Protein Info for Ga0059261_0960 in Sphingomonas koreensis DSMZ 15582

Annotation: transcription-repair coupling factor (mfd)

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 1157 PF17757: UvrB_inter" amino acids 130 to 216 (87 residues), 84 bits, see alignment 2.3e-27 TIGR00580: transcription-repair coupling factor" amino acids 146 to 1088 (943 residues), 1023.8 bits, see alignment E=0 PF21132: MFD_D3" amino acids 394 to 464 (71 residues), 26.1 bits, see alignment 2.4e-09 PF02559: CarD_TRCF_RID" amino acids 489 to 544 (56 residues), 72.6 bits, see alignment 8.1e-24 PF00270: DEAD" amino acids 613 to 775 (163 residues), 77.2 bits, see alignment E=4.4e-25 PF04851: ResIII" amino acids 614 to 769 (156 residues), 29 bits, see alignment E=3.2e-10 PF00271: Helicase_C" amino acids 811 to 918 (108 residues), 68.1 bits, see alignment E=2.7e-22 PF03461: TRCF" amino acids 1017 to 1108 (92 residues), 81.3 bits, see alignment E=1.9e-26

Best Hits

KEGG orthology group: K03723, transcription-repair coupling factor (superfamily II helicase) [EC: 3.6.4.-] (inferred from 56% identity to ccs:CCNA_01920)

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 A0A2M8W9V2 at UniProt or InterPro

Protein Sequence (1157 amino acids)

>Ga0059261_0960 transcription-repair coupling factor (mfd) (Sphingomonas koreensis DSMZ 15582)
MPDLNQILSATTPLTLSGVPAGFLPWLLADLARASTTGAVYIAPDESAMRAVASTAAFFA
PELEIVQFPAWDCLPYDRASPTLRVMAERMAALAALQGKTSKPRLILTTVNAATQRTLTP
FRVRQMTARLAPGERISLDKLAALLSANGYVRTDTVHDSGEFAVRGGLVDLFPSGSEQGL
RLDFFGDEIESVRTFDPADQRTTGRVDGFTLLPASEALLDEDTIKRFRTRYREKFGATAT
GDPLYQAISDGRRLAGMEHWLPLFEERLETLFEHLPADAVIVRDAGDAGAAENRFEAIAD
YQANRVRAQSTDAGSYRPLGTDQLYLLPAEWDKRLKEAKAHLATPFHEPESATVLDFAVD
GPRDFAPERAAGTNIYEAVAEHLAKLRKAGKKPILASYSIGSRERLKGLLADHGLPNAVF
AESWQEALGVAAGGRDSGNVALIVLPLDHGFTSPEVALLTEQDMLGDRLVRRNKRKKSTD
AFLAELATLSPGDLVVHLEHGIGRYEGLTQIPVQKAPHDCVALTYAGGDKLYVPVENLEV
LSRYGSSEEGAALDRLGGEAWQRRKSRMKERIREIAGELIATAAARAVRPGEVLEPDPGG
YPAFVDRFPFTETDDQDRAIGDVLEDLAAGRPMDRLVVGDVGFGKTEVALRAAFVAAMAG
QQVAVVCPTTLLARQHFTNFVQRFEGFPIRIGRLSRLVPAAEAKATREGLESGQIDIVVG
THAVLAKGIEFKRLGLVIVDEEQRFGVTHKERLKGLKADVHVLTLTATPIPRTLQMAMSG
LRELSVIQTPPVDRLAVRTYVMPWDPVVLREALLREHYRGGQSFLVTPRIADLPDIEKFL
REEVPEVRYVVAHGQMAAGEVEERMSAFYDKKYEVLVSTTIIESGLDIPSANTMIINRAD
RFGLAQLYQLRGRVGRAKTRAYAYMTTAPQRLMTEAAEKRLKVLSDLESLGAGFQLASHD
LDIRGAGNLLGDEQSGHIKEVGYELYQSMLEEAIMDAKAGGLADARPRDLSPQITVDAPI
LIPEGFVPDLDLRMGLYRRLNEVEDKRGIDEFAAEMIDRFGKLPEETENLLLLIEAKLNA
KRACIAKIDVGPKGALVSFHEDSFPSVEGLMAYVAKLEGTAKLRPDMKLVISRAWATPRA
RLNAAVQLSRGLAKAAG