Protein Info for GFF3878 in Variovorax sp. SCN45

Annotation: Lysyl-tRNA synthetase (class II) (EC 6.1.1.6)

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 50 100 150 200 250 300 350 400 450 515 TIGR00499: lysine--tRNA ligase" amino acids 17 to 513 (497 residues), 651.8 bits, see alignment E=3.2e-200 PF01336: tRNA_anti-codon" amino acids 74 to 151 (78 residues), 62.3 bits, see alignment E=5e-21 PF00152: tRNA-synt_2" amino acids 168 to 510 (343 residues), 314.6 bits, see alignment E=9.5e-98

Best Hits

Swiss-Prot: 92% identical to SYK_VARPS: Lysine--tRNA ligase (lysS) from Variovorax paradoxus (strain S110)

KEGG orthology group: K04567, lysyl-tRNA synthetase, class II [EC: 6.1.1.6] (inferred from 92% identity to vpe:Varpa_1555)

Predicted SEED Role

"Lysyl-tRNA synthetase (class II) (EC 6.1.1.6)" (EC 6.1.1.6)

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

No predicted isozymes

Use Curated BLAST to search for 6.1.1.6

Sequence Analysis Tools

PaperBLAST (search for papers about homologs of this protein)

Search CDD (the Conserved Domains Database, which includes COG and superfam)

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 (515 amino acids)

>GFF3878 Lysyl-tRNA synthetase (class II) (EC 6.1.1.6) (Variovorax sp. SCN45)
MSDQKTPTPPTPAVDENQLIAERREKLKLLRTAQVEGKGVAFPNDFKPGHRAAALVEAHG
ATEAEALEAQAVAVSVAGRMMLKRVMGKASFATLQDATSRIQLYVTRDAVGEEAYAEFKR
WDLGDIVGAEGTLMKTKTGELSIKVTQLRLLTKSLRPLPDKFHGMADQEQKYRQRYVDLI
TDESARVRFTARSKAVSALREFMVANDFLEVETPMLHPIPGGANAKPFKTHHNALDQEMF
LRIAPELYLKRLIVGGFERVFEINRSYRNEGISVRHNPEFTMMEFYAAYWNYRDLMDFTE
TLIRTIADKAVGTQQLTYGGKPVDLTQPFERLTIREAILKYTDAEGVAQGVDDTAWLIAA
LRKIGLSEEKDKLSQRSLASLQVMYFEETVEEKLWQPTFIMEHPTEISPLARANDERPEV
TERFELYITGREFGNGFSELNDAEDQAARFNAQVAAKDGGDDEAMYYDHDFVRALEYGMP
PTGGCGIGIDRLMMLLTDSPSIRDVILFPALRRES