Protein Info for Xcc-8004.2247.1 in Xanthomonas campestris pv. campestris strain 8004

Annotation: ATP-dependent DNA ligase (EC 6.5.1.1) clustered with Ku protein, LigD

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 50 100 150 200 250 300 350 400 450 500 550 600 650 700 750 800 849 TIGR02777: DNA ligase D, 3'-phosphoesterase domain" amino acids 3 to 158 (156 residues), 236.8 bits, see alignment E=1.8e-74 PF13298: LigD_N" amino acids 35 to 140 (106 residues), 136.1 bits, see alignment E=1e-43 TIGR02779: DNA ligase D, ligase domain" amino acids 229 to 526 (298 residues), 267.3 bits, see alignment E=3.3e-83 TIGR02776: DNA ligase D" amino acids 238 to 836 (599 residues), 569.9 bits, see alignment E=1.6e-174 PF01068: DNA_ligase_A_M" amino acids 241 to 409 (169 residues), 85.7 bits, see alignment E=7.5e-28 PF04679: DNA_ligase_A_C" amino acids 428 to 522 (95 residues), 63.7 bits, see alignment E=3.6e-21 TIGR02778: DNA ligase D, polymerase domain" amino acids 565 to 807 (243 residues), 300.5 bits, see alignment E=2e-93 PF21686: LigD_Prim-Pol" amino acids 579 to 832 (254 residues), 296.5 bits, see alignment E=3.7e-92

Best Hits

KEGG orthology group: K01971, DNA ligase (ATP) [EC: 6.5.1.1] (inferred from 100% identity to xca:xccb100_1871)

Predicted SEED Role

"ATP-dependent DNA ligase (EC 6.5.1.1) clustered with Ku protein, LigD" 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)

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 A0A0H2X6P6 at UniProt or InterPro

Protein Sequence (849 amino acids)

>Xcc-8004.2247.1 ATP-dependent DNA ligase (EC 6.5.1.1) clustered with Ku protein, LigD (Xanthomonas campestris pv. campestris strain 8004)
MSLSEYRRKRSFDKTREPEPGKLLPQGQRAIFVVQLHHASRRHYDFRLQVGDALKSWAVP
KGPSYDPAVKRMAVEVEDHPVDYASFEGEIPKGEYGGGHVAQFDHGVWATAGDPEAQLAK
GHLRFELFGSKLKGGWHLVRSSKPARQPQWLLFKEDDAYAGTLEADDLLADVAAAPAEDV
RRAGAGKAQRKALTTVPVPRARARNAWTNAALKLTHARRGDIDDAAFAPQLAKLGQAPPE
GAQWVHEIKWDGYRILATVTDGQVRLWSRNALEWTDKIPDIRDAIQALNLRSARLDGELI
AGRGTKEDFNLLQATLSGERQVPLALAVFDLLHIDGVEISEAPLRERKQLLQQILANAPA
GHLAYSSHVEGDGLEAFRVAGEQHFEGIISKRADRPYRGGRSDDWRKTKQLASQEYAVVG
YTAPKGSRTGFGSLLLATPDPQHGWLYVGRVGSGFSDTLMQEVTQHLHGGGKRPTAHIPT
EDTDLRGATWFAPRFVVEVFYRGIGGQQLLRQASLKAVRLDKDIADLADSDMGDVSPAQA
DVADTPARGRKRANKQAPAQGEPTLSSPTKLIYPDIRATKGDVWDYYHAVMDHLLPEIVG
RPLSIIRCPNGAEKPCFFQKHHTAGLERVSSVRLKEETGSNAYYLVVEDAPGLLELVQFN
ALEFHPWGSHAARPDMADRVVFDLDPGPDVPFAEVKRAATDIRKLLAQLELESFLRVSGG
KGLHVVVPLNPGCDWELTKRFAKGFADALAQSEPDRFVATATKRFRNKRIFVDYLRNGRG
ATAVASYSLRGRPGAPVALPLPWSDLAKLHRANAFTLRDVPDKLRRRRKDPWADIAQIQQ
NLARWADQG