Protein Info for GFF2998 in Variovorax sp. SCN45

Annotation: Virulence factor BrkB

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 50 100 150 200 250 300 350 403 transmembrane" amino acids 41 to 68 (28 residues), see Phobius details amino acids 103 to 124 (22 residues), see Phobius details amino acids 144 to 169 (26 residues), see Phobius details amino acids 182 to 204 (23 residues), see Phobius details amino acids 210 to 228 (19 residues), see Phobius details amino acids 232 to 252 (21 residues), see Phobius details amino acids 255 to 276 (22 residues), see Phobius details TIGR00765: YihY family inner membrane protein" amino acids 25 to 276 (252 residues), 194.8 bits, see alignment E=1.2e-61 PF03631: Virul_fac_BrkB" amino acids 32 to 276 (245 residues), 180.2 bits, see alignment E=3.1e-57

Best Hits

Swiss-Prot: 64% identical to Y3782_VEREI: UPF0761 membrane protein Veis_3782 (Veis_3782) from Verminephrobacter eiseniae (strain EF01-2)

KEGG orthology group: K07058, membrane protein (inferred from 94% identity to vpe:Varpa_1820)

Predicted SEED Role

"Ribonuclease BN (EC 3.1.-.-)" in subsystem LMPTP YfkJ cluster or tRNA processing (EC 3.1.-.-)

Isozymes

Compare fitness of predicted isozymes for: 3.1.-.-

Use Curated BLAST to search for 3.1.-.-

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 (403 amino acids)

>GFF2998 Virulence factor BrkB (Variovorax sp. SCN45)
MIAAMNRRQLWRDLSRFPWRNTAAVLGERFREDKLGLTASSLTFTTTIAMVPFFTVALAL
FTVFPMFAKMQGRLQRWLIESLIPDNIARQVLGYLNQFASKASGLGIAGLIVLLITAIAL
ILTIDKTLNNIWRVRSPRPFAQRVLIYWATITLGPLILAVSLSTTSYVFSASRDVVGGTM
VKLAFDSLEFMLLAAGMASLYHYVPNTNVRWAHAWAGGIFVAAAIEIAKRVLAYYLSLVP
TYSVLYGAFATFPILLVWIYVAWVIVLLGAVIAAYLPSLLTGVARRGGTAGWPLQLAMES
LQHLARARATPAKGMGAAELVARMRVDSLQLAPVLETLVALDWIAPLAEEPANEDPRYVL
LADPSTPIEPLLKELLMPRAEPLEDLWQKGPLRSLRLGDVLLI