Protein Info for GFF1397 in Variovorax sp. SCN45

Annotation: TRAP-type C4-dicarboxylate transport system, large permease component

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 50 100 150 200 250 300 350 400 450 500 550 600 632 transmembrane" amino acids 39 to 61 (23 residues), see Phobius details amino acids 73 to 91 (19 residues), see Phobius details amino acids 111 to 132 (22 residues), see Phobius details amino acids 150 to 172 (23 residues), see Phobius details amino acids 178 to 199 (22 residues), see Phobius details amino acids 208 to 239 (32 residues), see Phobius details amino acids 258 to 277 (20 residues), see Phobius details amino acids 295 to 326 (32 residues), see Phobius details amino acids 342 to 367 (26 residues), see Phobius details amino acids 372 to 397 (26 residues), see Phobius details amino acids 413 to 432 (20 residues), see Phobius details amino acids 438 to 438 (1 residues), see Phobius details amino acids 440 to 460 (21 residues), see Phobius details amino acids 472 to 499 (28 residues), see Phobius details amino acids 516 to 550 (35 residues), see Phobius details amino acids 564 to 591 (28 residues), see Phobius details amino acids 603 to 626 (24 residues), see Phobius details PF04290: DctQ" amino acids 49 to 173 (125 residues), 99.5 bits, see alignment E=1.5e-32 PF06808: DctM" amino acids 214 to 621 (408 residues), 331.2 bits, see alignment E=8.9e-103 TIGR00786: TRAP transporter, DctM subunit" amino acids 222 to 627 (406 residues), 307.3 bits, see alignment E=7.3e-96

Best Hits

KEGG orthology group: None (inferred from 72% identity to bph:Bphy_6993)

Predicted SEED Role

"TRAP-type C4-dicarboxylate transport system, large permease component"

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 (632 amino acids)

>GFF1397 TRAP-type C4-dicarboxylate transport system, large permease component (Variovorax sp. SCN45)
MSSISLPMQPVHPVQPALGFDATHAAGRWLAWLMRMTEYVAGAVLAVDVVVVFVSVVFRY
FLHDPFDWAEEVARALMVIQVFFGAATVLARSQHVGVDLFRGMLPARWQPALIQFGNWIV
VGVSASLFASSCELLLDSYNMTTSIGLPQWIYVYPVAIGSLFMTLFGLANAVNGPSRMVW
STLGIGIALTAAVVAWNTLMSAHAIAPWALLAAGFFGGMALGMPIAFVLALSSLVFFMAD
PSLPMLVYSQQVMAGTDHYVLLAIPFFVLAGLLMEANGMSSRLIELLLRMFGRLRGGLGL
ITITATAFFSGVSGSKLADIAAVGGIIMPAVRKTKQDPNETAGLLACTAVMAETIPPCIN
MIIMGFVANISIAGLFMAGLVPAVVLAVSLAAVTIYVGTKINPDEAFDVRTPMFRLLGGA
LVALVMVAMIGKGVTSGVATSTEVSSFAVIYALVVGWLAFRELTVKSVARLFVRSASMAG
GILFIVAAASSLSFALTIQQIPQYLSEFMIGFAHSYGSTMFVMLSVLIMIVFGAILEGAP
ALIIFGPLLTPIASQLGVNPLHFGTVMVIAMGFGLFAPPVGLGLFATCAITGTQVKDVAR
PMLKYLAVLFVTLVVLVLVPAFSTWLPMRMGM