YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24373808, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	1164 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|24373808, gi|....

Description	E-value	Query Range	Subject Range
gi\|78509987, gi\|... - gi\|78690571\|ref\|ZP_00855214.1\| Transcription-repair coupling factor [Shewanella sp. MR-7], gi\|785099...	918.0	[0..1]	[1164..1]
gi\|113970068, gi... - gi\|82496768\|ref\|ZP_00882332.1\| Transcription-repair coupling factor [Shewanella sp. MR-4], gi\|824051...	916.0	[0..1]	[1164..1]
gi\|110342882, gi... - gi\|110641290\|ref\|YP_669020.1\| transcription-repair coupling factor [Escherichia coli 536], gi\|110342...	916.0	[0..12]	[1156..27]
gi\|117623299, gi... - gi\|117623299\|ref\|YP_852212.1\| transcription-repair coupling factor [Escherichia coli APEC O1], gi\|11...	914.0	[0..12]	[1156..27]
gi\|83569563 - gi\|83569563\|ref\|ZP_00921015.1\| COG1197: Transcription-repair coupling factor (superfamily II helicas...	914.0	[0..12]	[1156..27]
gi\|75239611, gi\|... - gi\|75239611\|ref\|ZP_00723578.1\| COG1197: Transcription-repair coupling factor (superfamily II helicas...	914.0	[0..12]	[1156..11]
gi\|90109238, gi\|... - gi\|90109238\|pdb\|2EYQ\|B Chain B, Crystal Structure Of Escherichia Coli Transcription-Repair Coupling ...	914.0	[0..12]	[1156..14]
gi\|91071843, gi\|... - gi\|91210269\|ref\|YP_540255.1\| transcription-repair coupling factor [Escherichia coli UTI89], gi\|91071... gi\|237706900, gi... - gi\|237706900\|ref\|ZP_04537381.1\| transcription-repair coupling factor [Escherichia sp. 3_2_53FAA], gi...	914.0	[0..12]	[1156..32]
gi\|189370352, gi... - gi\|189370352\|gb\|EDU88768.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. EC86... gi\|168783484, gi... - gi\|188999153\|gb\|EDU68139.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. EC40... gi\|195938873 - gi\|195938873\|ref\|ZP_03084255.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. ... gi\|189375509, gi... - gi\|189375509\|gb\|EDU93925.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. EC50... gi\|168757829, gi... - gi\|189355265\|gb\|EDU73684.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. EC44... gi\|168751336, gi... - gi\|188014612\|gb\|EDU52734.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. EC41... gi\|168771340, gi... - gi\|189359855\|gb\|EDU78274.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. EC44... gi\|15830746, gi\|... - gi\|15830746\|ref\|NP_309519.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. Sak... gi\|189365183, gi... - gi\|189365183\|gb\|EDU83599.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. EC45... gi\|217328545, gi... - gi\|217328545\|ref\|ZP_03444627.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. ... gi\|209773000, gi... - pir\|\|D90815 transcription-repair coupling factor [imported] - Escherichia coli (strain O157:H7, subs... gi\|15830746, gi\|... - gi\|15830746\|ref\|NP_309519.1\| transcription-repair coupling factor [Escherichia coli O157:H7], gi\|133... gi\|254591897, gi... - gi\|254792497\|ref\|YP_003077334.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str.... gi\|208815000, gi... - gi\|208815000\|ref\|ZP_03256179.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. ... gi\|208809609, gi... - gi\|208809609\|ref\|ZP_03251946.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. ... gi\|209399391, gi... - gi\|209399391\|ref\|YP_002269959.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str.... gi\|208737970, gi... - gi\|208822485\|ref\|ZP_03262804.1\| transcription-repair coupling factor [Escherichia coli O157:H7 str. ...	913.0	[0..12]	[1156..11]

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Predicted Domain #1

Region A:
Residues: [1-1164]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTHISALTPP VVKNGTQMQT LSCIAGVGQA VTLASLIRQH QGTTLIVTSD TPTALSLELE  60
   61 LNYLLAKTAI KVRLFPDRET LPYDSFSPHQ DLISQRLETL SQITHAEHSV VIVPVTTLMM 120
  121 RLPPKSYLSS NVFVLKKGDK YQLHDVRQQL TDTGYHLVEQ VYEHGEFAIR GSILDIFPTG 180
  181 VNMPLRIELF DDEVETIRHF DPETQRSSTP VNAVRLLPAK EFPTDSSAIE GFRQRYRRRF 240
  241 EVIVKEPESV YQLVSRNLMP AGIENYLPLF FDEVSTLFDY LPKNTQLVTL GDIEKSARAH 300
  301 LQEVEIRYED RRVDPLRPLL APKELYLLIE ELFAAFKPLP RYQFVAPNPD TNGVAAQIDA 360
  361 RALPEVSANH KLKQPLIALQ DYAEQAPRML FSAESEGRRE ALLELLGKIQ LKPSVFSHFD 420
  421 EFIQSDARLG LIVSPLSRGC LLGLGAQTAV SIICETELFG QRISQQRRRE KQRQISNDTL 480
  481 IKNLAELKVG QPIVHLEHGV ALYQGLVTLD TGGIVAEYLQ LEYSGGDKLY VPVSNLHLIS 540
  541 RYSVGADGET HLNKLGNDTW AKAKNKAIEK IRDVAAELLD VYARRQARPG ESCEINDEEY 600
  601 AQFAQGFPFE ETVDQESAIH AVLADMQSPT AMDRLVCGDV GFGKTEVAMR AAFVAVNDGK 660
  661 QVVVLVPTTL LAQQHYENFK DRFADWPVVI EVMSRFRTAK EQTQVLKQLE EGKVDIVIGT 720
  721 HKLLQSEAKF ENLGLLIIDE EHRFGVRQKE KIKALRANVD ILTLTATPIP RTLNMAMSGM 780
  781 RDLSIIATPP AKRLAVKTFV RESDPATVRE AILREILRGG QVYYLHNNVE TIEKCAQDIS 840
  841 TLLPEARVVV AHGQMRERDL ERVMSDFYHQ RFNVLVCTTI IETGIDVPSA NTIIIERADT 900
  901 FGLAQLHQLR GRVGRSHHQA YAYLMTPHPK RMTTDARKRL EAIDALEDLG AGFMLATQDL 960
  961 EIRGAGELLG DEQSGHISKI GFSLYMEMLE SAVKALKQGK EPSLAQMLNQ QCEMELRIPA1020
 1021 LLPEDYVGDV NIRLSLYKRI ASCDSEEALD ELKVELIDRF GLLPDATKNL MEMTLYKHQA1080
 1081 TRLGATKIEV HAKGGSIEFS QDHSIDPGFI IGLLQSQPQI YRMDGPNKLK FILSAETAKD1140
 1141 RLALVKLLLE QLSQHQSQHR LGDK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	2eyqA
Description:	Crystal structure of Escherichia coli transcription-repair coupling factor
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.37148167194523	bayes_pls_golite062009
hydrolase activity	1.18412998130788	bayes_pls_golite062009
pyrophosphatase activity	1.16998111465319	bayes_pls_golite062009
nucleoside-triphosphatase activity	1.16375481834344	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides	1.15942143195918	bayes_pls_golite062009
hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	1.15882580213621	bayes_pls_golite062009
binding	0.712909626033412	bayes_pls_golite062009
ATPase activity	0.62253664120117	bayes_pls_golite062009
helicase activity	0.00674361801283974	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: