Protein Info for BPHYT_RS26300 in Burkholderia phytofirmans PsJN

Annotation: ATP-dependent DNA ligase

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 50 100 150 200 250 300 350 400 450 500 558 signal peptide" amino acids 1 to 16 (16 residues), see Phobius details PF04675: DNA_ligase_A_N" amino acids 2 to 161 (160 residues), 43.1 bits, see alignment E=8.4e-15 TIGR04120: DNA ligase, ATP-dependent, PP_1105 family" amino acids 2 to 552 (551 residues), 741.3 bits, see alignment E=4e-227 PF01068: DNA_ligase_A_M" amino acids 236 to 424 (189 residues), 105.6 bits, see alignment E=4.5e-34 PF04679: DNA_ligase_A_C" amino acids 445 to 538 (94 residues), 40.1 bits, see alignment E=6.3e-14

Best Hits

KEGG orthology group: K01971, DNA ligase (ATP) [EC: 6.5.1.1] (inferred from 100% identity to bpy:Bphyt_5292)

Predicted SEED Role

"ATP-dependent DNA ligase (EC 6.5.1.1) LigC" in subsystem DNA Repair Base Excision (EC 6.5.1.1)

Isozymes

Compare fitness of predicted isozymes for: 6.5.1.1

Use Curated BLAST to search for 6.5.1.1

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 B2TDE0 at UniProt or InterPro

Protein Sequence (558 amino acids)

>BPHYT_RS26300 ATP-dependent DNA ligase (Burkholderia phytofirmans PsJN)
MKRFAALYTALDATTSTHDKLEALTSYFAVAEPEDAAWASYFLAGGKPRQSVPTRLLTEI
ARERAGLPAWLFEESYHAVGDLAETIAHILPPAQRSSELGLTQWIEQRVLTLRGVSPEEL
RTRLLSYWDELDWGGRFLLTKLIGGGFRVGVARQLVVRALAEVAGVDHKRIAQRMVGWTD
SQQKPDAARYLRLIAPEATGDETQAGDHPHESDLGLPYPFFLAHPLQADPATLGDPSQWQ
IEWKWDGIRAQLVKRGGRVWLWSRGEDLITDRFPEVAALGEALPDGFVVDGEILAWERGD
MAPLPFARLQPRIARKTLTKKILADSPATLLAYDLLEARGQDLRMTPLVERRARLEALAV
SIEGTLAQDLLRVSPLVDAVDWQALAALRDESRARGVEGLMVKQRESMYGVGRTKASGTW
WKWKIDPYAIDAVLLYAQRGHGRRASLYTDFTFAVWDEANGVRTLVPFAKAYSGLTDEEM
RQVDAIVRKTTIEKFGPVRSVTPTLVFEIGFEGIQASPRHKSGVAVRFPRMLRWRTDKHI
DDADTLAMLKGFIDDRAG