Protein Info for Psest_1653 in Pseudomonas stutzeri RCH2

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 1148 PF17757: UvrB_inter" amino acids 129 to 217 (89 residues), 94.7 bits, see alignment 1.1e-30 TIGR00580: transcription-repair coupling factor" amino acids 146 to 1078 (933 residues), 1104.6 bits, see alignment E=0 PF21132: MFD_D3" amino acids 376 to 448 (73 residues), 82.2 bits, see alignment 7.2e-27 PF02559: CarD_TRCF_RID" amino acids 476 to 531 (56 residues), 66.6 bits, see alignment 6e-22 PF04851: ResIII" amino acids 600 to 757 (158 residues), 43 bits, see alignment E=1.7e-14 PF00270: DEAD" amino acids 601 to 762 (162 residues), 96.9 bits, see alignment E=4.1e-31 PF00271: Helicase_C" amino acids 800 to 905 (106 residues), 67 bits, see alignment E=5.9e-22 PF03461: TRCF" amino acids 1005 to 1097 (93 residues), 100.4 bits, see alignment E=2e-32

Best Hits

Swiss-Prot: 58% identical to MFD_HAEIN: Transcription-repair-coupling factor (mfd) from Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

KEGG orthology group: K03723, transcription-repair coupling factor (superfamily II helicase) [EC: 3.6.4.-] (inferred from 60% identity to aha:AHA_2003)

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 L0GHI8 at UniProt or InterPro

Protein Sequence (1148 amino acids)

>Psest_1653 transcription-repair coupling factor (mfd) (Pseudomonas stutzeri RCH2)
MSVLRLPPLPAASGKQHWGNLPGAALSLAIAEAASNAKRFTLLLTADSQSAERLQEELAF
FAPGLPVLHFPDWETLPYDIFSPHQDIVSQRISALYQLPELSHGVLVVPITTALHRLAPK
RFLLGSSLVLDVGQKLDVEQMRLRLEAAGYRCVDTVYEHGEFAVRGALIDLFPMGSPLPY
RIDLFDDEIETLRTFDPENQRSIDKVESIRLLPAREFPLKKEAVTGFRARFRERFDVDFR
RCPIYQDLSTGITPAGIEYYLPLFYEETATLFDYLPEDSQVFSLPGIEQAAEQFWSDVRN
RYEERRVDPERPLLPPAELFMPVEDCFARLKLWPRVVASQQDVESGIGRERFNAQALPEL
AIESKASEPLGKLRQFLESYPGRVLFTAESAGRREVLLELLARLKLRPQEVDGWTDFLAS
DQRLAITIAPLDEGLQLDDVALVAESPLFGQRVMQRRRREKSRDGGENVIKNLTELREGS
PVVHIDHGVGRYQGLTTLEIEGQAQEFLLLQYAEEAKLYVPVASLHLIARYTGSDDALAP
LHRLGSETWQKAKRKAAEQVRDVAAELLDIYARRAAREGYAFKDPQVDYETFAAGFPFEE
TPDQQAAIDAVREDLLSAKPMDRLVCGDVGFGKTEVAMRAAFIAVHGGRQVGVLVPTTLL
AQQHYNSFRDRFADWPVRVEVMSRFKSAKEVQNAIAELAEGKIDILIGTHKLLQDDVKFS
NLGLVIIDEEHRFGVRQKEQLKALRSEVDILTLTATPIPRTLNMSIAGMRDLSIIATPPA
RRLSVRTFVMEQQNTVIKEALLRELLRGGQVYYLHNDVKTIEKCAADLQALVPEARVAIG
HGQMRERDLEQVMSDFYHKRFNVLVASTIIETGIDVPSANTIIIERADKFGLAQLHQLRG
RVGRSHHQAYAYLLTPTRKAMTDDAQKRLEAIANAQDLGAGFVLATHDLEIRGAGELLGE
GQSGQIQAVGFTLYMEMLERAVKAIRKGEQPNLEQPLGGGPEINLRLPALIPEDYLPDVH
ARLILYKRIANAADEDGLKELQVEMIDRFGLLPEPTKNLVRLTLLKLQAEKLGITKIDAG
PQGGRIEFSADTSVDPMVLIKLIQSQPKRYKFEGATLFKFQVPMERPEERFNTLEALLER
LAPNEQGS