Protein Info for GFF231 in Variovorax sp. SCN45

Annotation: DNA ligase (ATP) (EC 6.5.1.1)

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 50 100 150 200 250 280 signal peptide" amino acids 1 to 23 (23 residues), see Phobius details PF01068: DNA_ligase_A_M" amino acids 104 to 199 (96 residues), 31.8 bits, see alignment E=1.2e-11 PF14743: DNA_ligase_OB_2" amino acids 221 to 277 (57 residues), 78 bits, see alignment E=4.5e-26

Best Hits

Swiss-Prot: 36% identical to DNLI_HAEIN: DNA ligase (ligA) from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

KEGG orthology group: K01971, DNA ligase (ATP) [EC: 6.5.1.1] (inferred from 78% identity to vpe:Varpa_2840)

Predicted SEED Role

"DNA ligase (ATP) (EC 6.5.1.1)" (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

Find the best match in UniProt

Protein Sequence (280 amino acids)

>GFF231 DNA ligase (ATP) (EC 6.5.1.1) (Variovorax sp. SCN45)
MLTRRSLLLAGFGWAVAHAAAARDGAPSLMLADVYRPGMSLEDQWVSEKYDGVRGYWDGK
QLWTRGGERIAAPAWFTAPLPRQPMDGELWVGRGRFARTVSTVRSKTPNDIAWREMHFMV
FDLPTQGGDFTTRLSKLRKLLPITDAPWVVAVPQERATTHAELQALLDKTVKMGGEGLML
HRGASLYRGERNSDLLKFKPYDDAEARVVEHIMTKSRRGPRLAALLVETPEGQRFKLGTG
LTDAERENPPPIGSWVTYRFDGTTANGLPKLARFARVHEG