Protein Info for Sama_1175 in Shewanella amazonensis SB2B

Annotation: choline/carnitine/betaine transport (RefSeq)

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 50 100 150 200 250 300 350 400 450 500 550 600 658 signal peptide" amino acids 1 to 29 (29 residues), see Phobius details transmembrane" amino acids 49 to 69 (21 residues), see Phobius details amino acids 90 to 109 (20 residues), see Phobius details amino acids 138 to 160 (23 residues), see Phobius details amino acids 188 to 209 (22 residues), see Phobius details amino acids 229 to 249 (21 residues), see Phobius details amino acids 261 to 284 (24 residues), see Phobius details amino acids 317 to 335 (19 residues), see Phobius details amino acids 346 to 366 (21 residues), see Phobius details amino acids 395 to 420 (26 residues), see Phobius details amino acids 446 to 465 (20 residues), see Phobius details amino acids 471 to 491 (21 residues), see Phobius details PF02028: BCCT" amino acids 11 to 496 (486 residues), 656.9 bits, see alignment E=8.2e-202 TIGR00842: transporter, betaine/carnitine/choline transporter (BCCT) family" amino acids 49 to 497 (449 residues), 535.3 bits, see alignment E=5.8e-165

Best Hits

Swiss-Prot: 52% identical to GBTR_ACIAD: Glycine betaine transporter (ACIAD3460) from Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)

KEGG orthology group: K02168, high-affinity choline transport protein (inferred from 100% identity to saz:Sama_1175)

Predicted SEED Role

"High-affinity choline uptake protein BetT" in subsystem Choline and Betaine Uptake and Betaine Biosynthesis

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 A1S4S6 at UniProt or InterPro

Protein Sequence (658 amino acids)

>Sama_1175 choline/carnitine/betaine transport (RefSeq) (Shewanella amazonensis SB2B)
MALKYSINRPVFFGSLFLITLLVALGAIWPQQAQQWFGAVQHWLEVKAGWLYVLGVAVFL
VFIVFVMVSRFGDIKLGPDHAEPDYSYKSWIAMLFSAGMGIGLMFFGVAEPVMHLIAPPD
ATPESIEAARQAMKITFFHWGIHAWAIYAVVALSLAYFAYRHKLPLLPRSALYPLIGERI
HGPIGHAVDAFAVLGTMFGVATSLGFGVLQVNAGLNFLFGDQFPVSTPLQVGLIAVITLI
ATVSVFSGLDKGVKRLSELNLLLAVVLMLVVLLVGPTVALLQAIVQNTGAYFSDIVGKTF
NLYAYQQKNDWLGGWTLLYWGWWISWSPFVGTFIARVSRGRTIREFLLGVLFVPSGFTFL
WMTVFGNSAIDQILHQGNTVLADAVSSDVSVALFVFFQQLPLTSLLSAVALCLVVTFFVT
SSDSGSLVIDNLTSGGDMSSPVWQRVFWALMQGVVASVLLLAGGLQALQTAAIASAMPFL
LVMLLICLGLFKALQDDWLKLSSVQLHHTSVQYASANVEWRERLKVLVNQPSAKDARAFI
RGPARQALKQVASAFVNEGIDARVVQQEDRVRLLIASDNHPDFVYGLRLRQYSKVPVHGV
EETDDDFYRVEVFLEHGGQHYDVLGYTVEQLQADAVTQYEKYLHYLHLSVSEAVNPDS