Protein Info for GFF1859 in Variovorax sp. SCN45

Annotation: ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines)

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 50 100 150 223 transmembrane" amino acids 18 to 44 (27 residues), see Phobius details amino acids 54 to 77 (24 residues), see Phobius details amino acids 83 to 104 (22 residues), see Phobius details amino acids 138 to 157 (20 residues), see Phobius details amino acids 189 to 209 (21 residues), see Phobius details TIGR03003: ectoine/hydroxyectoine ABC transporter, permease protein EhuD" amino acids 10 to 216 (207 residues), 208.9 bits, see alignment E=8.5e-66 TIGR01726: amino ABC transporter, permease protein, 3-TM region, His/Glu/Gln/Arg/opine family" amino acids 14 to 111 (98 residues), 103 bits, see alignment E=1e-33 PF00528: BPD_transp_1" amino acids 37 to 216 (180 residues), 74.1 bits, see alignment E=6.1e-25

Best Hits

Swiss-Prot: 44% identical to YECS_ECOL6: L-cystine transport system permease protein YecS (yecS) from Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

KEGG orthology group: K02029, polar amino acid transport system permease protein (inferred from 87% identity to rso:RSc3409)

MetaCyc: 44% identical to cystine ABC transporter membrane subunit (Escherichia coli K-12 substr. MG1655)
TRANS-RXN-290 [EC: 7.4.2.12]; 7.4.2.12 [EC: 7.4.2.12]; 7.4.2.- [EC: 7.4.2.12]; 7.4.2.- [EC: 7.4.2.12]; 7.4.2.- [EC: 7.4.2.12]; 7.4.2.- [EC: 7.4.2.12]

Predicted SEED Role

"ABC-type amino acid transport system, permease component"

Isozymes

No predicted isozymes

Use Curated BLAST to search for 7.4.2.12

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 (223 amino acids)

>GFF1859 ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines) (Variovorax sp. SCN45)
MAAATFFQNAQDFLPILLQGAVVTVQVTVLAFLLSSALGLALALMKLSPVRALSWAGSVI
VNVIRGLPIIVQLFYIYFVLPEFGVQLTAFQAGVIGLGIAYSAYQAENFRAGIEAVDPGQ
REAAQAMGMRSALIMRRVILPQAFRIALPPYGNTLVMMLKDSSLVSTITVAEMTRAGQLI
ASSTFQNMTVYTLVALLYLLMSLPLVYGLRRLEKRFAAGRKQP