Protein Info for IAI46_24880 in Serratia liquefaciens MT49

Annotation: NAD-dependent DNA ligase LigB

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 50 100 150 200 250 300 350 400 450 500 567 signal peptide" amino acids 1 to 25 (25 residues), see Phobius details PF01653: DNA_ligase_aden" amino acids 36 to 313 (278 residues), 98.8 bits, see alignment E=5.4e-32 PF03120: DNA_ligase_OB" amino acids 318 to 390 (73 residues), 60.2 bits, see alignment E=2.2e-20

Best Hits

Swiss-Prot: 51% identical to LIGB_YERE8: DNA ligase B (ligB) from Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)

KEGG orthology group: K01972, DNA ligase (NAD+) [EC: 6.5.1.2] (inferred from 52% identity to yep:YE105_C0049)

MetaCyc: 50% identical to DNA ligase B (Escherichia coli K-12 substr. MG1655)
DNA ligase (NAD(+)). [EC: 6.5.1.2, 6.5.1.6]

Predicted SEED Role

"DNA ligase (EC 6.5.1.2), LigB" (EC 6.5.1.2)

Isozymes

Compare fitness of predicted isozymes for: 6.5.1.2

Use Curated BLAST to search for 6.5.1.2 or 6.5.1.6

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 (567 amino acids)

>IAI46_24880 NAD-dependent DNA ligase LigB (Serratia liquefaciens MT49)
MRKSVMRIGMMLLFGLLCSETVRAQACPAWRPVRMQLEITALKNQLERWDVAYYQQGSSL
IEDEVYDSLREKLRLWQRCAGAAPEEGAGPLLPEGKVPHPVAHTGLRKLPDLAAVDQWLK
GRSDLWVQPKVDGVAITLVYHDGKLTSAISRGNGLKGENWLEKVRAIPAVPVSIKGAPPT
LILQGELFLMVNGHQQKVSGGINARAKVAGALMKNKPSPLLQQIGLFVWAWPNGPQEMAQ
RLRQLAEMGFPLALTFSQPVKSSAEVQQWREHWHKTALPFVTDGVVIHQAHSPQGLYWQA
RPGDWAVAWKYPPVQQVARVNGIDFNIGRTGKIAVVLRLDPVRMDDKWVTRVNLGSLPRW
RKWAVVPGDQVAISLMGHGIPHLNNVVWRGTDRSLPSAPSAERYHALSCFSWRPDCRQQF
LARLVWLSGPQGLSLRGVSESTWQTLIDQGLVRNLLDWLLLTPEQLMAAPGIGGKRGQSI
HRQFQQARQQPFARWLLALGIPLSPQQTMALTNWHQVQQMSPVAWRQIVGIGAKRAQQIA
DFLQHQPVLALVSTLDSQGIVGFAGAP