YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24051322, gi\|...
Organism:	Shigella flexneri 2a str. 301
Length:	247 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|24051322, gi|....

Description	E-value	Query Range	Subject Range
gi\|115365647, gi... - gi\|115377327\|ref\|ZP_01464534.1\| isrso8-transposase orfb protein [Stigmatella aurantiaca DW4/3-1], gi...	184.0	[0..1]	[246..18]
gi\|75188988, gi\|... - gi\|75188988\|ref\|ZP_00702255.1\| COG2801: Transposase and inactivated derivatives [Escherichia coli E2... gi\|194437827, gi... - gi\|83586674\|ref\|ZP_00925306.1\| COG2801: Transposase and inactivated derivatives [Escherichia coli 10... gi\|218698131, gi... - gi\|218698131\|ref\|YP_002405798.1\| hypothetical protein EC55989_4948 [Escherichia coli 55989], gi\|2183...	184.0	[0..1]	[246..108]
gi\|110615289, gi... - gi\|110805741\|ref\|YP_689261.1\| IS600 ORF2 [Shigella flexneri 5 str. 8401], gi\|110615289\|gb\|ABF03956.1...	184.0	[0..1]	[246..110]
gi\|66046546, gi\|... - gi\|66046546\|ref\|YP_236387.1\| integrase catalytic subunit [Pseudomonas syringae pv. syringae B728a], ...	180.0	[0..1]	[247..1]
gi\|75212177, gi\|... - gi\|75212177\|ref\|ZP_00712217.1\| COG2801: Transposase and inactivated derivatives [Escherichia coli B1...	180.0	[0..1]	[246..108]
gi\|219993523, gi... - gi\|89210394\|ref\|ZP_01188784.1\| Integrase, catalytic region [Halothermothrix orenii H 168], gi\|891600...	179.0	[0..1]	[246..4]
gi\|83586705 - gi\|83586705\|ref\|ZP_00925337.1\| COG2801: Transposase and inactivated derivatives [Escherichia coli 10...	176.0	[0..1]	[246..10]
gi\|208815858, gi... - gi\|208815858\|ref\|ZP_03257037.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4045], gi\|2... gi\|208822185, gi... - gi\|208822185\|ref\|ZP_03262504.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4042], gi\|2... gi\|13360771, gi\|... - gi\|15830565\|ref\|NP_309338.1\| putative transposase [Escherichia coli O157:H7], gi\|13360771\|dbj\|BAB347... gi\|209158112, gi... - gi\|209396712\|ref\|YP_002269794.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4115], gi\|... gi\|25300470, gi\|... - pir\|\|G90792 probable transposase [imported] - Escherichia coli (strain O157:H7, substrain RIMD 05099... gi\|217318998, gi... - gi\|217328571\|ref\|ZP_03444653.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. TW14588], gi\|... gi\|189371453, gi... - gi\|189371453\|gb\|EDU89869.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC869], gi\|168788... gi\|12514450, gi\|... - gi\|15801061\|ref\|NP_287077.1\| unknown in IS600 [Escherichia coli O157:H7 EDL933], gi\|15800655\|ref\|NP_... gi\|168799202, gi... - gi\|189378240\|gb\|EDU96656.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC508], gi\|168799... gi\|189358344, gi... - gi\|189402006\|ref\|ZP_02779408.2\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4401], gi\|1... gi\|208727098, gi... - gi\|208807297\|ref\|ZP_03249634.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4206], gi\|2... gi\|189368678, gi... - gi\|189368678\|gb\|EDU87094.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4501], gi\|16876... gi\|168767578, gi... - gi\|189363280\|gb\|EDU81699.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4486], gi\|16876... gi\|168773767, gi... - gi\|187770499\|gb\|EDU34343.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4196], gi\|16877... gi\|168781096, gi... - gi\|189001388\|gb\|EDU70374.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4076], gi\|16878... gi\|168747306, gi... - gi\|188018050\|gb\|EDU56172.1\| ISSd1, transposase orfB [Escherichia coli O157:H7 str. EC4113], gi\|16874... gi\|13360771, gi\|... - gi\|15830565\|ref\|NP_309338.1\| putative transposase [Escherichia coli O157:H7 str. Sakai], gi\|13360771... gi\|254591728, gi... - gi\|254792328\|ref\|YP_003077165.1\| Transposase ISSd1 [Escherichia coli O157:H7 str. TW14359], gi\|25459...	175.0	[0..1]	[246..1]

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Predicted Domain #1

Region A:
Residues: [1-100]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MCQVFGVSRS GYYNWVQHEP SDRKQSDERL KLEIKVAHIR TRETYGTRRL QTELAENGII  60
   61 VGRDRLARLR KELRLRCKQK RKFRATTNPN HNLPVAPNLL

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	0.957
Match:	1u78A
Description:	Structure of the bipartite DNA-binding domain of Tc3 transposase bound to transposon DNA
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
transcription regulator activity	1.49632014394309	bayes_pls_golite062009
DNA binding	1.3191703194956	bayes_pls_golite062009
nucleic acid binding	1.24039515448759	bayes_pls_golite062009
binding	0.993284934100708	bayes_pls_golite062009
transcription factor activity	0.793064804495389	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [101-247]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 NQTFAPTAPN QVWVADLTYV ATQEGWLYLA GIKDVYTCEI VGYAMGERMT KELTGKALFM  60
   61 ALRSQRPPAG LIHHSDRGSQ YCAYDYRVIQ EQSGLKTSMS RKGNCYDNAP MESFWGISPR 120
  121 QPSGKNIIRW LLKKEQMVVS AIASTPQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	6.69897
Match:	1bhlA
Description:	CACODYLATED CATALYTIC DOMAIN OF HIV-1 INTEGRASE
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
nuclease activity	1.81796593394339	bayes_pls_golite062009
exonuclease activity	1.64964907710028	bayes_pls_golite062009
catalytic activity	1.62277843225829	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	1.58702937619673	bayes_pls_golite062009
hydrolase activity	1.41857676124086	bayes_pls_golite062009
transposase activity	1.09803761537443	bayes_pls_golite062009
ribonuclease activity	0.71352601607444	bayes_pls_golite062009
deoxyribonuclease activity	0.63299586096139	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	0.62821439153618	bayes_pls_golite062009
endonuclease activity	0.150927275899469	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:

Predicted functions: