Protein Info for Psyr_1896 in Pseudomonas syringae pv. syringae B728a

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 1150 PF17757: UvrB_inter" amino acids 129 to 217 (89 residues), 95 bits, see alignment 8.5e-31 TIGR00580: transcription-repair coupling factor" amino acids 147 to 1082 (936 residues), 1103.2 bits, see alignment E=0 PF21132: MFD_D3" amino acids 376 to 450 (75 residues), 90.4 bits, see alignment 2e-29 PF02559: CarD_TRCF_RID" amino acids 480 to 535 (56 residues), 62.2 bits, see alignment 1.4e-20 PF00270: DEAD" amino acids 605 to 767 (163 residues), 95.5 bits, see alignment E=1.1e-30 PF04851: ResIII" amino acids 606 to 761 (156 residues), 42.2 bits, see alignment E=2.9e-14 PF00271: Helicase_C" amino acids 804 to 909 (106 residues), 66.3 bits, see alignment E=1e-21 PF03461: TRCF" amino acids 1009 to 1100 (92 residues), 99.6 bits, see alignment E=3.5e-32

Best Hits

Swiss-Prot: 57% 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 59% 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 Q4ZV82 at UniProt or InterPro

Protein Sequence (1150 amino acids)

>Psyr_1896 transcription-repair coupling factor (Pseudomonas syringae pv. syringae B728a)
MPVLRLPHLSAAAGKQHWGNLPGATLSLAIAEAASAAKRFTLLLTADSQSAERLEQELKF
FAPTLPVLHFPDWETLPYDLFSPHQDIISQRIASLYRLPELEHGVLVVPITTALHRLAPT
KFLLGSSLVLDVGQKLDVEAMRTRLEASGYRYVDTVYEHGEFTVRGALIDLFPMGSKLPF
RIDLFDDEIETLRTFDPDTQRSIDKVESVRLLPAREFPLQKEEVTRFKARFRERFDVDFR
RSPIFQDLSSGITPAGIEYYIPLFFEETSTLFDYLPQDTQVFSLPGIEQAAENFWNDVRN
RYEERRVDPARPLLPPAELFLPVEDCFARLKNWPRVVASQQDVDAGAGRERFPAQSLPDL
SIEAKATQPLAALSTFLDDFPGRVLFTAESAGRREVLLELLERLKLRPKTVDSWLDFVDG
KDRLAITIAPLDEGLLLEQPALALIAESPLFGQRVMQRRRREKRTDGGNNDAVIKNLTEL
REGAPVVHIDHGVGRYLGLATLEVENQVAEFLMLAYAEDAKLYVPVANLHLIARYTGSDD
ETAPLHRLGSETWQKAKRKAAEQVRDVAAELLDIYARRAAREGYAFADPKADYATFSAGF
PFEETPDQQTTIDAVRADMLAPKPMDRLVCGDVGFGKTEVAMRAAFIAVHGGRQVAILVP
TTLLAQQHYNSFRDRFADWPVTVEVMSRFKSAKEVSAAVADLAEGKIDIVIGTHKLLQDD
VKIKNLGLVIIDEEHRFGVRQKEQLKALRSEVDILTLTATPIPRTLNMAVSGMRDLSIIA
TPPARRLSVRTFVMEQNKPTIKEALLRELLRGGQVYYLHNDVKTIEKCAADLAELVPEAR
IGIGHGQMRERELEQVMSDFYHKRFNVLIASTIIETGIDVPSANTIIIERADKFGLAQLH
QLRGRVGRSHHQAYAYLLTPPRKQITHDAEKRLEAIANTQDLGAGFVLATNDLEIRGAGE
LLGDGQSGQIQAVGFTLYMEMLERAVKSIRKGEQPNLDQPLGGGPEINLRVPALIPEAYL
PDVHTRLILYKRIANAADEEALKDLQVEMIDRFGLLPEPTKNLVRITLLKLHAEQLGIRK
IDGGPQGGRIEFAAETPVDPLTLIKLIQSQPNRYKFEGATLFKFMVPMERPEERFNTIEA
LLERLTPKTA