPVNGNRWL
YSDKPYKLATPALSVINQWQLALDNGELPRFIASLAPAHPQYATLHQSLLALVGDTRPWP
QMRGTATLRPGQWSSDVPALREILTRSGLLDGGPKIALPGDDPQNVAVSPSAPVKEKKAV
VLSDKPAAYDRELVAAVKQFQAAQGLGADGVIGQTTRDWLNVSPAQRAGVLALNIQRLRL
LPGTLSTGIMVNIPAYSLVYYQDGSEKLASRVIVGRPDRKTPMMSSALNNVVVNPPWNVP
PTLARKDILPKVWNDPGYLERHGYTVMRGWNSKEAIDPYMVDWSTITASNLPFRFQQAPG
AHNSLGRYKFNMPSSEAIYLHDTPNHNLFQKDTRALSSGCVRVNKASELANMLLQDAGWN
DTRVSDALKQGDTRYVNIRHNIPVNLYYLTAFVGEDGRTQYRTDIYNYDLTARSGAQILP
KAEQLIR