Protein Info for GFF6581 in Variovorax sp. SCN45

Annotation: Coupling protein VirD4, ATPase required for T-DNA transfer

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 50 100 150 200 250 300 350 400 450 500 550 600 669 transmembrane" amino acids 7 to 26 (20 residues), see Phobius details amino acids 73 to 95 (23 residues), see Phobius details PF02534: T4SS-DNA_transf" amino acids 112 to 562 (451 residues), 340.8 bits, see alignment E=2.2e-105 PF10412: TrwB_AAD_bind" amino acids 173 to 543 (371 residues), 98.5 bits, see alignment E=6e-32 PF12696: TraG-D_C" amino acids 408 to 528 (121 residues), 99.4 bits, see alignment E=2.3e-32

Best Hits

KEGG orthology group: K03205, type IV secretion system protein VirD4 (inferred from 94% identity to dac:Daci_2701)

Predicted SEED Role

"Type IV secretion system protein VirD4" in subsystem Type 4 secretion and conjugative transfer or pVir Plasmid of Campylobacter

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 (669 amino acids)

>GFF6581 Coupling protein VirD4, ATPase required for T-DNA transfer (Variovorax sp. SCN45)
MQGTNVLFGQIAVVLGIVIAGVWGATQWTAGALGYQLRLGSPWFDFAGTPVYHPWRLFEW
WFFFDAYAPRVFDIGGAIAGGSGLVAVLVAIGMSIWRSRQSKLVTTYGTARWATADDIRK
AGLALSAGVFLGQHDRQYLRHEGPEHVLTFAPTRSGKGVGLVVPTLLSWPASAVIHDIKG
ENWSITAGWRSRFSHCLLFNPTDAKSAAYNPLLEVRRGAHEVRDVQNIADILVDPEGALE
RRNHWEKTSHALLVGAILHVLYAGEDKTLRGVANFLSDPACPFELTLHRMMTTPHLVSEE
GGGPHPVVASAAREVLNKSENERSGVLSTAMSFLGLYRDPTVAEVTSRCDWRIADLISAQ
VPVSLYLVVPPSDISRTKPLIRLILNQVGRRLTESLDGSDGIARRHKLLLMLDEFPALGR
LDFFETALAFMAGYGIRSFLIAQSLNQIDKAYGQNHSILDNCHVRVTFATNDERTAKRIS
ETLGTATELRAQRNYAGHRLAPWLGHLMVSRQETARPLLTPGEVMQLPPDEAVVMVSSVA
PIKAKKLRYYADSNFKRRVLPPPVLADGRYADVPPVRSDDWSGLAIPSVPPAPAIEAIDG
LGSADDGGPRRQPELSETVAYDPDLTAPAADLGLLDDDDLPLPLPRQLDPALQRTARLAS
LDPDDGIQL