YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|29654986, gi\|...
Organism:	Coxiella burnetii RSA 493
Length:	218 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|29654986, gi|....

Description	E-value	Query Range	Subject Range
gi\|15602246, gi\|... - gi\|15602246\|ref\|NP_245318.1\| hypothetical protein PM0381 [Pasteurella multocida subsp. multocida str...	250.0	[0..1]	[209..1]
gi\|113461208, gi... - gi\|23467008\|ref\|ZP_00122593.1\| COG0177: Predicted EndoIII-related endonuclease [Haemophilus somnus 1... gi\|168825935, gi... - gi\|170717806\|ref\|YP_001784869.1\| endonuclease III [Haemophilus somnus 2336], gi\|168825935\|gb\|ACA3130...	250.0	[0..1]	[209..1]
gi\|126097154, gi... - gi\|126208362\|ref\|YP_001053587.1\| endonuclease III [Actinobacillus pleuropneumoniae L20], gi\|12609715... gi\|190150214, gi... - gi\|190150214\|ref\|YP_001968739.1\| endonuclease III [Actinobacillus pleuropneumoniae serovar 7 str. AP... gi\|32033526 - gi\|32033526\|ref\|ZP_00133853.1\| COG0177: Predicted EndoIII-related endonuclease [Actinobacillus pleur...	249.0	[0..1]	[208..1]
gi\|194431988, gi... - gi\|83571019\|ref\|ZP_00922461.1\| COG0177: Predicted EndoIII-related endonuclease [Shigella dysenteriae...	248.0	[0..1]	[208..1]
EG10662 - DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) / Endonuclease III: DNA N-glycosylase... gi\|74312040, gi\|... - gi\|74312040\|ref\|YP_310459.1\| endonuclease III [Shigella sonnei Ss046], gi\|73855517\|gb\|AAZ88224.1\| en... gi\|82543999, gi\|... - gi\|82543999\|ref\|YP_407946.1\| endonuclease III [Shigella boydii Sb227], gi\|81245410\|gb\|ABB66118.1\| en... gi\|193064975, gi... - gi\|75257052\|ref\|ZP_00728612.1\| COG0177: Predicted EndoIII-related endonuclease [Escherichia coli E22... gi\|75512934, gi\|... - gi\|75512934\|ref\|ZP_00735415.1\| COG0177: Predicted EndoIII-related endonuclease [Escherichia coli 536... END3_ECOLI - Endonuclease III (EC 4.2.99.18) (DNA-(apurinic or apyrimidinic site) lyase) - Escherichia coli gi\|170020015, gi... - gi\|170020015\|ref\|YP_001724969.1\| endonuclease III [Escherichia coli ATCC 8739], gi\|169754943\|gb\|ACA7... gi\|170081297, gi... - gi\|170081297\|ref\|YP_001730617.1\| DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) [Esc... gi\|117623819, gi... - gi\|117623819\|ref\|YP_852732.1\| endonuclease III [Escherichia coli APEC O1], gi\|115512943\|gb\|ABJ01018.... gi\|124499984, gi... - gi\|124529210\|ref\|ZP_01700285.1\| endonuclease III [Escherichia coli B], gi\|124499984\|gb\|EAY47463.1\| e... gi\|170681381, gi... - gi\|170681381\|ref\|YP_001743621.1\| endonuclease III [Escherichia coli SMS-3-5], gi\|170519099\|gb\|ACB172... gi\|187429446, gi... - gi\|75178471\|ref\|ZP_00698517.1\| COG0177: Predicted EndoIII-related endonuclease [Shigella boydii BS51... gi\|157079658, gi... - gi\|75190673\|ref\|ZP_00703940.1\| COG0177: Predicted EndoIII-related endonuclease [Escherichia coli E24... gi\|75230918, gi\|... - gi\|75230918\|ref\|ZP_00717367.1\| COG0177: Predicted EndoIII-related endonuclease [Escherichia coli B7A... gi\|75238806, gi\|... - gi\|75238806\|ref\|ZP_00722790.1\| COG0177: Predicted EndoIII-related endonuclease [Escherichia coli F11... gi\|75195713, gi\|... - gi\|75195713\|ref\|ZP_00705783.1\| COG0177: Predicted EndoIII-related endonuclease [Escherichia coli HS]... gi\|194415944, gi... - gi\|75212970\|ref\|ZP_00712968.1\| COG0177: Predicted EndoIII-related endonuclease [Escherichia coli B17... gi\|83587968, gi\|... - gi\|83587968\|ref\|ZP_00926594.1\| COG0177: Predicted EndoIII-related endonuclease [Escherichia coli 101... gi\|89108475, gi\|... - gi\|89108475\|ref\|AP_002255.1\| DNA glycosylase and apyrimidinic (AP) lyase [Escherichia coli str. K-12... gi\|110343348, gi... - gi\|110641756\|ref\|YP_669486.1\| endonuclease III [Escherichia coli 536], gi\|110343348\|gb\|ABG69585.1\| e... gi\|209918946, gi... - gi\|209918946\|ref\|YP_002293030.1\| endonuclease III [Escherichia coli SE11], gi\|209912205\|dbj\|BAG77279... gi\|215264882, gi... - gi\|215486810\|ref\|YP_002329241.1\| endonuclease III [Escherichia coli O127:H6 str. E2348/69], gi\|21526... gi\|218360969, gi... - gi\|218554201\|ref\|YP_002387114.1\| endonuclease III [Escherichia coli IAI1], gi\|218360969\|emb\|CAQ98542... gi\|218558504, gi... - gi\|218558504\|ref\|YP_002391417.1\| endonuclease III [Escherichia coli S88], gi\|218365273\|emb\|CAR02994.... gi\|218427144, gi... - gi\|218689580\|ref\|YP_002397792.1\| endonuclease III [Escherichia coli ED1a], gi\|218427144\|emb\|CAR08027... gi\|253973596, gi... - gi\|254161695\|ref\|YP_003044803.1\| DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) [Esc... gi\|218695196, gi... - gi\|218695196\|ref\|YP_002402863.1\| endonuclease III [Escherichia coli 55989], gi\|218351928\|emb\|CAU9765... END3_ECOL6 - Endonuclease III OS=Escherichia coli O6 GN=nth PE=3 SV=1 gi\|253324453, gi... - gi\|254288484\|ref\|YP_003054232.1\| DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) [Esc... gi\|218699799, gi... - gi\|218699799\|ref\|YP_002407428.1\| endonuclease III [Escherichia coli IAI39], gi\|218369785\|emb\|CAR1755... END3_ECOL6 - Endonuclease III OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=nth PE=3 SV=1 gi\|251785091, gi... - gi\|251785091\|ref\|YP_002999395.1\| hypothetical protein B21_01593 [Escherichia coli BL21], gi\|24237736... gi\|238860816, gi... - gi\|238900849\|ref\|YP_002926645.1\| DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) [Esc... gi\|237705576, gi... - gi\|237705576\|ref\|ZP_04536057.1\| endonuclease III [Escherichia sp. 3_2_53FAA], gi\|226900333\|gb\|EEH865... gi\|227885951, gi... - gi\|227885951\|ref\|ZP_04003756.1\| DNA-(apurinic or apyrimidinic site) lyase [Escherichia coli 83972], ... EG10662 - DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) / Endonuclease III: DNA N-glycosylase...	248.0	[0..1]	[208..1]
gi\|192956462, gi... - gi\|75234946\|ref\|ZP_00719225.1\| COG0177: Predicted EndoIII-related endonuclease [Escherichia coli E11...	248.0	[0..1]	[208..1]
gi\|108811869, gi... - gi\|229902171\|ref\|ZP_04517292.1\| DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) [Yers... gi\|149292255, gi... - gi\|149365842\|ref\|ZP_01887877.1\| endonuclease III [Yersinia pestis CA88-4125], gi\|149292255\|gb\|EDM423... gi\|145598193, gi... - gi\|145598193\|ref\|YP_001162269.1\| endonuclease III [Yersinia pestis Pestoides F], gi\|145209889\|gb\|ABP... gi\|89102529, gi\|... - gi\|89103498\|ref\|ZP_01176072.1\| COG0177: Predicted EndoIII-related endonuclease [Yersinia pestis biov... Q66AH0\|Q66AH0_YERPS - Endonuclease III - Yersinia pseudotuberculosis gi\|108779506, gi... - gi\|108807593\|ref\|YP_651509.1\| endonuclease III [Yersinia pestis Antiqua], gi\|108779506\|gb\|ABG13564.1... gi\|21958913, gi\|... - gi\|22125970\|ref\|NP_669393.1\| endonuclease III [Yersinia pestis KIM], gi\|21958913\|gb\|AAM85644.1\|AE013... gi\|25292140 - pir\|\|AI0272 DNA-(apurinic or apyrimidinic site) lyase (EC 4.2.99.18) [imported] - Yersinia pestis (s... gi\|186895536, gi... - gi\|186895536\|ref\|YP_001872648.1\| endonuclease III [Yersinia pseudotuberculosis PB1/+], gi\|186698562\|... gi\|51596486, gi\|... - gi\|51596486\|ref\|YP_070677.1\| endonuclease III [Yersinia pseudotuberculosis IP 32953], gi\|51589768\|em... gi\|45441837, gi\|... - gi\|45441837\|ref\|NP_993376.1\| endonuclease III [Yersinia pestis biovar Microtus str. 91001], gi\|45436... gi\|229702019, gi... - gi\|229894924\|ref\|ZP_04510102.1\| DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) [Yers... gi\|115347946, gi... - gi\|218929335\|ref\|YP_002347210.1\| endonuclease III [Yersinia pestis CO92], gi\|16122467\|ref\|NP_405780.... gi\|229897667, gi... - gi\|229897667\|ref\|ZP_04512823.1\| DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) [Yers... gi\|229688602, gi... - gi\|229898312\|ref\|ZP_04513459.1\| DNA glycosylase and apyrimidinic (AP) lyase (endonuclease III) [Yers... gi\|165990463, gi... - gi\|166010761\|ref\|ZP_02231659.1\| endonuclease III [Yersinia pestis biovar Antiqua str. E1979001], gi\|... gi\|165920625, gi... - gi\|165927359\|ref\|ZP_02223191.1\| endonuclease III [Yersinia pestis biovar Orientalis str. F1991016], ... gi\|167400818, gi... - gi\|167400818\|ref\|ZP_02306324.1\| endonuclease III [Yersinia pestis biovar Antiqua str. UG05-0454], gi... gi\|166207872, gi... - gi\|166210692\|ref\|ZP_02236727.1\| endonuclease III [Yersinia pestis biovar Antiqua str. B42003004], gi... gi\|167056185, gi... - gi\|167424998\|ref\|ZP_02316751.1\| endonuclease III [Yersinia pestis biovar Mediaevalis str. K1973002],... gi\|167420201, gi... - gi\|167420201\|ref\|ZP_02311954.1\| endonuclease III [Yersinia pestis biovar Orientalis str. MG05-1020],... gi\|170024248, gi... - gi\|170024248\|ref\|YP_001720753.1\| endonuclease III [Yersinia pseudotuberculosis YPIII], gi\|169750782\|... gi\|167467741 - gi\|167467741\|ref\|ZP_02332445.1\| endonuclease III [Yersinia pestis FV-1] gi\|162352212, gi... - gi\|77636252\|ref\|ZP_00798328.1\| COG0177: Predicted EndoIII-related endonuclease [Yersinia pestis Ango... gi\|153948366, gi... - gi\|77629237\|ref\|ZP_00791823.1\| COG0177: Predicted EndoIII-related endonuclease [Yersinia pseudotuber...	247.0	[0..1]	[208..1]
gi\|28871291, gi\|... - gi\|28871291\|ref\|NP_793910.1\| endonuclease III [Pseudomonas syringae pv. tomato str. DC3000], gi\|2885... gi\|213924396, gi... - gi\|213970873\|ref\|ZP_03398996.1\| endonuclease III [Pseudomonas syringae pv. tomato T1], gi\|213924396\|... tr\|Q87XM8\|Q87XM8... - Endonuclease III OS=Pseudomonas syringae pv. tomato (strain DC3000) GN=nth PE=3 SV=1	247.0	[0..1]	[209..1]
gi\|77868355, gi\|... - gi\|77952798\|ref\|ZP_00817211.1\| Endonuclease III/Nth [Marinobacter aquaeolei VT8], gi\|77868355\|gb\|EAO...	247.0	[0..1]	[209..1]
gi\|110805606, gi... - gi\|110805606\|ref\|YP_689126.1\| endonuclease III [Shigella flexneri 5 str. 8401], gi\|110615154\|gb\|ABF0... gi\|24113023, gi\|... - gi\|24113023\|ref\|NP_707533.1\| endonuclease III [Shigella flexneri 2a str. 301], gi\|24051987\|gb\|AAN432... gi\|30063148, gi\|... - gi\|30063148\|ref\|NP_837319.1\| endonuclease III [Shigella flexneri 2a str. 2457T], gi\|30041397\|gb\|AAP1...	247.0	[0..1]	[208..1]

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Predicted Domain #1

Region A:
Residues: [1-218]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MDQTEREEIF RRFKARNHKP VSELIYHSEF ELLISVMLSA QATDISVNKA TKDLYRIANT  60
   61 PAKVLALGES GLKKYIKSIG LYNTKAKNII KTCKILVENY HSKVPRTREE LEALPGVGRK 120
  121 TANVILNTAF GEHAIAVDTH IFRVANRTGL ARGKTPLAVE KKLMEVVPKK YLADAHHWLV 180
  181 LHGRYICIAR RPKCSECLIN DLCEYPDKTP LNLSNPTE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	66.0
Match:	2abkA
Description:	REFINEMENT OF THE NATIVE STRUCTURE OF ENDONUCLEASE III TO A RESOLUTION OF 1.85 ANGSTROM
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
DNA N-glycosylase activity	4.08559331236111	bayes_pls_golite062009
hydrolase activity, hydrolyzing N-glycosyl compounds	3.73234184319832	bayes_pls_golite062009
DNA-(apurinic or apyrimidinic site) lyase activity	3.12421941323765	bayes_pls_golite062009
hydrolase activity, acting on glycosyl bonds	2.54759386266723	bayes_pls_golite062009
catalytic activity	2.50389926428623	bayes_pls_golite062009
oxidized base lesion DNA N-glycosylase activity	1.80199518353554	bayes_pls_golite062009
alkylbase DNA N-glycosylase activity	1.75218522602775	bayes_pls_golite062009
hydrolase activity	1.39000450534744	bayes_pls_golite062009
DNA-3-methyladenine glycosylase I activity	1.14337995879633	bayes_pls_golite062009
oxidized purine base lesion DNA N-glycosylase activity	0.473206156100251	bayes_pls_golite062009
uracil DNA N-glycosylase activity	0.29478804124408	bayes_pls_golite062009
oxidized pyrimidine base lesion DNA N-glycosylase activity	0.253198605718519	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: