Protein Info for GFF558 in Xanthobacter sp. DMC5

Annotation: Serine--tRNA 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

Best Hits

Predicted SEED Role

"Seryl-tRNA synthetase (EC 6.1.1.11)" in subsystem Glycine and Serine Utilization (EC 6.1.1.11)

MetaCyc Pathways

tRNA charging (19/21 steps found)
L-selenocysteine biosynthesis I (bacteria) (3/3 steps found)
L-selenocysteine biosynthesis II (archaea and eukaryotes) (2/4 steps found)
superpathway of chorismate metabolism (41/59 steps found)
shinorine biosynthesis (3/8 steps found)
vanchrobactin biosynthesis (2/8 steps found)
enterobactin biosynthesis (4/11 steps found)
colibactin biosynthesis (6/38 steps found)

KEGG Metabolic Maps

Aminoacyl-tRNA biosynthesis

Isozymes

No predicted isozymes

Use Curated BLAST to search for 6.1.1.11

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 (494 amino acids)

>GFF558 Serine--tRNA ligase (Xanthobacter sp. DMC5)
MHDIKWIRDEPAGLIDALARRGNRSDEAKAAAEALVAKLLDLDTRRRETLTKLETLLARR
NAASKEIGQAKAKKDEATASALMAEVAKLKEDVPALEAEAKRIEVELNGELAAIPNAPLA
EVPEGADEHDNVEKSRFGAPRTYSFTPKQHFEVGEGLGQMDFETAAKLSGARFVVNKGPL
ARLERALGQFFLDVHTGEHGYMEVNPPILVRDEAMFGTAQLPKFKDDQFSAISQEIIALN
EYDVVIDEPGKPSIVFNGSRAPELLKKWRGQVLIESSNASINEQIRPIIDNRFWLIPTAE
VPLTNLVRESILSEEELPMRLTACTPCFRAEAGAAGRDTRGMIRQHQFTKVELVSITTPE
KSAEEHERMLACAEAVLKKLDLAYRVVTLCTGDMGFASQKTYDIEVWLPGQNAYREISSC
SVCGDFQARRMNARYRPAEGKGPRYVHTLNGSGVAVGRALVAVLETYQQENGSVAVPDAL
LPYMGGLKMVEKLK