Protein Info for GFF3350 in Variovorax sp. SCN45

Annotation: ABC transporter, permease protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) / ABC transporter, permease protein 2 (cluster 4, leucine/isoleucine/valine/benzoate)

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 50 100 150 200 250 300 350 400 450 500 550 609 transmembrane" amino acids 12 to 34 (23 residues), see Phobius details amino acids 36 to 37 (2 residues), see Phobius details amino acids 39 to 60 (22 residues), see Phobius details amino acids 63 to 84 (22 residues), see Phobius details amino acids 94 to 116 (23 residues), see Phobius details amino acids 136 to 161 (26 residues), see Phobius details amino acids 193 to 213 (21 residues), see Phobius details amino acids 228 to 252 (25 residues), see Phobius details amino acids 258 to 280 (23 residues), see Phobius details amino acids 313 to 335 (23 residues), see Phobius details amino acids 341 to 359 (19 residues), see Phobius details amino acids 365 to 381 (17 residues), see Phobius details amino acids 383 to 385 (3 residues), see Phobius details amino acids 389 to 409 (21 residues), see Phobius details amino acids 416 to 435 (20 residues), see Phobius details amino acids 463 to 483 (21 residues), see Phobius details amino acids 513 to 534 (22 residues), see Phobius details amino acids 547 to 574 (28 residues), see Phobius details amino acids 585 to 602 (18 residues), see Phobius details PF02653: BPD_transp_2" amino acids 10 to 278 (269 residues), 141.8 bits, see alignment E=1.2e-45 amino acids 334 to 597 (264 residues), 151.9 bits, see alignment E=9.9e-49

Best Hits

KEGG orthology group: K01997, branched-chain amino acid transport system permease protein K01998, branched-chain amino acid transport system permease protein (inferred from 72% identity to bcm:Bcenmc03_3936)

Predicted SEED Role

"High-affinity branched-chain amino acid transport system permease protein LivH (TC 3.A.1.4.1) / Branched-chain amino acid transport system permease protein LivM (TC 3.A.1.4.1)" in subsystem ABC transporter branched-chain amino acid (TC 3.A.1.4.1) (TC 3.A.1.4.1)

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 (609 amino acids)

>GFF3350 ABC transporter, permease protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) / ABC transporter, permease protein 2 (cluster 4, leucine/isoleucine/valine/benzoate) (Variovorax sp. SCN45)
MSFTSFFDYTVNGLIIGNIYALLAVGLALIFGVSHLINFAHGSVYTVGAYIGWASITYLH
TPLPVTIALVVLGSGALGMLIERVGLRPLQGAARIAPLLATIGISFVLDILVQLVFSPDP
RSLPTQLPDWRLRIGTGTIGALDILIAGIGIASAAVLFGFLRFTKLGWAVRATAQDRDAA
QQMGVDVDRVNQTVFAIAAALGGLSGLLVGMYYNNISPAMSFQATLKGVVATVVGGVGNV
PGAIVGSLLLGLIESYGVAILGTPYRNLFAFALLLVILVWKPNGLFGRKRALPPEPLTGT
FIAPSKPWRVPPRLLLALFAAAAALPLFDPSPYLLQTLTNAWLYGALALSLTLVAGTIGQ
ISLGHAGLLAIGAYASSLLVLDLHLPVGTGIVLAGILTSLIGTALIFPAFRLRGHYVSIA
TLGIGEIVALTILNWESLTHGPIGVSGIPPLSLFGRDASSNEAIYWASFGAMVLLALLQW
RLLRSHLGRTFRAVREDEVAARAYGVSPDRYKALAFGFGGFAAGVSGAFTAHMYSYINHE
TFGSQISILALTMVILGGLGNISGALLGAVALVSLPELFRVTAEYRMLIYGVALLLLIRF
RPQGLLGTV