Protein Info for GFF3596 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 50 100 150 200 250 300 350 400 450 500 550 600 628 signal peptide" amino acids 1 to 26 (26 residues), see Phobius details transmembrane" amino acids 35 to 68 (34 residues), see Phobius details amino acids 88 to 106 (19 residues), see Phobius details amino acids 128 to 159 (32 residues), see Phobius details amino acids 171 to 196 (26 residues), see Phobius details amino acids 208 to 232 (25 residues), see Phobius details amino acids 282 to 304 (23 residues), see Phobius details amino acids 383 to 402 (20 residues), see Phobius details amino acids 413 to 435 (23 residues), see Phobius details amino acids 441 to 458 (18 residues), see Phobius details amino acids 477 to 500 (24 residues), see Phobius details amino acids 517 to 544 (28 residues), see Phobius details amino acids 555 to 581 (27 residues), see Phobius details amino acids 593 to 615 (23 residues), see Phobius details PF06808: DctM" amino acids 42 to 237 (196 residues), 103.9 bits, see alignment E=4.8e-34 amino acids 416 to 618 (203 residues), 128.9 bits, see alignment E=1.2e-41

Best Hits

KEGG orthology group: None (inferred from 84% identity to vpe:Varpa_5634)

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 (628 amino acids)

>GFF3596 TRAP-type C4-dicarboxylate transport system, large permease component (Variovorax sp. SCN45)
MIRRELWFGLSFMALIVIGAGAVLANAPTITNGHLGLLMLSLVVVAIMLGFPTAFTLMGM
GMIFTWLAYDRDWNRTLDLMVQSAFKTMANDVLIAVPLFVFMGYLVERANLIESLFKSLH
LALARLPGALAVATLVTCTIFATATGIVGAVVTLMGLLALPAMLRAGYSVPLAAGSITAG
GCLGILLPPSVLLIVYGATAGVSVVQLYAGAFFPGLMLSSLYVLYVIIVAWLKPQWAPPL
SQAERVVPLPPLSQRLADSPAAHALVGLLKGRRNAGVPFSHVLRQLGIVAMPGVIFLLLA
AFSYKAVTTVEAQARYDIEEIGAVRSAPSEGGLQEPPSEGGLQEPPGGEQAPAPVASPAP
LAEPAQATADTPEAATERPAPTWWWVSFAIFGALVTLFYLFLSFARLEIFKMLLASFFPL
MLLIFSVLGSIVLGLATPTEAAAMGALGGMLLAAAYRRLNLAVLKESVFLTAKTSAMVCW
LFVGSAIFSAAFALLGGQALVEEWVLGMNLTKVEFLILSQVIIFLLGWPLEWTEIIVIFM
PIFIPLLDNFGVDPLFFGLLVALNLQTAFLSPPVAMAAFYLKGVSPPHVTLNQIFLGMLP
FMGIQVLAIVLLYMWPQIGLWLPQLLYK