YRC Public Data Repository - Protein Structure Prediction

Protein:	END4_GEOSL
Organism:	Geobacter sulfurreducens PCA
Length:	296 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 END4_GEOSL.

Description	E-value	Query Range	Subject Range
gi\|112434021 - gi\|112434021\|gb\|ABI18361.1\| endonuclease IV [Enterobacter pyrinus]	242.0	[0..1]	[276..1]
gi\|148654781, gi... - gi\|148654781\|ref\|YP_001274986.1\| apurinic endonuclease Apn1 [Roseiflexus sp. RS-1], gi\|148566891\|gb\|...	241.0	[0..1]	[281..1]
sp\|A0L901\|END4_MAGMM - Probable endonuclease 4 OS=Magnetococcus marinus (strain ATCC BAA-1437 / JCM 17883 / MC-1) GN=nfo PE... END4_MAGMM - Probable endonuclease 4 OS=Magnetococcus marinus (strain ATCC BAA-1437 / JCM 17883 / MC-1) GN=nfo PE...	240.0	[0..1]	[280..1]
END4_SALPK - Probable endonuclease 4 OS=Salmonella paratyphi A (strain AKU_12601) GN=nfo PE=3 SV=1 END4_SALPA - Probable endonuclease 4 OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=nfo PE=3 SV=1 END4_SALPA - Probable endonuclease 4 OS=Salmonella paratyphi A GN=nfo PE=3 SV=1	239.0	[0..1]	[276..1]
gi\|214000084 - gi\|214000084\|ref\|ZP_03410819.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi s... gi\|213979778 - gi\|213979778\|ref\|ZP_03407037.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi s... gi\|213855420 - gi\|213855420\|ref\|ZP_03383660.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi s... gi\|213417706 - gi\|213417706\|ref\|ZP_03350830.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi s... gi\|200387407, gi... - gi\|200387407\|ref\|ZP_03214019.1\| endonuclease 4 [Salmonella enterica subsp. enterica serovar Virchow ... gi\|213649962 - gi\|213649962\|ref\|ZP_03380015.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi s... gi\|213611243 - gi\|213611243\|ref\|ZP_03370069.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi s... gi\|213583239 - gi\|213583239\|ref\|ZP_03365065.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi s... gi\|213424240 - gi\|213424240\|ref\|ZP_03357099.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi s... END4_SALTI - Probable endonuclease 4 OS=Salmonella typhi GN=nfo PE=3 SV=1 gi\|29141162, gi\|... - gi\|29141162\|ref\|NP_804504.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi str.... gi\|16761144 - gi\|16761144\|ref\|NP_456761.1\| endonuclease IV [Salmonella enterica subsp. enterica serovar Typhi str.... END4_SALTI - Probable endonuclease 4 OS=Salmonella typhi GN=nfo PE=3 SV=1	239.0	[0..1]	[276..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...	238.0	[0..1]	[276..1]
gi\|6573704 - gi\|6573704\|pdb\|1QTW\|A Chain A, High-Resolution Crystal Structure Of The Escherichia Coli Dna Repair ...	238.0	[0..3]	[276..2]
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	238.0	[0..1]	[276..1]
END4_SALTY - Probable endonuclease 4 OS=Salmonella typhimurium GN=nfo PE=3 SV=1 END4_SALPB - Probable endonuclease 4 OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=nfo PE=3 SV=1 gi\|205330602, gi... - gi\|205330602\|gb\|EDZ17366.1\| endonuclease 4 [Salmonella enterica subsp. enterica serovar 4,[5],12:i:-... END4_SALTY - Probable endonuclease 4 OS=Salmonella typhimurium GN=nfo PE=3 SV=1 gi\|168466107, gi... - gi\|195631363\|gb\|EDX49923.1\| endonuclease 4 [Salmonella enterica subsp. enterica serovar Newport str.... lcl\|NC_016856.1_... - [gene=nfo] [protein=endonuclease IV] [protein_id=YP_005238259.1] [location=2354212..2355069] END4_SALPB - Probable endonuclease 4 OS=Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7) GN=nfo PE=3 SV=1 END4_SALTY - Probable endonuclease 4 OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=nfo PE=3 ... gi\|167551168, gi... - gi\|205324051\|gb\|EDZ11890.1\| endonuclease 4 [Salmonella enterica subsp. enterica serovar Saintpaul st...	238.0	[0..1]	[276..1]

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Predicted Domain #1

Region A:
Residues: [1-296]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MNDYLGAHMS IAGGIHKAPA RGNRVGCGVI QVFTQNSNQW RGKMPTEGEA ALFREQWEAA  60
   61 GLHEIIAHDI YLINLAAPPG ETRDKSLAAF REEMERCTRL GIGTIVMHPG AHLGDGEETG 120
  121 IRRICEAFNR LIPAVPEFTG VILLETTAGQ GTSLGHTFEQ LAAIIAGTAF PDRFAVCFDT 180
  181 CHTFAAGYDF TTGEGYRRVF AEFDRLIGLD RLRCFHLNDS RKGLNSRVDR HEHIGRGTLG 240
  241 LEPFRFLMND DRFTTVPKIL ETPKGDDDEF DIMNLNTLRR LVRRRTTKER TEPCPS

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	63.0
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: