YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24052593, gi\|...
Organism:	Shigella flexneri 2a str. 301
Length:	285 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|24052593, gi|....

Description	E-value	Query Range	Subject Range
gi\|15802715, gi\|... - gi\|15802715\|ref\|NP_288742.1\| endonuclease IV [Escherichia coli O157:H7 EDL933], gi\|12516482\|gb\|AAG57... gi\|25289189 - gi\|25289189\|pir\|\|E85854 endonuclease IV [imported] - Escherichia coli (strain O157:H7, substrain EDL...	276.0	[0..1]	[285..1]
gi\|112434021 - gi\|112434021\|gb\|ABI18361.1\| endonuclease IV [Enterobacter pyrinus]	276.0	[0..1]	[285..1]
gi\|168788974, gi... - gi\|189371374\|gb\|EDU89790.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC869], gi\|168788974\|ref\|Z... gi\|189002169, gi... - gi\|189002169\|gb\|EDU71155.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC4076], gi\|168780008\|ref\|... gi\|187771296, gi... - gi\|187771296\|gb\|EDU35140.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC4196], gi\|168773124\|ref\|... gi\|168767778, gi... - gi\|189362945\|gb\|EDU81364.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC4486], gi\|168767778\|ref\|... gi\|208725960, gi... - gi\|208806159\|ref\|ZP_03248496.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC4206], gi\|208725960\|... gi\|195935538 - gi\|195935538\|ref\|ZP_03080920.1\| endonuclease IV [Escherichia coli O157:H7 str. EC4024] END4_ECODH - Probable endonuclease 4 OS=Escherichia coli (strain K12 / DH10B) GN=nfo PE=3 SV=1 gi\|168801146, gi... - gi\|189376626\|gb\|EDU95042.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC508], gi\|168801146\|ref\|Z... END4_ECOLI - Endonuclease 4 (EC 3.1.21.2) (Endonuclease IV) (Endodeoxyribonuclease IV) - Escherichia coli gi\|189366099, gi... - gi\|189366099\|gb\|EDU84515.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC4501], gi\|168763821\|ref\|... gi\|189355386, gi... - gi\|189355386\|gb\|EDU73805.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC4401], gi\|168757747\|ref\|... gi\|168750545, gi... - gi\|188015349\|gb\|EDU53471.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC4113], gi\|168750545\|ref\|... END4_ECOBW - Probable endonuclease 4 OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=nfo PE=3 SV=1 gi\|13362520, gi\|... - gi\|15832305\|ref\|NP_311078.1\| endonuclease IV [Escherichia coli O157:H7 str. Sakai], gi\|13362520\|dbj\|... gi\|254794058, gi... - gi\|254794058\|ref\|YP_003078895.1\| endonuclease IV with intrinsic 3'-5' exonuclease activity [Escheric... END4_SHIDS - Probable endonuclease 4 OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=nfo PE=3 SV=1 gi\|89108976, gi\|... - gi\|89108976\|ref\|AP_002756.1\| endonuclease IV with intrinsic 3'-5' exonuclease activity [Escherichia ... gi\|217319290, gi... - gi\|217326923\|ref\|ZP_03443006.1\| endonuclease 4 [Escherichia coli O157:H7 str. TW14588], gi\|217319290... END4_ECO5E - Probable endonuclease 4 OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=nfo PE=3 SV=1 gi\|208819989, gi... - gi\|208819989\|ref\|ZP_03260309.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC4042], gi\|208740112\|... gi\|208735775, gi... - gi\|208814498\|ref\|ZP_03255827.1\| endonuclease 4 [Escherichia coli O157:H7 str. EC4045], gi\|208735775\|... END4_ECO57 - Endonuclease 4 OS=Escherichia coli O157:H7 GN=nfo PE=3 SV=1 EG10651 - endonuclease IV with intrinsic 3'-5' exonuclease activity / AP endodeoxyribonuclease IV; member of s... EG10651 - endonuclease IV with intrinsic 3'-5' exonuclease activity / AP endodeoxyribonuclease IV; member of s...	276.0	[0..1]	[285..1]
gi\|75231502, gi\|... - gi\|75231502\|ref\|ZP_00717871.1\| COG0648: Endonuclease IV [Escherichia coli B7A], gi\|191165384\|ref\|ZP_... gi\|124526735, gi... - gi\|124526735\|ref\|ZP_01698644.1\| apurinic endonuclease Apn1 [Escherichia coli B], gi\|124501791\|gb\|EAY... gi\|75234047, gi\|... - gi\|75234047\|ref\|ZP_00718464.1\| COG0648: Endonuclease IV [Escherichia coli E110019], gi\|193071088\|ref... END4_ECOHS - Probable endonuclease 4 OS=Escherichia coli O9:H4 (strain HS) GN=nfo PE=3 SV=1 gi\|194414844, gi... - gi\|75211575\|ref\|ZP_00711654.1\| COG0648: Endonuclease IV [Escherichia coli B171], gi\|194427223\|ref\|ZP... END4_SHIBS - Probable endonuclease 4 OS=Shigella boydii serotype 4 (strain Sb227) GN=nfo PE=3 SV=1 END4_ECO55 - Probable endonuclease 4 OS=Escherichia coli (strain 55989 / EAEC) GN=nfo PE=3 SV=1 gi\|192932128, gi... - gi\|75259631\|ref\|ZP_00730933.1\| COG0648: Endonuclease IV [Escherichia coli E22], gi\|193062462\|ref\|ZP_... END4_ECOSE - Probable endonuclease 4 OS=Escherichia coli (strain SE11) GN=nfo PE=3 SV=1 gi\|188492385, gi... - gi\|75514502\|ref\|ZP_00736780.1\| COG0648: Endonuclease IV [Escherichia coli 53638], gi\|188492385\|ref\|Z... END4_ECO8A - Probable endonuclease 4 OS=Escherichia coli O8 (strain IAI1) GN=nfo PE=3 SV=1 END4_ECOLC - Probable endonuclease 4 OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=nfo PE=3 SV=1 END4_ECO24 - Probable endonuclease 4 OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=nfo PE=3 SV=1	275.0	[0..1]	[285..1]
gi\|744194, gi\|405898 - gi\|744194\|prf\|\|2014253BE endonuclease, gi\|405898\|gb\|AAA60529.1\| endonuclease IV [Escherichia coli]	275.0	[0..1]	[285..1]
END4_ECOLU - Probable endonuclease 4 OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=nfo PE=3 SV=1 sp\|B7UFH5\|END4_ECO27 - Probable endonuclease 4 OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=nfo PE=3 SV=1 END4_ECOL6 - Probable endonuclease 4 OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=nfo PE=3 S... END4_ECO7I - Probable endonuclease 4 OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=nfo PE=3 SV=1 END4_ECOL5 - Probable endonuclease 4 OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=nfo PE=3 SV=1 gi\|190909534, gi... - gi\|75242976\|ref\|ZP_00726682.1\| COG0648: Endonuclease IV [Escherichia coli F11], gi\|191170018\|ref\|ZP_... END4_ECOL6 - Probable endonuclease 4 OS=Escherichia coli O6 GN=nfo PE=3 SV=1 gi\|227835565, gi... - gi\|227887215\|ref\|ZP_04005020.1\| endonuclease IV [Escherichia coli 83972], gi\|227835565\|gb\|EEJ46031.1... END4_ECO27 - Probable endonuclease 4 OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=nfo PE=3 SV=1	275.0	[0..1]	[285..1]
gi\|83588140, gi\|... - gi\|83588140\|ref\|ZP_00926765.1\| COG0648: Endonuclease IV [Escherichia coli 101-1], gi\|194436049\|ref\|Z... gi\|251785526, gi... - gi\|251785526\|ref\|YP_002999830.1\| hypothetical protein B21_02047 [Escherichia coli BL21], gi\|24237779... gi\|254162173, gi... - gi\|254162173\|ref\|YP_003045281.1\| endonuclease IV [Escherichia coli B str. REL606], gi\|253974074\|gb\|A... gi\|253978241, gi... - gi\|254288934\|ref\|YP_003054682.1\| endonuclease IV [Escherichia coli BL21(DE3)], gi\|253978241\|gb\|ACT43...	274.0	[0..1]	[285..1]
END4_ECOUT - Probable endonuclease 4 OS=Escherichia coli (strain UTI89 / UPEC) GN=nfo PE=3 SV=1 gi\|226900993, gi... - gi\|237704627\|ref\|ZP_04535108.1\| endonuclease IV [Escherichia sp. 3_2_53FAA], gi\|226900993\|gb\|EEH8725... END4_ECOK1 - Probable endonuclease 4 OS=Escherichia coli O1:K1 / APEC GN=nfo PE=3 SV=1 END4_ECO45 - Probable endonuclease 4 OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=nfo PE=3 SV=1	274.0	[0..1]	[285..1]
gi\|194420250, gi... - gi\|83571071\|ref\|ZP_00922512.1\| COG0648: Endonuclease IV [Shigella dysenteriae 1012], gi\|194431425\|re...	274.0	[0..1]	[285..1]

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Predicted Domain #1

Region A:
Residues: [1-285]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKYIGAHVSA AGGLANAAIR AAEIDATAFA LFTKNQRQWR AAPLTTQTID EFKAACEKYH  60
   61 YTSAQILPHD SYLINLGHPV TEALEKSRDA FIDEMQRCEQ LGLSLLNFHP GSHLMQISEE 120
  121 DCLARIAESI NIALDKTQGV TAVIENTAGQ GSNLGFKFEH LAAIIDGVED KSRVGVCIDT 180
  181 CHAFAAGYDL RTPAECEKTF ADFARIVGFK YLRGMHLNDA KSTFGSRVDR HHSLGEGNIG 240
  241 HDAFRWIMQN DRFDGIPLIL ETINPDIWAE EIAWLKAQQT EKAVA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	74.221849
Match:	1qtwA
Description:	Endonuclease IV
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.66019571685402	bayes_pls_golite062009
deoxyribonuclease activity	0.97458966528485	bayes_pls_golite062009
DNA-(apurinic or apyrimidinic site) lyase activity	0.36517654808269	bayes_pls_golite062009
endodeoxyribonuclease activity	0.19550406288989	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: