Protein Info for GFF3660 in Variovorax sp. SCN45

Annotation: integral membrane sensor signal transduction histidine kinase

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 50 100 150 200 250 300 350 400 450 475 transmembrane" amino acids 50 to 70 (21 residues), see Phobius details amino acids 185 to 205 (21 residues), see Phobius details PF00672: HAMP" amino acids 205 to 254 (50 residues), 48.4 bits, see alignment 1.5e-16 PF00512: HisKA" amino acids 260 to 319 (60 residues), 40.6 bits, see alignment E=3.1e-14 PF02518: HATPase_c" amino acids 363 to 472 (110 residues), 77.6 bits, see alignment E=1.5e-25

Best Hits

KEGG orthology group: None (inferred from 82% identity to vpe:Varpa_5569)

Predicted SEED Role

"integral membrane sensor signal transduction histidine kinase"

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 (475 amino acids)

>GFF3660 integral membrane sensor signal transduction histidine kinase (Variovorax sp. SCN45)
MSFNRRFPREMRRRMECHDEEWRQEWHKQWHARWNEKVQGKRRWRRSLRVRLVLMFVVLA
MVMAAVFMGGMKRAFSTGWAEAARPLLIDYNDRLVAELGTPPDVARAQALVNRLPITIRI
VGPKVNWNSNPGNNDHSGGADHPGNWMHDHEDLFGGEKWFVRPTADGHQVIFGWSPKLWE
QAPRVIGWATLGVLLSCVLLAYAYVSRLLRPLIDIREGAQRFGRGEFSQPIPIRRNDDLG
DLAQRVNTMADDIQAMLDAKRGLLLALSHELRSPLTRARLNAELLPATPEGQAEREALLR
DLNEMRDLISDLLESERLASPHVALQREPVDLAALIRETVAEMPGAQQVHLDLADGLPPH
AVDRMRIRLLVRNLLDNALRYSNGAPRPPCVSLRAALDGKRQGVEIEVRDHGPGVDEAQL
DRLTEPFYRTDGARARATGGVGLGMYLCRLIAEAHGGELMVRNASPGLQIVVRLV