Protein Info for GFF5853 in Variovorax sp. SCN45

Annotation: Type I secretion system ATPase, LssB family LapB

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 50 100 150 200 250 300 350 400 450 500 550 600 650 708 transmembrane" amino acids 164 to 186 (23 residues), see Phobius details amino acids 198 to 215 (18 residues), see Phobius details amino acids 270 to 293 (24 residues), see Phobius details amino acids 299 to 317 (19 residues), see Phobius details amino acids 385 to 407 (23 residues), see Phobius details amino acids 415 to 438 (24 residues), see Phobius details TIGR03375: type I secretion system ATPase" amino acids 12 to 705 (694 residues), 822.2 bits, see alignment E=1.8e-251 PF00664: ABC_membrane" amino acids 165 to 429 (265 residues), 115.5 bits, see alignment E=3.7e-37 PF00005: ABC_tran" amino acids 497 to 643 (147 residues), 96.7 bits, see alignment E=1.9e-31

Best Hits

KEGG orthology group: K06148, ATP-binding cassette, subfamily C, bacterial (inferred from 80% identity to vpe:Varpa_5038)

Predicted SEED Role

"Type I secretion system ATPase, LssB family LapB"

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 (708 amino acids)

>GFF5853 Type I secretion system ATPase, LssB family LapB (Variovorax sp. SCN45)
MNARELPRQYTSWLDAMVFVARHYGIGASEESARVTLAWERGAPLDTLLDHMARQLGLSL
RLDAFSDAQLDPWRLPLAVEFDDGEVGVVRTSDGKGRLGVLLGGDHGLETAVAADELRRR
VRRVAILRPQTSVPDARVDDYIRPYQANWFWSIALRDWRRYGDIVLASVFANVLALSSMV
FSMQIYDRVVPAQSESTLWVLFGGVMLAVAFEFLLRMSRTHISDVIGKRADLKVSDLVFG
HALRVRNDARSRSTGSFIAQVREVEQVRELLTSTTIGAVADLPFFLLFVVVLWMVAGPLA
WVALAAVPLLVIPGLLVQKPLARLANEGMRESALRNALLVEAVEGIEDIKLMRAEPRFQN
QWNHANDVAASVSMRQRFLTGLLMTWTQEVQGIVYAVVLLAGCFLVMKGEMTTGALVGSS
ILASRMISPLAQLSGVFARWQQAKVARTGLDQLMQRPVDQPEHARRVHVPALHGNYALTN
AEFRYGKDDKAPALSVAQLQVKAGEKVALLGRMGAGKSTLLQLMAGLHAPQRGHVSLDAL
DLRLIDPADLRRDMGLLTQNARLFHGSIRENVTLGMPMATDTQVLEAIAMAGALPFVHSR
AEGLDDLIHEGGLGLSGGQRQALLLARTLIRQPSIVLLDEPTAHFDEVTERQVIDAVGRW
LAPRTLVVATHRMPVLQWVDRIVVLEGGRIVMDGSKDQILGKLANGHA