Protein Info for SMc04450 in Sinorhizobium meliloti 1021

Annotation: transcription-repair coupling factor

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 1000 1100 1171 transmembrane" amino acids 669 to 685 (17 residues), see Phobius details PF17757: UvrB_inter" amino acids 137 to 221 (85 residues), 71.2 bits, see alignment 1.9e-23 TIGR00580: transcription-repair coupling factor" amino acids 152 to 1100 (949 residues), 1018 bits, see alignment E=0 PF02559: CarD_TRCF_RID" amino acids 503 to 558 (56 residues), 64.5 bits, see alignment 2.3e-21 PF00270: DEAD" amino acids 629 to 789 (161 residues), 81.4 bits, see alignment E=1.9e-26 PF04851: ResIII" amino acids 650 to 783 (134 residues), 29.3 bits, see alignment E=2.3e-10 PF00271: Helicase_C" amino acids 827 to 931 (105 residues), 69 bits, see alignment E=1.3e-22 PF03461: TRCF" amino acids 1030 to 1120 (91 residues), 88.5 bits, see alignment 9.2e-29

Best Hits

KEGG orthology group: K03723, transcription-repair coupling factor (superfamily II helicase) [EC: 3.6.4.-] (inferred from 83% identity to ara:Arad_2364)

Predicted SEED Role

"Transcription-repair coupling factor" in subsystem DNA-replication or Transcription factors bacterial

Isozymes

Compare fitness of predicted isozymes for: 3.6.4.-

Use Curated BLAST to search for 3.6.4.-

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

See Q92PS9 at UniProt or InterPro

Protein Sequence (1171 amino acids)

>SMc04450 transcription-repair coupling factor (Sinorhizobium meliloti 1021)
MTMIPGFDPRKILAATREITIGPVPTGAEALVLAELARAGAPVAYILSDGQKVADLEQVL
GFVAPDIPVLTLPGWDCLPYDRVSPSADTSARRLAALSALIAHRRKPHPAIVLVTINAAL
QRISPQDVIESLAFTARPGNQIRMDDLAARLERNGFERVPTVREMGEFAVRGGILDVYVP
GSGEPLRLDFFGDTLEAIRSFDPASQRTIGQVRSLDLNPMSEVSLTPETISHFRKQYLSL
FGAATRDDALYQAVSEGRRYAGMEHWLPLFYDRLETVFDYLDGFRIVTDHLAREAAAERS
KLVLDYYDARLASASPGKSQVTQGTPYKPVPPDMLYLTAKGFGEALNDLNAVRLSPFTEH
EGEARQVVNIEARQGLRWAKPAGEADNDGTRTNVFDQAVKHIAEKRAKGAKVIVSGWTEG
SLDRLLQVLAEHGLANIRPVKALSDIGSLKPGEAASAVLSLEAGFETGDLVVIGEQDILG
DRLVRRSKRRKRGADFIAEVTGLDEGSYVVHAEHGIGRFVGLRTIEAAGAPHDCLELVYA
DDAKLFLPVENIELLSRYGSEGTDAVLDKLGGVAWQARKAKLKKRLLDMAGGLIRIAAER
HTRHAPVLAAQDGVYDEFAARFPYDETEDQLNSIDAVRDDLGRGRPMDRLVCGDVGFGKT
EVALRAAFIAAMNGVQVAVVVPTTLLARQHFKTFSDRFRGLPIRIQQASRLVGSKDLALT
KKEVAEGKTDIVVGTHALLGSSIKFANLGLLIIDEEQHFGVKHKERLKELKTDVHVLTLS
ATPIPRTLQLALTGVRELSLITTPPVDRMAVRTFISPFDALVIRETLMREHYRGGQSFYV
CPRVSDLPEIHDFLKSDVPELKVAVAHGQMPATELEDIMNAFYEGRYDVLLSTTIVESGL
DVPTANTLIVHRADMFGLAQLYQLRGRVGRSKVRAFALFTLPVNKTLTGPAERRLKVLQS
LDTLGAGFQLASHDLDIRGAGNLLGEEQSGHIKEVGFELYQQMLEEAVAELKGEEEIHDT
GWSPQISVGTPVMIPEEYVPDLNLRLGLYRRLGELTDLKEIDGFGAELIDRFGPLPTEVQ
HLLKIVYVKSLCRTANVEKLDAGPKGVVVQFRNKEFPNPAALVGYIAKQGTVAKIRPDQS
IFFQRELATPEKRLSGAAMVMTQLAALAKAG