Protein Info for Rru_A1316 in Rhodospirillum rubrum S1H

Annotation: AMP-dependent synthetase and ligase (NCBI)

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 50 100 150 200 250 300 350 400 450 500 546 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details PF00501: AMP-binding" amino acids 18 to 401 (384 residues), 250.3 bits, see alignment E=2.9e-78 PF13193: AMP-binding_C" amino acids 451 to 525 (75 residues), 58.8 bits, see alignment E=8.4e-20

Best Hits

Swiss-Prot: 52% identical to ALKK_PSEOL: Medium-chain-fatty-acid--CoA ligase (alkK) from Pseudomonas oleovorans

KEGG orthology group: K00666, fatty-acyl-CoA synthase [EC: 6.2.1.-] (inferred from 100% identity to rru:Rru_A1316)

MetaCyc: 52% identical to medium-chain acyl-CoA synthetase (Pseudomonas oleovorans)
Butyrate--CoA ligase. [EC: 6.2.1.2, 6.2.1.3]

Predicted SEED Role

"3-methylmercaptopropionyl-CoA ligase (DmdB)"

MetaCyc Pathways

KEGG Metabolic Maps

Isozymes

Compare fitness of predicted isozymes for: 6.2.1.-, 6.2.1.3

Use Curated BLAST to search for 6.2.1.- or 6.2.1.2 or 6.2.1.3

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 Q2RUS8 at UniProt or InterPro

Protein Sequence (546 amino acids)

>Rru_A1316 AMP-dependent synthetase and ligase (NCBI) (Rhodospirillum rubrum S1H)
MISATMMTTPLLLSGVIEHAARCHGETEVVSRRDDGTLHRQTYADTASRARRLARALIEL
GAAPGDAIGTLAWNGNRHLELYYGVPGAGMVCHTINPRLFAEQIAFIIKDAGDRFLFVDP
GFLGLLAGILPDLPALEAVVVMDDHAPAAELAGVRLLAYEEVLAAQTDDAFDWPSFDENA
AAGICYTSGTTGNPKGVVYSHRSTILHALSAVQPDVFALSARDTVMPVVPMFHVNAWGMP
HAAPMVGAKLVLPGGRLDGASLIELIRGEQVTATAGVPTVWQGLLGHVEAKGGGLAPLDR
VVIGGAACPQSMMSRFAALGTRAIHAWGMTETSPLCVASVLTARHRDLGEDEALRLRLKQ
GRPAFGAELRIVDHAGRALPWDGVTRGMLEVRGPWICAGYLNNPDRTAFSADGWFATGDV
ATITTDGFMDIVDRTKDVIKSGGEWISSIALENIAIGHPAVREVAAIARPDARWGERPRL
IVALREGATLTPGEMAAWFEGKVAKWWIPDDLVIVETLPHTATGKLQKRELRQVYGAERL
ESAQAL