Protein Info for GFF4268 in Sphingobium sp. HT1-2

Annotation: IncF plasmid conjugative transfer DNA-nicking and unwinding protein TraI

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

1 100 200 300 400 500 600 700 800 900 1023 PF08751: TrwC" amino acids 11 to 280 (270 residues), 278.2 bits, see alignment E=1.9e-86 TIGR02686: conjugative relaxase domain" amino acids 13 to 284 (272 residues), 301 bits, see alignment E=5.3e-94 PF13604: AAA_30" amino acids 461 to 655 (195 residues), 131.8 bits, see alignment E=5.4e-42 PF13245: AAA_19" amino acids 474 to 603 (130 residues), 45.1 bits, see alignment E=2.3e-15

Best Hits

KEGG orthology group: None (inferred from 49% identity to nar:Saro_3983)

Predicted SEED Role

"IncW plasmid conjugative relaxase protein TrwC (TraI homolog)" in subsystem Type 4 secretion and conjugative transfer

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 (1023 amino acids)

>GFF4268 IncF plasmid conjugative transfer DNA-nicking and unwinding protein TraI (Sphingobium sp. HT1-2)
MLSVASVKSASGAANYFAKDDYYTAEHASEATAWGGEGAAALGLSGEVTKEDFEKILNGE
MPDGEKVGQVQNRQSGVDLTFSMPKSASVMAYVAGDARVLAAHMNAVRATMGWVEKTFAE
GRTYEHSRHGDAVRTGNLVYAMFQHDTSRALDPQGHIHVLVANMTKMANGAWQALHNGQL
WKNNTTIGAAYHAQFRAELAKIGYETSITGKHGQFEINGVPKAVIEAFSQRRTEIAAKAA
ELGITNPKAIDRITTNTRDAKLNVEDRDALRAEWRDRATALGFDGKALVDAARDRAGLDR
PDTRLGTMERVGAVIETIRETLGEMFRPGDPLVSRGIERLRLSPVEIRAQHAVASAIRIH
AQREAAFEVSAVARTALDLGLKGVTASHIDARVSELIRNEQLIPGKSDRIDDFVTHVTTP
EALATERGILAEIERGKGEGRVIVPADVVIDRINAASGDKQLNEGQMAAATMALISRDRI
VAVQGVSGAGKSTMLASVARNVEQEGGKVVGLALMKATADRLGAETGIESRTVSSFVHSY
ARHALAGKGAGYDGARDALAGTTIILDEASMVGSEQMKHLVGIANALGVDRFLMIGDRQQ
ITAVDAGKAFAIAQAGGITLARMDENLRQRTDQLRTVAALTNLGQVREAMAVLGDKVTAN
PEHVKAAAEHWLGLTPEQRETTAMFSSGRVARAELNVRIQDGLAAEGAIKGEGVAIGVLD
KINITREELRYAHSYKPGQVLDIPKAVRDLGLGPGTYDVIGVDHKGRVQVRIGSRVRSFD
PQRISPLDKSDAMQLAQREQIRLHEGDKIRWTKNDRDRGLNNNDIARVISADKAGIRVEA
SDGTIHDLKAGDPMMERISLAYALNMHAAQGITTDTAIAVMSHKESNLSNQRLFNVTVTR
VRDDIQLFTDDREKLTQAIERNEGNKTSALETVGELSVDPARGVAGAQPAATSNEPFNPS
LPPDLDRAPEKLGSNAEVANKDNSLGKIDIRTDPSLDLTKHRVIVEPKAPELPFPEKDIG
LEL