Protein Info for EX31_RS24520 in Rahnella sp. WP5

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 1147 PF17757: UvrB_inter" amino acids 129 to 217 (89 residues), 98.4 bits, see alignment 8.2e-32 TIGR00580: transcription-repair coupling factor" amino acids 145 to 1079 (935 residues), 1193 bits, see alignment E=0 PF21132: MFD_D3" amino acids 377 to 449 (73 residues), 89.9 bits, see alignment 3.4e-29 PF02559: CarD_TRCF_RID" amino acids 477 to 532 (56 residues), 72.9 bits, see alignment 7.4e-24 PF04851: ResIII" amino acids 600 to 758 (159 residues), 47.2 bits, see alignment E=9.6e-16 PF00270: DEAD" amino acids 602 to 764 (163 residues), 93.4 bits, see alignment E=5.4e-30 PF00271: Helicase_C" amino acids 802 to 906 (105 residues), 69.3 bits, see alignment E=1.3e-22 PF03461: TRCF" amino acids 1007 to 1097 (91 residues), 95.8 bits, see alignment E=6.4e-31

Best Hits

Swiss-Prot: 80% identical to MFD_ECOLI: Transcription-repair-coupling factor (mfd) from Escherichia coli (strain K12)

Predicted SEED Role

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

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

Find the best match in UniProt

Protein Sequence (1147 amino acids)

>EX31_RS24520 transcription-repair coupling factor (Rahnella sp. WP5)
MSQDYRYSLPERPGDNRLLGQLTGSACALECAQISERHTGPILLIAPDMQNALRLRDEIQ
QFTDNKVLSIADWETLPYDSFSPHQEIISSRLSSLYQLPTMERGIIILPVNTLMQRVCPH
EFLHGHALVMKKGQQLSRDKLRAQLEQAGYRSVDQVMEHGEFATRGALLDLYPMGSEEPY
RIDFFDDEIDSLRIFDVDTQRTLSEVEHINLLPAHEFPTDKNAIELFRSQWREKFEVRRD
AEHVYQQVSKGTFPAGIEYWQPLFFSQPLTTLFSYLPENTLVLNTGDLEAAAERFWQDAC
QRYESRRVDPMRPLLEPENLWLRVESLFTELKAWPRVQLRTDSLPKKAANTNLSYEKLPD
LSVQPQNKAPMDNLRRFNESFAGSLVFSVESEGRRETLQDLLARIKLMPTLITRIEEADI
AGRYIMIGACERGFLDADKQLALICESDLLGERVARRRQDSRRSINTDTLIRNLAELRPG
QPVVHVEHGVGRYLGLTTLETGGITAEYLILTYAGEDKLYVPVSSLHLISRYAGGADESA
PLHKLGGEAWSKARQKAAEKVRDVAAELLDIYAQREAKSGFAFKHDKAQYQLFCQAFPFE
TTPDQAQAINAVLTDMTQPLAMDRLVCGDVGFGKTEVAMRAAFLAVSNNKQVAVLVPTTL
LAQQHFDNFRDRFASWPVRIEMMSRFRSAKEQNVVLEDAVEGKVDIIIGTHKLLQTDLRW
KDLGLLIVDEEHRFGVRHKERIKAMRADVDILTLTATPIPRTLNMAMSGMRDLSIIATPP
ARRMAVKTFVREYDSLVVREAILREILRGGQVYYLYNDVENIEKASQRLAELVPEARIAI
GHGQMRERDLERVMNDFHHQRFNVLVCTTIIETGIDIPTANTIIIERADHFGLAQLHQLR
GRVGRSHHQAYAYLLTPPPKAMSADAHKRLEAIASLEDLGAGFALATHDLEIRGAGELLG
EGQSGQMTSIGFSLYMELLENAVEALKEGREPSLEDLTTSQTEVEMRMPALLPEDFIPDV
NTRLSLYKRIASAKTEGELDELRVELIDRFGTLPDGARNLLLIAVLRLKAKELGIRRIEG
NERGGFIEFGDKNRVDPGFLIGLLQKQPQVYRLDGPTKLKFVLDLTDRPKRLKFVGDMLS
EFTEHLI