YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|16803822
Organism:	Listeria monocytogenes EGD-e
Length:	251 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|16803822.

Description	E-value	Query Range	Subject Range
gi\|46908012, gi\|... - gi\|46908012\|ref\|YP_014401.1\| exodeoxyribonuclease [Listeria monocytogenes str. 4b F2365], gi\|4688128... gi\|47017476, gi\|... - gi\|47094151\|ref\|ZP_00231871.1\| exodeoxyribonuclease [Listeria monocytogenes str. 4b H7858], gi\|47017... gi\|133726867, gi... - gi\|153167588\|ref\|ZP_01927728.1\| exodeoxyribonuclease [Listeria monocytogenes FSL N1-017], gi\|1337268... gi\|133735073, gi... - gi\|254933631\|ref\|ZP_05266990.1\| 3'-exo-deoxyribonuclease exoA [Listeria monocytogenes HPB2262], gi\|1... gi\|225876847, gi... - gi\|226224385\|ref\|YP_002758492.1\| 3'-exo-deoxyribonuclease exoA [Listeria monocytogenes Clip81459], g... gi\|254880606 - gi\|254880606\|ref\|ZP_05253316.1\| 3'-exo-deoxyribonuclease exoA [Listeria monocytogenes FSL J2-071] gi\|254826392 - gi\|254826392\|ref\|ZP_05231393.1\| 3'-exo-deoxyribonuclease exoA [Listeria monocytogenes FSL J1-194] gi\|255521086 - gi\|255521086\|ref\|ZP_05388323.1\| 3'-exo-deoxyribonuclease exoA [Listeria monocytogenes FSL J1-175] gi\|217964070, gi... - gi\|217964070\|ref\|YP_002349748.1\| exodeoxyribonuclease III [Listeria monocytogenes HCC23], gi\|2173333...	262.0	[0..1]	[251..1]
gi\|16800960 - gi\|16800960\|ref\|NP_471228.1\| hypothetical protein lin1894 [Listeria innocua Clip11262] gi\|25289128, gi\|... - pir\|\|AD1669 3'-exo-deoxyribonuclease exoA homolog lin1894 [imported] - Listeria innocua (strain Clip...	261.0	[0..1]	[251..1]
gi\|126940968, gi... - gi\|254901191\|ref\|ZP_05261115.1\| 3'-exo-deoxyribonuclease exoA [Listeria monocytogenes J0161], gi\|153... gi\|47014105, gi\|... - gi\|47097522\|ref\|ZP_00235061.1\| exodeoxyribonuclease [Listeria monocytogenes str. 1/2a F6854], gi\|470... gi\|254832537, gi... - gi\|254832537\|ref\|ZP_05237192.1\| 3'-exo-deoxyribonuclease exoA [Listeria monocytogenes 10403S], gi\|15... gi\|254914076, gi... - gi\|254914076\|ref\|ZP_05264088.1\| 3'-exo-deoxyribonuclease exoA [Listeria monocytogenes J2818], gi\|153... gi\|254938390, gi... - gi\|254938390\|ref\|ZP_05270087.1\| 3'-exo-deoxyribonuclease exoA [Listeria monocytogenes F6900], gi\|153... gi\|224503787 - gi\|224503787\|ref\|ZP_03672094.1\| exodeoxyribonuclease III [Listeria monocytogenes FSL R2-561]	260.0	[0..1]	[251..1]
gi\|82723280, gi\|... - gi\|82748860\|ref\|ZP_00911335.1\| AP endonuclease, family 1:Exodeoxyribonuclease III xth [Clostridium b...	259.0	[0..2]	[251..5]
gi\|27886479, gi\|... - gi\|34763743\|ref\|ZP_00144662.1\| Exodeoxyribonuclease III [Fusobacterium nucleatum subsp. vincentii AT...	255.0	[0..1]	[250..1]
gi\|219670588, gi... - gi\|219670588\|ref\|YP_002461023.1\| exodeoxyribonuclease III Xth [Desulfitobacterium hafniense DCB-2], ... gi\|89897437, gi\|... - gi\|89897437\|ref\|YP_520924.1\| hypothetical protein DSY4691 [Desulfitobacterium hafniense Y51], gi\|893...	254.0	[0..1]	[249..1]
gi\|19713467, gi\|... - gi\|19713467\|gb\|AAL94260.1\| Exodeoxyribonuclease III [Fusobacterium nucleatum subsp. nucleatum ATCC 2...	254.0	[0..1]	[250..1]
gi\|110683489, gi... - gi\|110802988\|ref\|YP_698514.1\| exodeoxyribonuclease III [Clostridium perfringens SM101], gi\|110683489... gi\|18144835, gi\|... - gi\|18310156\|ref\|NP_562090.1\| exodeoxyribonuclease III [Clostridium perfringens str. 13], gi\|18144835...	252.0	[0..1]	[250..1]
gi\|110801105, gi... - gi\|110801105\|ref\|YP_695823.1\| exodeoxyribonuclease III [Clostridium perfringens ATCC 13124], gi\|1106...	252.0	[0..1]	[250..1]
gi\|116103491, gi... - gi\|48870997\|ref\|ZP_00323714.1\| COG0708: Exonuclease III [Pediococcus pentosaceus ATCC 25745], gi\|116...	252.0	[0..1]	[251..1]

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Predicted Domain #1

Region A:
Residues: [1-251]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKLISWNVNG LRAAVKKGFL EYFEEVDADI FCLQETKLQE GQIELDLPAY KDYWNYAVKK  60
   61 GYSGTAIFTK VEPLSVQYGL GIPEHDTEGR VITLEFEEFF MVTVYTPNSQ AELKRLDYRM 120
  121 TFEDAILEYV KNLDNTKPVV LCGDLNVAHE EIDLKNPKTN RKNAGFSDEE RAKFSAFLDA 180
  181 GFIDSFRYFY PDLTDAYSWW SYRMNARARN TGWRIDYFVV SERLKDKLVD AKIHADVLGS 240
  241 DHCPVELELN L

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	60.522879
Match:	1bixA
Description:	THE CRYSTAL STRUCTURE OF THE HUMAN DNA REPAIR ENDONUCLEASE HAP1 SUGGESTS THE RECOGNITION OF EXTRA-HELICAL DEOXYRIBOSE AT DNA ABASIC SITES
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
exonuclease activity	2.70644978530491	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	2.57658637220545	bayes_pls_golite062009
deoxyribonuclease activity	2.54419310609558	bayes_pls_golite062009
hydrolase activity	2.50832753420463	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	2.36841783202726	bayes_pls_golite062009
exodeoxyribonuclease activity	1.8139951607534	bayes_pls_golite062009
exodeoxyribonuclease activity, producing 5'-phosphomonoesters	1.7967853371745	bayes_pls_golite062009
nuclease activity	1.78432551160775	bayes_pls_golite062009
catalytic activity	1.76511376991978	bayes_pls_golite062009
binding	1.74593496417303	bayes_pls_golite062009
DNA binding	0.961734136090079	bayes_pls_golite062009
nucleic acid binding	0.947430734766989	bayes_pls_golite062009
transcription regulator activity	0.597390739522692	bayes_pls_golite062009
transcription coactivator activity	0.58571720340663	bayes_pls_golite062009
protein binding	0.476649214025345	bayes_pls_golite062009
inositol or phosphatidylinositol phosphatase activity	0.228910502815798	bayes_pls_golite062009
phosphoric ester hydrolase activity	0.100365481550461	bayes_pls_golite062009
phosphatase activity	0.00559251346312178	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: