Protein Info for Atu1778 in Agrobacterium fabrum C58

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 1165 transmembrane" amino acids 661 to 682 (22 residues), see Phobius details amino acids 726 to 748 (23 residues), see Phobius details PF17757: UvrB_inter" amino acids 135 to 219 (85 residues), 75.3 bits, see alignment 9.9e-25 TIGR00580: transcription-repair coupling factor" amino acids 150 to 1095 (946 residues), 1027.6 bits, see alignment E=0 PF02559: CarD_TRCF_RID" amino acids 499 to 553 (55 residues), 61.5 bits, see alignment 1.9e-20 PF00270: DEAD" amino acids 622 to 784 (163 residues), 82.2 bits, see alignment E=1.2e-26 PF04851: ResIII" amino acids 623 to 778 (156 residues), 31.6 bits, see alignment E=4.4e-11 PF00271: Helicase_C" amino acids 822 to 926 (105 residues), 65.4 bits, see alignment E=1.7e-21 PF03461: TRCF" amino acids 1025 to 1115 (91 residues), 92.4 bits, see alignment 5.5e-30

Best Hits

KEGG orthology group: K03723, transcription-repair coupling factor (superfamily II helicase) [EC: 3.6.4.-] (inferred from 100% identity to atu:Atu1778)

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)

Search 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 A9CIN2 at UniProt or InterPro

Protein Sequence (1165 amino acids)

>Atu1778 transcription-repair coupling factor (Agrobacterium fabrum C58)
MIAGFDAKLVASADTPLTIGNVPSGMEALLLADMARAGTSVAYVMSDGQRVADLEQILGF
VAPDIPVLTLPAWDCLPYDRVSPSADTSARRLAALAGLINHAKKPHPAVVLVTVNAMLQK
MAPRDVIESLGFSARPGNQIRMEDIAARLERNGFDRVATVREVGEFAVRGGILDVFVPGT
EEPVRLDFFGDTLESIRTFDPASQRTIAQARSLDLNPMSEVTLTPDTIGRFRKNYLSLFG
AATRDDALYQAVSEGRRYAGMEHWLPLFYEQLETAFDYLKGFRIVTDHTAKEAAKERSKL
VLDYYEARRASGETKGSTQGAPYKPVSPGQIYLDGKSFEAALASVNAVRLTPFNEHDSEG
RPVATLDAHVGPRWARPPTEGDSEERVNVFDLAVKHIAERRAKGWKVLITGWSEGSLDRL
LQVLNEHGLEKIKPVTSLKEVKKLGKGEAACAVLSLEAGFETGTLAVIGEQDILGDRMVR
RSKRRKRGADFIAEVAGLDEGSLVVHAEHGIGRFVGLQTIEAAGAPRACLELHYADDAKL
FLPVENIDLLSRYGSDAAEATLDKLGGGAWQMRKAKLKKRLLDMADELIRIAAARLVRHA
PALIAPDGLYDEFAARFPYDETEDQLNAIEAVRDDLGAGRPMDRLICGDVGFGKTEVALR
AAFLAAMNGVQVAVVVPTTLLARQHFRTFSERFRGLPIRVQQASRLVGSKELALTKKEVA
EGKTDIVVGTHALLGAGISFANLGLLIIDEEQHFGVKHKERLKELKSDVHVLTLSATPIP
RTLQLAMTGVRELSLITTPPVDRMAVRTFISPFDPLVIRETLMREHYRGGQSFYVCPRLA
DLADIHAFLQSDVPELKVAVAHGQMAAGELEDIMNAFYDGKYDVLLSTTIVESGLDVPTA
NTLIVHRADMFGLAQLYQLRGRVGRSKVRAFALFTLPVNKVLTTMAERRLKVLQSLDTLG
AGFQLASHDLDIRGAGNLLGEEQSGHIKEVGFELYQQMLEEAVAEVKGDEEVRDSGWSPQ
ISVGTSVMIPEDYVPDLHLRMGLYRRLGELADISEIDGFGAEMIDRFGPLPKEVQHLLKI
VYIKSLCRTANVEKVDAGPKGVVVQFRNKEFPNPAALVGYIGKQGSMAKIRPDHSLFLNR
DLPTPEKRLTGAAMVMTQLAELARS