Protein Info for GFF603 in Variovorax sp. SCN45

Annotation: Tricarballylate dehydrogenase, TcuA

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 50 100 150 200 250 300 350 400 450 475 TIGR02485: precorrin 3B synthase CobZ" amino acids 1 to 460 (460 residues), 693.2 bits, see alignment E=6.4e-213 PF01266: DAO" amino acids 3 to 119 (117 residues), 30 bits, see alignment E=1.2e-10 amino acids 128 to 184 (57 residues), 31 bits, see alignment 5.9e-11 PF00890: FAD_binding_2" amino acids 3 to 430 (428 residues), 103.4 bits, see alignment E=5e-33 PF07992: Pyr_redox_2" amino acids 3 to 183 (181 residues), 27.1 bits, see alignment E=8.6e-10 PF12831: FAD_oxidored" amino acids 3 to 174 (172 residues), 40.6 bits, see alignment E=6.3e-14 PF01593: Amino_oxidase" amino acids 122 to 181 (60 residues), 20.3 bits, see alignment E=8.9e-08

Best Hits

KEGG orthology group: K13796, tricarballylate dehydrogenase (inferred from 92% identity to vap:Vapar_3133)

MetaCyc: 79% identical to propane-1,2,3-tricarboxylate dehydrogenase (Salmonella enterica enterica serovar Typhimurium str. LT2)
1.3.8.M1 [EC: 1.3.8.M1]

Predicted SEED Role

"TcuA: flavoprotein used to oxidize tricarballylate to cis-aconitate" in subsystem Tricarballylate Utilization

Isozymes

No predicted isozymes

Use Curated BLAST to search for 1.3.8.M1

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 (475 amino acids)

>GFF603 Tricarballylate dehydrogenase, TcuA (Variovorax sp. SCN45)
VIDVLVVGGGNAALCAALMAREAGASVLLLEASSKAWRGGNSQHTRNLRCMHDAPQDVLV
EAYPEEEYWQDLLKVTGGLTDEHLARLVIRASSSCRDWMRGHGVHFQPPLSGALHVARTN
AFFMGGGKALVNAYYRSAEKLGVQIRYDTPVASVELDGGRFVAARTEAGERIAARSCVLA
AGGFESNREWLREAWGRNESGEWPADNFLIRGTRFNQGVLLKHMIDAGADSIGDPSQGHM
VAIDARAPLYDGGICTRIDCVSLGVVVNREATRFYDEGEDFWPKRYAIWGRLVAQQPGQI
AWSVIDQKAVGRFMPPVFPGTQAGTLGELARKIGLDESTFVRTVEDYNAACRVGRFDHTA
LDDCHTEGLAPAKTHWARPIDTAPFHAYPVRPGITFTYLGLKVDETAAVRFGGRPSPNLF
VAGEMMAGNVLGKGYTAGVGMSIGTAFGRIAGTQAAKAARASLRNNKEAALAAAH