Psyllid ID: psy6130

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-----
MGPKKAAAKVVDKEEKSSKKRKSEVEDSDANTKKTKSGSVENKATGPMNEKLSLNKIDYSCNKKNKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKNEHYGRNCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGCTNYFGP
ccccccccccHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEEHHHHHHHHHccHHHHHHHccccEEEEEccccccccccHHHHccccccEEEEEccccccccEEEEEEEccccEEEccccccccccccEEEEEEccEEEEEEEccccccccccHHHHHHHHHHHHHHHHHHHccccEEEEcccccccccccccccccccccccccHHHHHHHHHHHHccccEEEcccccccccccccccccccccccccccccccccc
ccccccccEEEccccccHcccccccccccccccccccccccccccccccccccccccccccccEcccccEccEEEEEEEcccHHHHHHccHHHHHHHHcccEEEEEccccccccccHHHHcccccHHHHHHHHHcccccEEEEEEEccccEEEEccccccccccEEEEEEcccEEEEEEEcccccHHHccHHHHHHHHHHHHHHHHHHHccccEEEEEEccccccHHHEccHHHHcccccccHHHHHHHHHHHHccccEHHHHHcccccccccEEccHHHHHHHHcccEEEcccc
MGPKKAAAKVVDkeeksskkrksevedsdantkktksgsvenkatgpmneklslnkidyscnkknklgeepnfkiASWNVAGLRACVKKEGLDyikkedadifclqetkchetqlppevkmkfpeyktywlsspkagyagvglytkvkpnkvtyglgtknehygrncnsnIVNTFYIrknvpnagaglKTLDKRLEWDKLFHEHLVkldaekpviligdlnvshkpidlanpttntrsagftieerdsfsslldkgftdsfrhlypkrtgaYTYWSYMSKtarsrntgctnyfgp
mgpkkaaakvvdkeeksskkrksevedsdantkktksgsvenkatgpmneklslnkIDYSCNKKNKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLqetkchetqlppevkmkFPEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYglgtknehygrnCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNvshkpidlanpttntrsagftieERDSFSSLLDKgftdsfrhlypkrtGAYTYWSYmsktarsrntgctnyfgp
MGPkkaaakvvdkeeksskkrksevedsdANTKKTKSGSVENKATGPMNEKLSLNKIDYSCNKKNKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKNEHYGRNCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGCTNYFGP
**********************************************************YSC*******EEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKNEHYGRNCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLAN********GFTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKT**************
*************************************************************************KIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKNEHYGRNCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGCTNYFGP
*****************************************NKATGPMNEKLSLNKIDYSCNKKNKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKNEHYGRNCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGCTNYFGP
***************************************************LSLNKIDYSCNKKNKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKNEHYGRNCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGCTNYFGP
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGPKKAAAKVVDKEEKSSKKRKSEVEDSDANTKKTKSGSVENKATGPMNEKLSLNKIDYSCNKKNKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKNEHYGRNCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGCTNYFGP
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query295 2.2.26 [Sep-21-2011]
P27864679 Recombination repair prot yes N/A 0.718 0.312 0.545 3e-64
A0MTA1310 DNA-(apurinic or apyrimid yes N/A 0.766 0.729 0.521 7e-58
P28352317 DNA-(apurinic or apyrimid yes N/A 0.928 0.864 0.430 2e-51
P43138317 DNA-(apurinic or apyrimid yes N/A 0.928 0.864 0.410 3e-51
P23196318 DNA-(apurinic or apyrimid yes N/A 0.762 0.707 0.473 7e-51
P37454252 Exodeoxyribonuclease OS=B yes N/A 0.732 0.857 0.437 9e-51
P27695318 DNA-(apurinic or apyrimid yes N/A 0.779 0.723 0.459 2e-50
A2T6Y4318 DNA-(apurinic or apyrimid yes N/A 0.779 0.723 0.459 2e-50
A1YFZ3318 DNA-(apurinic or apyrimid N/A N/A 0.779 0.723 0.459 2e-50
A2T7I6318 DNA-(apurinic or apyrimid N/A N/A 0.759 0.704 0.467 2e-50
>sp|P27864|RRP1_DROME Recombination repair protein 1 OS=Drosophila melanogaster GN=Rrp1 PE=1 SV=2 Back     alignment and function desciption
 Score =  245 bits (626), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 120/220 (54%), Positives = 148/220 (67%), Gaps = 8/220 (3%)

Query: 72  NFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWL 131
           N KI SWNVAGLRA +KK+GL  I  E+ DIFCLQETKC   QLP EV  + P Y  YWL
Sbjct: 426 NLKICSWNVAGLRAWLKKDGLQLIDLEEPDIFCLQETKCANDQLPEEV-TRLPGYHPYWL 484

Query: 132 SSPKAGYAGVGLYTKVKPNKVTYGLGTKNEHY---GRNCNSNIVNTFYIRKNVPNAGAGL 188
             P  GYAGV +Y+K+ P  V YG+G  NE +   GR   +     + I   VPN+G  L
Sbjct: 485 CMP-GGYAGVAIYSKIMPIHVEYGIG--NEEFDDVGRMITAEYEKFYLINVYVPNSGRKL 541

Query: 189 KTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEERDS 248
             L+ R+ W+KLF  ++ KLDA KPV++ GD+NVSH PIDL NP  NT++AGFT EERD 
Sbjct: 542 VNLEPRMRWEKLFQAYVKKLDALKPVVICGDMNVSHMPIDLENPKNNTKNAGFTQEERDK 601

Query: 249 FSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTG 288
            + LL  GF D+FRHLYP R GAYT+W+YM+  AR+RN G
Sbjct: 602 MTELLGLGFVDTFRHLYPDRKGAYTFWTYMA-NARARNVG 640
Could promote homologous recombination at sites of DNA damage. Has apurinic endonuclease and double-stranded DNA 3'-exonuclease activities and carries out single-stranded DNA renaturation in a Mg(2+)-dependent manner. Activity is more efficient in purine-rich regions of dsDNA than in pyrimidine-rich regions.
Drosophila melanogaster (taxid: 7227)
EC: 4EC: .EC: 2EC: .EC: 9EC: 9EC: .EC: 1EC: 8
>sp|A0MTA1|APEX1_DANRE DNA-(apurinic or apyrimidinic site) lyase OS=Danio rerio GN=apex1 PE=1 SV=1 Back     alignment and function description
>sp|P28352|APEX1_MOUSE DNA-(apurinic or apyrimidinic site) lyase OS=Mus musculus GN=Apex1 PE=1 SV=2 Back     alignment and function description
>sp|P43138|APEX1_RAT DNA-(apurinic or apyrimidinic site) lyase OS=Rattus norvegicus GN=Apex1 PE=1 SV=2 Back     alignment and function description
>sp|P23196|APEX1_BOVIN DNA-(apurinic or apyrimidinic site) lyase OS=Bos taurus GN=APEX1 PE=1 SV=2 Back     alignment and function description
>sp|P37454|EXOA_BACSU Exodeoxyribonuclease OS=Bacillus subtilis (strain 168) GN=exoA PE=1 SV=1 Back     alignment and function description
>sp|P27695|APEX1_HUMAN DNA-(apurinic or apyrimidinic site) lyase OS=Homo sapiens GN=APEX1 PE=1 SV=2 Back     alignment and function description
>sp|A2T6Y4|APEX1_PANTR DNA-(apurinic or apyrimidinic site) lyase OS=Pan troglodytes GN=APEX1 PE=3 SV=1 Back     alignment and function description
>sp|A1YFZ3|APEX1_PANPA DNA-(apurinic or apyrimidinic site) lyase OS=Pan paniscus GN=APEX1 PE=3 SV=1 Back     alignment and function description
>sp|A2T7I6|APEX1_PONPY DNA-(apurinic or apyrimidinic site) lyase OS=Pongo pygmaeus GN=APEX1 PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query295
328702292317 PREDICTED: recombination repair protein 0.932 0.867 0.477 1e-66
242004144332 Recombination repair protein, putative [ 0.959 0.852 0.472 3e-66
383862977336 PREDICTED: recombination repair protein 0.888 0.779 0.485 8e-65
332024107356 Recombination repair protein 1 [Acromyrm 0.891 0.738 0.477 4e-64
328782712346 PREDICTED: recombination repair protein 0.922 0.786 0.471 8e-64
291222020338 PREDICTED: predicted protein-like [Sacco 0.905 0.789 0.480 1e-63
390176532 648 GA16470, isoform A [Drosophila pseudoobs 0.915 0.416 0.472 2e-63
307212268327 Recombination repair protein 1 [Harpegna 0.922 0.831 0.472 3e-63
221330655 706 recombination repair protein 1, isoform 0.718 0.300 0.545 1e-62
158340 679 recombination repair protein [Drosophila 0.718 0.312 0.545 1e-62
>gi|328702292|ref|XP_001952290.2| PREDICTED: recombination repair protein 1-like [Acyrthosiphon pisum] Back     alignment and taxonomy information
 Score =  259 bits (661), Expect = 1e-66,   Method: Compositional matrix adjust.
 Identities = 140/293 (47%), Positives = 191/293 (65%), Gaps = 18/293 (6%)

Query: 4   KKAAAKVVDKEEKSSKKRKSEVEDSDANTKKTKSGSVENKATGPMNEKLSLNKIDYSCNK 63
           +K  A  +     +SKKR    +  D+ +KK+KS  V+            LN+I++ C K
Sbjct: 7   QKKMADYITATTDNSKKRVRNNDGDDSESKKSKSTQVD------------LNQINFDCEK 54

Query: 64  KNKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKF 123
           K+  G   N KI SWNVAGLRA +KK+ ++Y+KKED DI CLQE KC E Q+P E K+  
Sbjct: 55  KSAKGLTWNLKIISWNVAGLRAWLKKDVVEYLKKEDPDIICLQEIKCTEKQMPDEAKL-- 112

Query: 124 PEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKN--EHYGRNCNSNIVNTFYIRKNV 181
           P YK Y  S  KAGY+GV LY+K KP  V  G   K+  ++ GR   +     F +   +
Sbjct: 113 PGYKIYINSGDKAGYSGVALYSKTKPISVRMGKEIKDLDDNEGRVIEAEYEQFFLVSTYI 172

Query: 182 PNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGF 241
           PNAGAGLKTL KR++WD+ F ++L +LD +KPV+L GDLNV+H+ ID+ANP TNT+SAGF
Sbjct: 173 PNAGAGLKTLPKRMKWDEAFRKYLKELDTKKPVVLTGDLNVAHEEIDIANPKTNTKSAGF 232

Query: 242 TIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGC-TNYF 293
           T EERD+ S LL++GF D+FR L P++TGAYT+W+Y    +R++N G   +YF
Sbjct: 233 TKEERDNMSLLLEQGFVDTFRTLNPEKTGAYTFWTYFH-NSRAKNVGWRLDYF 284

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|242004144|ref|XP_002422991.1| Recombination repair protein, putative [Pediculus humanus corporis] gi|212505907|gb|EEB10253.1| Recombination repair protein, putative [Pediculus humanus corporis] Back     alignment and taxonomy information
>gi|383862977|ref|XP_003706959.1| PREDICTED: recombination repair protein 1-like [Megachile rotundata] Back     alignment and taxonomy information
>gi|332024107|gb|EGI64323.1| Recombination repair protein 1 [Acromyrmex echinatior] Back     alignment and taxonomy information
>gi|328782712|ref|XP_623551.2| PREDICTED: recombination repair protein 1 [Apis mellifera] Back     alignment and taxonomy information
>gi|291222020|ref|XP_002731016.1| PREDICTED: predicted protein-like [Saccoglossus kowalevskii] Back     alignment and taxonomy information
>gi|390176532|ref|XP_001356149.2| GA16470, isoform A [Drosophila pseudoobscura pseudoobscura] gi|388858703|gb|EAL33209.2| GA16470, isoform A [Drosophila pseudoobscura pseudoobscura] Back     alignment and taxonomy information
>gi|307212268|gb|EFN88076.1| Recombination repair protein 1 [Harpegnathos saltator] Back     alignment and taxonomy information
>gi|221330655|ref|NP_001137776.1| recombination repair protein 1, isoform B [Drosophila melanogaster] gi|220901923|gb|ACL82983.1| recombination repair protein 1, isoform B [Drosophila melanogaster] Back     alignment and taxonomy information
>gi|158340|gb|AAA62769.1| recombination repair protein [Drosophila melanogaster] gi|3342457|gb|AAC27621.1| recombination repair protein 1 [Drosophila melanogaster] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query295
FB|FBgn0004584679 Rrp1 "Recombination repair pro 0.735 0.319 0.538 1e-59
ZFIN|ZDB-GENE-040426-2761310 apex1 "APEX nuclease (multifun 0.766 0.729 0.521 1.6e-56
UNIPROTKB|P23196318 APEX1 "DNA-(apurinic or apyrim 0.874 0.811 0.445 4e-51
UNIPROTKB|Q9Z2J2317 APE "Apurinic/apyrimidinic end 0.874 0.813 0.449 8.3e-51
MGI|MGI:88042317 Apex1 "apurinic/apyrimidinic e 0.867 0.807 0.446 1.7e-50
RGD|2126317 Apex1 "APEX nuclease (multifun 0.867 0.807 0.442 2.2e-50
UNIPROTKB|A2T7I6318 APEX1 "DNA-(apurinic or apyrim 0.874 0.811 0.433 2.8e-50
UNIPROTKB|P27695318 APEX1 "DNA-(apurinic or apyrim 0.871 0.808 0.439 4.6e-50
UNIPROTKB|A1YFZ3318 APEX1 "DNA-(apurinic or apyrim 0.871 0.808 0.439 4.6e-50
UNIPROTKB|A2T6Y4318 APEX1 "DNA-(apurinic or apyrim 0.871 0.808 0.439 4.6e-50
FB|FBgn0004584 Rrp1 "Recombination repair protein 1" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 612 (220.5 bits), Expect = 1.0e-59, P = 1.0e-59
 Identities = 119/221 (53%), Positives = 149/221 (67%)

Query:    69 EEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKT 128
             +E N KI SWNVAGLRA +KK+GL  I  E+ DIFCLQETKC   QLP EV  + P Y  
Sbjct:   423 KEFNLKICSWNVAGLRAWLKKDGLQLIDLEEPDIFCLQETKCANDQLPEEVT-RLPGYHP 481

Query:   129 YWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKN-EHYGRNCNSNIVNTFYIRKNVPNAGAG 187
             YWL  P  GYAGV +Y+K+ P  V YG+G +  +  GR   +     + I   VPN+G  
Sbjct:   482 YWLCMP-GGYAGVAIYSKIMPIHVEYGIGNEEFDDVGRMITAEYEKFYLINVYVPNSGRK 540

Query:   188 LKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEERD 247
             L  L+ R+ W+KLF  ++ KLDA KPV++ GD+NVSH PIDL NP  NT++AGFT EERD
Sbjct:   541 LVNLEPRMRWEKLFQAYVKKLDALKPVVICGDMNVSHMPIDLENPKNNTKNAGFTQEERD 600

Query:   248 SFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTG 288
               + LL  GF D+FRHLYP R GAYT+W+YM+  AR+RN G
Sbjct:   601 KMTELLGLGFVDTFRHLYPDRKGAYTFWTYMAN-ARARNVG 640
GO:0006281 "DNA repair" evidence=ISS
GO:0003906 "DNA-(apurinic or apyrimidinic site) lyase activity" evidence=ISS;IDA
GO:0005634 "nucleus" evidence=NAS
GO:0008311 "double-stranded DNA specific 3'-5' exodeoxyribonuclease activity" evidence=NAS
GO:0004519 "endonuclease activity" evidence=IEA
GO:0005622 "intracellular" evidence=IEA
GO:0003677 "DNA binding" evidence=IEA
GO:0008408 "3'-5' exonuclease activity" evidence=IDA
GO:0006974 "response to DNA damage stimulus" evidence=IMP
ZFIN|ZDB-GENE-040426-2761 apex1 "APEX nuclease (multifunctional DNA repair enzyme) 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|P23196 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q9Z2J2 APE "Apurinic/apyrimidinic endonuclease" [Cricetulus griseus (taxid:10029)] Back     alignment and assigned GO terms
MGI|MGI:88042 Apex1 "apurinic/apyrimidinic endonuclease 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|2126 Apex1 "APEX nuclease (multifunctional DNA repair enzyme) 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|A2T7I6 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Pongo pygmaeus (taxid:9600)] Back     alignment and assigned GO terms
UNIPROTKB|P27695 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|A1YFZ3 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Pan paniscus (taxid:9597)] Back     alignment and assigned GO terms
UNIPROTKB|A2T6Y4 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Pan troglodytes (taxid:9598)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
P0A2X4EXOA_STRR63, ., 1, ., 1, 1, ., 20.39830.73220.7854yesN/A
P0A2X3EXOA_STRPN3, ., 1, ., 1, 1, ., 20.39830.73220.7854yesN/A
P27864RRP1_DROME4, ., 2, ., 9, 9, ., 1, 80.54540.71860.3122yesN/A
A0MTA1APEX1_DANRE4, ., 2, ., 9, 9, ., 1, 80.52130.76610.7290yesN/A
A2T6Y4APEX1_PANTR4, ., 2, ., 9, 9, ., 1, 80.45990.77960.7232yesN/A
P37454EXOA_BACSU3, ., 1, ., 1, 1, ., 20.43750.73220.8571yesN/A
P51173APEA_DICDI4, ., 2, ., 9, 9, ., 1, 80.44970.75250.6149yesN/A
P43138APEX1_RAT4, ., 2, ., 9, 9, ., 1, 80.41010.92880.8643yesN/A
P28352APEX1_MOUSE4, ., 2, ., 9, 9, ., 1, 80.43050.92880.8643yesN/A
P23196APEX1_BOVIN4, ., 2, ., 9, 9, ., 1, 80.47390.76270.7075yesN/A
P27695APEX1_HUMAN4, ., 2, ., 9, 9, ., 1, 80.45990.77960.7232yesN/A

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer4.2.990.921
4th Layer4.2.99.180.914

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query295
cd09087253 cd09087, Ape1-like_AP-endo, Human Ape1-like subfam 1e-106
TIGR00633255 TIGR00633, xth, exodeoxyribonuclease III (xth) 1e-86
cd09073251 cd09073, ExoIII_AP-endo, Escherichia coli exonucle 3e-73
COG0708261 COG0708, XthA, Exonuclease III [DNA replication, r 3e-69
cd09085252 cd09085, Mth212-like_AP-endo, Methanothermobacter 1e-65
TIGR00195254 TIGR00195, exoDNase_III, exodeoxyribonuclease III 1e-60
PRK13911250 PRK13911, PRK13911, exodeoxyribonuclease III; Prov 1e-54
cd10281253 cd10281, Nape_like_AP-endo, Neisseria meningitides 5e-51
cd09086254 cd09086, ExoIII-like_AP-endo, Escherichia coli exo 5e-41
cd09088309 cd09088, Ape2-like_AP-endo, Human Ape2-like subfam 5e-27
cd08372241 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase 2e-17
PRK11756268 PRK11756, PRK11756, exonuclease III; Provisional 6e-17
cd09076236 cd09076, L1-EN, Endonuclease domain (L1-EN) of the 1e-11
pfam03372143 pfam03372, Exo_endo_phos, Endonuclease/Exonuclease 2e-06
cd09084246 cd09084, EEP-2, Exonuclease-Endonuclease-Phosphata 7e-06
cd09080248 cd09080, TDP2, Phosphodiesterase domain of human T 0.004
>gnl|CDD|197321 cd09087, Ape1-like_AP-endo, Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information 
 Score =  309 bits (794), Expect = e-106
 Identities = 118/222 (53%), Positives = 149/222 (67%), Gaps = 12/222 (5%)

Query: 73  FKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLS 132
            KI SWNV GLRA +KK  LDY+KKED DI CLQETK  E  +P E+K     Y  YW +
Sbjct: 1   LKIISWNVNGLRALLKKGLLDYVKKEDPDILCLQETKLQEGDVPKELKELLKGYHQYWNA 60

Query: 133 SPKAGYAGVGLYTKVKPNKVTYGLGTKNEHY-GRNC-----NSNIVNTFYIRKNVPNAGA 186
           + K GY+G  + +K KP  VTYG+G +     GR       N  +VNT+     VPN+G 
Sbjct: 61  AEKKGYSGTAILSKKKPLSVTYGIGIEEHDQEGRVITAEFENFYLVNTY-----VPNSGR 115

Query: 187 GLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEER 246
           GL+ LD+R EWD  F  +L KLD++KPVI  GDLNV+H+ IDLANP TN +SAGFT EER
Sbjct: 116 GLERLDRRKEWDVDFRAYLKKLDSKKPVIWCGDLNVAHEEIDLANPKTNKKSAGFTPEER 175

Query: 247 DSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTG 288
           +SF+ LL+ GF D+FRHL+P + GAYT+WSY    AR++N G
Sbjct: 176 ESFTELLEAGFVDTFRHLHPDKEGAYTFWSYRGN-ARAKNVG 216

This subfamily includes human Ape1 (also known as Apex, Hap1, or Ref-1) and related proteins. These are Escherichia coli exonuclease III (ExoIII)-like AP endonucleases and they belong to the large EEP (exonuclease/endonuclease/phosphatase) superfamily that contains functionally diverse enzymes that share a common catalytic mechanism of cleaving phosphodiester bonds. AP endonucleases participate in the DNA base excision repair (BER) pathway. AP sites are one of the most common lesions in cellular DNA. During BER, the damaged DNA is first recognized by DNA glycosylase. AP endonucleases then catalyze the hydrolytic cleavage of the phosphodiester bond 5' to the AP site, and this is followed by the coordinated actions of DNA polymerase, deoxyribose phosphatase, and DNA ligase. If left unrepaired, AP sites block DNA replication, and have both mutagenic and cytotoxic effects. AP endonucleases can carry out a variety of excision and incision reactions on DNA, including 3'-5' exonuclease, 3'-deoxyribose phosphodiesterase, 3'-phosphatase, and occasionally, nonspecific DNase activities. Different AP endonuclease enzymes catalyze the different reactions with different efficiences. Many organisms have two AP endonucleases, usually one is the dominant AP endonuclease, the other has weak AP endonuclease activity; for example, Ape1 and Ape2 in humans. Ape1 is found in this subfamily, it exhibits strong AP-endonuclease activity but shows weak 3'-5' exonuclease and 3'-phosphodiesterase activities. Class II AP endonucleases have been classified into two families, designated ExoIII and EndoIV, based on their homology to the Escherichia coli enzymes exonuclease III (ExoIII) and endonuclease IV (EndoIV). This subfamily belongs to the ExoIII family; the EndoIV family belongs to a different superfamily. Length = 253
>gnl|CDD|233064 TIGR00633, xth, exodeoxyribonuclease III (xth) Back     alignment and domain information
>gnl|CDD|197307 cd09073, ExoIII_AP-endo, Escherichia coli exonuclease III (ExoIII)-like apurinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|223780 COG0708, XthA, Exonuclease III [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|197319 cd09085, Mth212-like_AP-endo, Methanothermobacter thermautotrophicus Mth212-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|188032 TIGR00195, exoDNase_III, exodeoxyribonuclease III Back     alignment and domain information
>gnl|CDD|139971 PRK13911, PRK13911, exodeoxyribonuclease III; Provisional Back     alignment and domain information
>gnl|CDD|197336 cd10281, Nape_like_AP-endo, Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|197320 cd09086, ExoIII-like_AP-endo, Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|197322 cd09088, Ape2-like_AP-endo, Human Ape2-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|197306 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily Back     alignment and domain information
>gnl|CDD|236970 PRK11756, PRK11756, exonuclease III; Provisional Back     alignment and domain information
>gnl|CDD|197310 cd09076, L1-EN, Endonuclease domain (L1-EN) of the non-LTR retrotransposon LINE-1 (L1), and related domains Back     alignment and domain information
>gnl|CDD|217520 pfam03372, Exo_endo_phos, Endonuclease/Exonuclease/phosphatase family Back     alignment and domain information
>gnl|CDD|197318 cd09084, EEP-2, Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2 Back     alignment and domain information
>gnl|CDD|197314 cd09080, TDP2, Phosphodiesterase domain of human TDP2, a 5'-tyrosyl DNA phosphodiesterase, and related domains Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 295
COG0708261 XthA Exonuclease III [DNA replication, recombinati 100.0
PRK13911250 exodeoxyribonuclease III; Provisional 100.0
PRK11756268 exonuclease III; Provisional 100.0
TIGR00195254 exoDNase_III exodeoxyribonuclease III. The model b 100.0
TIGR00633255 xth exodeoxyribonuclease III (xth). This family is 100.0
KOG1294|consensus335 99.93
PRK05421263 hypothetical protein; Provisional 99.82
TIGR03395283 sphingomy sphingomyelin phosphodiesterase. Members 99.73
PF03372249 Exo_endo_phos: Endonuclease/Exonuclease/phosphatas 99.66
KOG2756|consensus349 99.65
COG3568259 ElsH Metal-dependent hydrolase [General function p 99.62
PLN03144606 Carbon catabolite repressor protein 4 homolog; Pro 99.59
PTZ00297 1452 pantothenate kinase; Provisional 99.58
KOG2338|consensus 495 99.57
KOG3873|consensus 422 99.56
PRK15251271 cytolethal distending toxin subunit CdtB; Provisio 99.51
smart00476276 DNaseIc deoxyribonuclease I. Deoxyribonuclease I c 99.2
COG3021309 Uncharacterized protein conserved in bacteria [Fun 99.03
PF14529119 Exo_endo_phos_2: Endonuclease-reverse transcriptas 98.82
COG5239378 CCR4 mRNA deadenylase, exonuclease subunit and rel 98.78
smart00128310 IPPc Inositol polyphosphate phosphatase, catalytic 98.74
KOG0620|consensus361 97.97
KOG0566|consensus 1080 97.3
COG2374798 Predicted extracellular nuclease [General function 97.2
PTZ00312 356 inositol-1,4,5-triphosphate 5-phosphatase; Provisi 86.98
PLN03191621 Type I inositol-1,4,5-trisphosphate 5-phosphatase 86.44
KOG1294|consensus 335 85.32
PLN03191 621 Type I inositol-1,4,5-trisphosphate 5-phosphatase 84.91
KOG1976|consensus391 80.35
>COG0708 XthA Exonuclease III [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=1.5e-54  Score=372.37  Aligned_cols=217  Identities=38%  Similarity=0.647  Sum_probs=197.8

Q ss_pred             eEEEEEecCCcchhhhhhHHHHHhhcCCcEEEEcccCCCCCCCChhhhhcCCCCeEEEecCCCCCcceEEEEEeccCceE
Q psy6130          73 FKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSPKAGYAGVGLYTKVKPNKV  152 (295)
Q Consensus        73 lkI~TwNv~g~~~~~~~~~~~~i~~~~pDIi~LQE~~~~~~~~~~~~~~~~~gy~~~~~~~~~~g~~Gvailsk~~~~~~  152 (295)
                      |||+||||+|++++..+ ++++|.+++|||||||||++...+++..... ..||+.++.. +++||+||||+||.++..+
T Consensus         1 mkI~SwNVNgiRar~~~-~~~~l~~~~pDVlclQEtK~~~~~fp~~~~~-~~GY~~~~~~-gqKgysGVailsr~~~~~v   77 (261)
T COG0708           1 MKIASWNVNGLRARLKK-LLDWLEEEQPDVLCLQETKAQDEQFPREELE-ALGYHHVFNH-GQKGYSGVAILSKKPPDDV   77 (261)
T ss_pred             CeeEEEehhhHHHHHHH-HHHHHHHhCCCEEEEEecccCcccCCHhHHh-hCCceEEEec-CcCCcceEEEEEccCchhh
Confidence            79999999999999875 9999999999999999999999999988776 7899544443 6699999999999988888


Q ss_pred             EecCCCCC-C-CCcceEEEEeCCEEEEEEecCCCCC-CcccHHHHHHHHHHHHHHHHhhc-CCCCEEEEccCCCCCCCCC
Q psy6130         153 TYGLGTKN-E-HYGRNCNSNIVNTFYIRKNVPNAGA-GLKTLDKRLEWDKLFHEHLVKLD-AEKPVILIGDLNVSHKPID  228 (295)
Q Consensus       153 ~~~~~~~~-~-~~~r~i~~~~~~~~l~~vy~p~~~~-~~~~~~~r~~~~~~l~~~l~~l~-~~~pvIl~GDFN~~~~~~D  228 (295)
                      ..+++... + .++|+|.+++..++|+|+|+|++.. +.+++++++.|++.|..++..+. .+.|+|||||||+.|.++|
T Consensus        78 ~~g~~~~~~~d~e~R~I~a~~~~~~v~~~Y~PnG~~~~~~k~~yKl~f~~~l~~~l~~l~~~~~~~vl~GD~NIap~~iD  157 (261)
T COG0708          78 RRGFPGEEEDDEEGRVIEAEFDGFRVINLYFPNGSSIGLEKFDYKLRFLDALRNYLEELLKKGKPVVLCGDFNIAPEEID  157 (261)
T ss_pred             hcCCCCCccccccCcEEEEEECCEEEEEEEcCCCCCCCCcchHHHHHHHHHHHHHHHHHhhcCCCEEEecccccCCchhc
Confidence            88887732 3 7899999999999999999999998 78899999999999999998874 4699999999999999999


Q ss_pred             CCCCC---CCCCCCCCCHHHHHHHHHHHhCCceeeecccCCCCCCcccccCCCCCCCccCCCccc-cccC
Q psy6130         229 LANPT---TNTRSAGFTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGCT-NYFG  294 (295)
Q Consensus       229 ~~~~~---~~~~~~~~~~~e~~~~~~ll~~gl~D~~r~~~p~~~~~yT~~s~~~~~~~~~~~~~R-Dy~~  294 (295)
                      +.+|+   .|.+.++|+++||++|+.|+++||+|+||.++|+... ||||+|+. +++..|.||| |||+
T Consensus       158 v~~~~~~~~n~~~~~f~~eeR~~~~~ll~~G~~D~~R~~~p~~~~-YTwW~YR~-~~~~~n~G~RID~~l  225 (261)
T COG0708         158 VANPKKRWLNEGNSGFLPEERAWFRRLLNAGFVDTFRLFHPEPEK-YTWWDYRA-NAARRNRGWRIDYIL  225 (261)
T ss_pred             ccCchhhhhcCCCCCCCHHHHHHHHHHHHcchhhhhHhhCCCCCc-cccccccc-chhhhcCceeEEEEE
Confidence            99997   7899999999999999999999999999999999884 99999999 9888889999 9986

>PRK13911 exodeoxyribonuclease III; Provisional Back     alignment and domain information
>PRK11756 exonuclease III; Provisional Back     alignment and domain information
>TIGR00195 exoDNase_III exodeoxyribonuclease III Back     alignment and domain information
>TIGR00633 xth exodeoxyribonuclease III (xth) Back     alignment and domain information
>KOG1294|consensus Back     alignment and domain information
>PRK05421 hypothetical protein; Provisional Back     alignment and domain information
>TIGR03395 sphingomy sphingomyelin phosphodiesterase Back     alignment and domain information
>PF03372 Exo_endo_phos: Endonuclease/Exonuclease/phosphatase family Subset of Pfam family Subset of Pfam family; InterPro: IPR005135 This domain is found in a large number of proteins including magnesium dependent endonucleases and phosphatases involved in intracellular signalling [] Back     alignment and domain information
>KOG2756|consensus Back     alignment and domain information
>COG3568 ElsH Metal-dependent hydrolase [General function prediction only] Back     alignment and domain information
>PLN03144 Carbon catabolite repressor protein 4 homolog; Provisional Back     alignment and domain information
>PTZ00297 pantothenate kinase; Provisional Back     alignment and domain information
>KOG2338|consensus Back     alignment and domain information
>KOG3873|consensus Back     alignment and domain information
>PRK15251 cytolethal distending toxin subunit CdtB; Provisional Back     alignment and domain information
>smart00476 DNaseIc deoxyribonuclease I Back     alignment and domain information
>COG3021 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>PF14529 Exo_endo_phos_2: Endonuclease-reverse transcriptase ; PDB: 2EI9_A 1WDU_B Back     alignment and domain information
>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification] Back     alignment and domain information
>smart00128 IPPc Inositol polyphosphate phosphatase, catalytic domain homologues Back     alignment and domain information
>KOG0620|consensus Back     alignment and domain information
>KOG0566|consensus Back     alignment and domain information
>COG2374 Predicted extracellular nuclease [General function prediction only] Back     alignment and domain information
>PTZ00312 inositol-1,4,5-triphosphate 5-phosphatase; Provisional Back     alignment and domain information
>PLN03191 Type I inositol-1,4,5-trisphosphate 5-phosphatase 2; Provisional Back     alignment and domain information
>KOG1294|consensus Back     alignment and domain information
>PLN03191 Type I inositol-1,4,5-trisphosphate 5-phosphatase 2; Provisional Back     alignment and domain information
>KOG1976|consensus Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query295
2o3c_A282 Crystal Structure Of Zebrafish Ape Length = 282 1e-58
2o3h_A285 Crystal Structure Of The Human C65a Ape Length = 28 1e-51
1e9n_A318 A Second Divalent Metal Ion In The Active Site Of A 3e-51
1bix_A287 The Crystal Structure Of The Human Dna Repair Endon 4e-51
1de8_B276 Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bo 4e-51
2isi_A317 Crystal Structure Of Ape1 From Homo Sapiens In A Ne 4e-51
1dew_A279 Crystal Structure Of Human Ape1 Bound To Abasic Dna 4e-51
3g91_A265 1.2 Angstrom Structure Of The Exonuclease Iii Homol 9e-31
3fzi_A265 1.9 Angstrom Structure Of The Thermophilic Exonucle 2e-30
3g00_A265 Mth0212 In Complex With A 9bp Blunt End Dsdna At 1. 8e-30
2jc5_A259 Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From 3e-24
4b5h_A259 Substate Bound Inactive Mutant Of Neisseria Ap Endo 4e-23
2voa_A257 Structure Of An Ap Endonuclease From Archaeoglobus 4e-16
4f1r_A293 Structure Analysis Of The Global Metabolic Regulato 9e-14
1ako_A268 Exonuclease Iii From Escherichia Coli Length = 268 2e-13
2j63_A467 Crystal Structure Of Ap Endonuclease Lmap From Leis 2e-10
2jc4_A256 3'-5' Exonuclease (Nexo) From Neisseria Meningitidi 1e-08
1vyb_A238 Endonuclease Domain Of Human Line1 Orf2p Length = 2 3e-05
2v0r_A240 Crystal Structure Of A Hairpin Exchange Variant (Lt 5e-05
2v0s_A236 Crystal Structure Of A Hairpin Exchange Variant (Lr 1e-04
>pdb|2O3C|A Chain A, Crystal Structure Of Zebrafish Ape Length = 282 Back     alignment and structure 
Iteration: 1

 Score =  223 bits (568), Expect = 1e-58,   Method: Compositional matrix adjust.
 Identities = 122/234 (52%), Positives = 150/234 (64%), Gaps = 8/234 (3%)
Query: 65  NKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFP 124
           +K G   N KI SWNV GLRA VKK GLD+++KED DI CLQETKC E  LP ++    P
Sbjct: 19  SKDGRAANMKITSWNVDGLRAWVKKNGLDWVRKEDPDILCLQETKCAEKALPADIT-AMP 77
Query: 125 EY-KTYWLSSP-KAGYAGVGLYTKVKPNKVTYGLGTKNEH--YGRNCNSNIVNTFYIRKN 180
           EY   YW  S  K GY+GV +  K +P  VTYG+G K EH   GR   +   + F +   
Sbjct: 78  EYPHKYWAGSEDKEGYSGVAMLCKTEPLNVTYGIG-KEEHDKEGRVITAEFPDFFLVTAY 136
Query: 181 VPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAG 240
           VPNA  GL  LD R  WD  F  +L  LDA KP++L GDLNV+H+ IDL NP  N ++AG
Sbjct: 137 VPNASRGLVRLDYRKTWDVDFRAYLCGLDARKPLVLCGDLNVAHQEIDLKNPKGNRKNAG 196
Query: 241 FTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGC-TNYF 293
           FT EER+ F+ LL+ GFTDSFR LYP +  AYT+W+YM   ARS+N G   +YF
Sbjct: 197 FTPEEREGFTQLLEAGFTDSFRELYPDQAYAYTFWTYM-MNARSKNVGWRLDYF 249
>pdb|2O3H|A Chain A, Crystal Structure Of The Human C65a Ape Length = 285 Back     alignment and structure
>pdb|1E9N|A Chain A, A Second Divalent Metal Ion In The Active Site Of A New Crystal Form Of Human ApurinicAPYRIMIDINIC ENDONUCLEASE, Ape1, And Its Implications For The Catalytic Mechanism Length = 318 Back     alignment and structure
>pdb|1BIX|A Chain A, The Crystal Structure Of The Human Dna Repair Endonuclease Hap1 Suggests The Recognition Of Extra-Helical Deoxyribose At Dna Abasic Sites Length = 287 Back     alignment and structure
>pdb|1DE8|B Chain B, Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bound To Abasic Dna Length = 276 Back     alignment and structure
>pdb|2ISI|A Chain A, Crystal Structure Of Ape1 From Homo Sapiens In A New Crystal Form Complexed With A Ligand Length = 317 Back     alignment and structure
>pdb|1DEW|A Chain A, Crystal Structure Of Human Ape1 Bound To Abasic Dna Length = 279 Back     alignment and structure
>pdb|3G91|A Chain A, 1.2 Angstrom Structure Of The Exonuclease Iii Homologue Mth0212 Length = 265 Back     alignment and structure
>pdb|3FZI|A Chain A, 1.9 Angstrom Structure Of The Thermophilic Exonuclease Iii Homologue Mth0212 Length = 265 Back     alignment and structure
>pdb|3G00|A Chain A, Mth0212 In Complex With A 9bp Blunt End Dsdna At 1.7 Angstrom Length = 265 Back     alignment and structure
>pdb|2JC5|A Chain A, Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From Neisseria Meningitidis Length = 259 Back     alignment and structure
>pdb|4B5H|A Chain A, Substate Bound Inactive Mutant Of Neisseria Ap Endonuclease In Presence Of Metal Ions Length = 259 Back     alignment and structure
>pdb|2VOA|A Chain A, Structure Of An Ap Endonuclease From Archaeoglobus Fulgidus Length = 257 Back     alignment and structure
>pdb|4F1R|A Chain A, Structure Analysis Of The Global Metabolic Regulator Crc From Pseudomonas Aeruginos Length = 293 Back     alignment and structure
>pdb|1AKO|A Chain A, Exonuclease Iii From Escherichia Coli Length = 268 Back     alignment and structure
>pdb|2J63|A Chain A, Crystal Structure Of Ap Endonuclease Lmap From Leishmania Major Length = 467 Back     alignment and structure
>pdb|2JC4|A Chain A, 3'-5' Exonuclease (Nexo) From Neisseria Meningitidis Length = 256 Back     alignment and structure
>pdb|1VYB|A Chain A, Endonuclease Domain Of Human Line1 Orf2p Length = 238 Back     alignment and structure
>pdb|2V0R|A Chain A, Crystal Structure Of A Hairpin Exchange Variant (Ltx) Of The Targeting Line-1 Retrotransposon Endonuclease Length = 240 Back     alignment and structure
>pdb|2V0S|A Chain A, Crystal Structure Of A Hairpin Exchange Variant (Lr1) Of The Targeting Line-1 Retrotransposon Endonuclease Length = 236 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query295
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 1e-102
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 1e-100
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 1e-95
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 5e-90
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 5e-76
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 1e-67
1ako_A268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 1e-48
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 1e-40
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 6e-38
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 7e-21
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 7e-11
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 4e-07
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 7e-06
3mpr_A298 Putative endonuclease/exonuclease/phosphatase FAM 3e-05
3i41_A317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 5e-05
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 6e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
2ddr_A306 Sphingomyelin phosphodiesterase; DNAse I like fold 2e-04
1zwx_A301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 2e-04
>1hd7_A DNA-(apurinic or apyrimidinic site) lyase; DNA repair, endonuclease, APE1, HAP1, REF-1; 1.95A {Homo sapiens} SCOP: d.151.1.1 PDB: 1e9n_A 3u8u_A 2isi_A Length = 318 Back     alignment and structure
 Score =  300 bits (770), Expect = e-102
 Identities = 113/282 (40%), Positives = 152/282 (53%), Gaps = 15/282 (5%)

Query: 16  KSSKKRKSEVEDSDANTKKTKSGSVENKATGPMNEKL-SLNKIDYSCNKKNKLGEEPNFK 74
           +  K   +E  D      + K      K               D    K +  G+    K
Sbjct: 4   RGKKGAVAEDGDELRTEPEAKKSKTAAKKNDKEAAGEGPALYEDPPDQKTSPSGKPATLK 63

Query: 75  IASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSP 134
           I SWNV GLRA +KK+GLD++K+E  DI CLQETKC E +LP E++        YW +  
Sbjct: 64  ICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSAPS 123

Query: 135 -KAGYAGVGLYTKVKPNKVTYGLGTK-NEHYGRNC-----NSNIVNTFYIRKNVPNAGAG 187
            K GY+GVGL ++  P KV+YG+G + ++  GR       +  +V  +     VPNAG G
Sbjct: 124 DKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAY-----VPNAGRG 178

Query: 188 LKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSAGFTIEERD 247
           L  L+ R  WD+ F + L  L + KP++L GDLNV+H+ IDL NP  N ++AGFT +ER 
Sbjct: 179 LVRLEYRQRWDEAFRKFLKGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQ 238

Query: 248 SFSSLLDK-GFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTG 288
            F  LL      DSFRHLYP    AYT+W+YM   ARS+N G
Sbjct: 239 GFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMN-ARSKNVG 279
>2o3h_A DNA-(apurinic or apyrimidinic site) lyase; APE, endonuclease; 1.90A {Homo sapiens} PDB: 1bix_A 1dew_A* 1de8_B* 1de9_A* 2o3c_A Length = 285 Back     alignment and structure
>3g91_A MTH0212, exodeoxyribonuclease; double-strand specific 3'-5' exonuclease, AP endonuclease; HET: PG4; 1.23A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3fzi_A 3g0a_A 3g1k_A 3g2c_A 3g3c_A* 3g3y_A* 3g4t_A* 3g00_A 3g0r_A* 3g2d_A* 3g38_A 3g8v_A* 3ga6_A Length = 265 Back     alignment and structure
>2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis} Length = 259 Back     alignment and structure
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} Length = 467 Back     alignment and structure
>1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease, APE-1 type, retrotransposition, retrotransposon, transferase; 1.8A {Homo sapiens} SCOP: d.151.1.1 PDB: 2v0s_A 2v0r_A Length = 238 Back     alignment and structure
>1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1 Length = 268 Back     alignment and structure
>2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus} Length = 257 Back     alignment and structure
>2jc4_A Exodeoxyribonuclease III; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: 1PE; 1.90A {Neisseria meningitidis} Length = 256 Back     alignment and structure
>1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein; 2.40A {Bombyx mori} SCOP: d.151.1.1 Length = 245 Back     alignment and structure
>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-b} Length = 266 Back     alignment and structure
>3g6s_A Putative endonuclease/exonuclease/phosphatase family protein; alpha-beta protein, structural genomics, PSI-2; 2.50A {Bacteroides vulgatus atcc 8482} Length = 267 Back     alignment and structure
>2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha beta sandwich, gene regulation; 2.00A {Bombyx mori} Length = 240 Back     alignment and structure
>3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron} Length = 298 Back     alignment and structure
>3i41_A Beta-hemolysin; beta toxin, sphingomyelinase, toxin; 1.75A {Staphylococcus aureus} PDB: 3i46_A 3i48_A 3i5v_A* 3k55_A Length = 317 Back     alignment and structure
>3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis} Length = 257 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.40A {Bacillus cereus} SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X Length = 306 Back     alignment and structure
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 Length = 301 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query295
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 100.0
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 100.0
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 100.0
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 100.0
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 100.0
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 100.0
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 100.0
1ako_A268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 100.0
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 99.97
4gew_A362 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.95
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 99.95
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 99.94
4fva_A256 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.93
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 99.91
4gz1_A256 Tyrosyl-DNA phosphodiesterase 2; protein-DNA compl 99.9
4f1h_A250 Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA com 99.9
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 99.89
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 99.89
1zwx_A301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 99.87
3mpr_A298 Putative endonuclease/exonuclease/phosphatase FAM 99.86
3i41_A317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 99.83
2ddr_A306 Sphingomyelin phosphodiesterase; DNAse I like fold 99.83
3ngq_A398 CCR4-NOT transcription complex subunit 6-like; alp 99.64
2f1n_A262 CDT B, cytolethal distending toxin subunit B; E.co 99.62
1sr4_B261 CDT B, cytolethal distending toxin protein B; bact 99.58
2a40_B260 Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse 99.48
4b8c_D727 Glucose-repressible alcohol dehydrogenase transcr 99.47
1i9z_A347 Synaptojanin, phosphatidylinositol phosphate phosp 99.05
2imq_X282 Salivary nitrophorin; ferrous heme, beta-sandwich, 99.02
2xsw_A357 72 kDa inositol polyphosphate 5-phosphatase; inosi 98.82
3mtc_A313 Type II inositol-1,4,5-trisphosphate 5-phosphatas; 98.61
4a9c_A316 Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; 98.24
>3g91_A MTH0212, exodeoxyribonuclease; double-strand specific 3'-5' exonuclease, AP endonuclease; HET: PG4; 1.23A {Methanothermobacter thermautotrophicusorganism_taxid} PDB: 3fzi_A 3g0a_A 3g1k_A 3g2c_A 3g3c_A* 3g3y_A* 3g4t_A* 3g00_A 3g0r_A* 3g2d_A* 3g38_A 3g8v_A* 3ga6_A Back     alignment and structure
Probab=100.00  E-value=1.2e-42  Score=305.39  Aligned_cols=220  Identities=35%  Similarity=0.632  Sum_probs=191.2

Q ss_pred             ceEEEEEecCCcchhhhhhHHHHHhhcCCcEEEEcccCCCCCCCChhhhhcCCCCeEEEecCCCCCcceEEEEEeccCce
Q psy6130          72 NFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEYKTYWLSSPKAGYAGVGLYTKVKPNK  151 (295)
Q Consensus        72 ~lkI~TwNv~g~~~~~~~~~~~~i~~~~pDIi~LQE~~~~~~~~~~~~~~~~~gy~~~~~~~~~~g~~Gvailsk~~~~~  151 (295)
                      .|+|+||||+|++...++.++++|++++|||||||||+.....+...+.. ..||..++......++.|||||||.++..
T Consensus         3 ~l~i~s~Nv~g~~~~~~~~l~~~i~~~~~DIv~LQEt~~~~~~~~~~~~~-~~gy~~~~~~~~~~~~~Gvail~k~~~~~   81 (265)
T 3g91_A            3 VLKIISWNVNGLRAVHRKGFLKWFMEEKPDILCLQEIKAAPEQLPRKLRH-VEGYRSFFTPAERKGYSGVAMYTKVPPSS   81 (265)
T ss_dssp             EEEEEEEECSCHHHHHHHTHHHHHHHHCCSEEEEECCCSCGGGSCHHHHC-CTTCEEEEECBSSTTSCCEEEEESSCCSE
T ss_pred             ccEEEEEEcCCchhhhhhhHHHHHHhcCCCEEEEEeccccccccChhhhc-ccCCcEEEccCCCCCcCEEEEEEecChHH
Confidence            59999999999998776568999999999999999999877666655443 57997777654556778999999999887


Q ss_pred             EEecCCCCCC-CCcceEEEEeCCEEEEEEecCCCCCCcccHHHHHHHHHHHHHHHHhhc-CCCCEEEEccCCCCCCCCCC
Q psy6130         152 VTYGLGTKNE-HYGRNCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLD-AEKPVILIGDLNVSHKPIDL  229 (295)
Q Consensus       152 ~~~~~~~~~~-~~~r~i~~~~~~~~l~~vy~p~~~~~~~~~~~r~~~~~~l~~~l~~l~-~~~pvIl~GDFN~~~~~~D~  229 (295)
                      +...+..... .++|++.+++..+.|+++|+|+......++++|..|++.|..++..+. .+.|+|||||||+.+.++|.
T Consensus        82 ~~~~~~~~~~d~~gr~i~~~~~~~~i~~vy~p~~~~~~~~~~~r~~~~~~l~~~~~~~~~~~~~~ii~GDfN~~~~~~d~  161 (265)
T 3g91_A           82 LREGFGVERFDTEGRIQIADFDDFLLYNIYFPNGAMSEERLKYKLEFYDAFLEDVNRERDSGRNVIICGDFNTAHREIDL  161 (265)
T ss_dssp             EECCCSCHHHHSBSCEEEEECSSCEEEEEECCCCTTCHHHHHHHHHHHHHHHHHHHHHHHTTCCEEEEEECCCCCSGGGB
T ss_pred             hccCCCCcccCCcCCEEEEEeCCEEEEEEEecCCCCCchhHHHHHHHHHHHHHHHHHHHcCCCCEEEECccccCCchhhc
Confidence            7765543222 689999999999999999999988776788899999999999988874 37999999999999999999


Q ss_pred             CCCCCCCCCCCCCHHHHHHHHHHHhCCceeeecccCCCCCCcccccCCCCCCCccCCCccc-cccC
Q psy6130         230 ANPTTNTRSAGFTIEERDSFSSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGCT-NYFG  294 (295)
Q Consensus       230 ~~~~~~~~~~~~~~~e~~~~~~ll~~gl~D~~r~~~p~~~~~yT~~s~~~~~~~~~~~~~R-Dy~~  294 (295)
                      .++..+.+.+++++.|++.|..|++.||+|+||.++|... .||||++++ ++++++.||| |||+
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~l~~~gl~D~~r~~~p~~~-~yT~~~~~~-~~~~~~~~~rID~il  225 (265)
T 3g91_A          162 ARPKENSNVSGFLPVERAWIDKFIENGYVDTFRMFNSDPG-QYTWWSYRT-RARERNVGWRLDYFF  225 (265)
T ss_dssp             SCTGGGTTSTTSCHHHHHHHHHHHHTTEEETHHHHCCCSC-CCSBCCSST-TTTTTTCCBCCEEEE
T ss_pred             cCHhhcCCCCccCHHHHHHHHHHHhcCcEEeeHhhCCCCC-CCCCcCCCC-CccccCceEEEEEEE
Confidence            9988888899999999999999998899999999999987 799999999 9999999999 9985
>1hd7_A DNA-(apurinic or apyrimidinic site) lyase; DNA repair, endonuclease, APE1, HAP1, REF-1; 1.95A {Homo sapiens} SCOP: d.151.1.1 PDB: 1e9n_A 3u8u_A 2isi_A Back     alignment and structure
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} Back     alignment and structure
>2o3h_A DNA-(apurinic or apyrimidinic site) lyase; APE, endonuclease; 1.90A {Homo sapiens} PDB: 1bix_A 1dew_A* 1de8_B* 1de9_A* 2o3c_A Back     alignment and structure
>2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus} Back     alignment and structure
>2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis} Back     alignment and structure
>2jc4_A Exodeoxyribonuclease III; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: 1PE; 1.90A {Neisseria meningitidis} Back     alignment and structure
>1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1 Back     alignment and structure
>1vyb_A ORF2 contains A reverse transcriptase domain; endonuclease, APE-1 type, retrotransposition, retrotransposon, transferase; 1.8A {Homo sapiens} SCOP: d.151.1.1 PDB: 2v0s_A 2v0r_A Back     alignment and structure
>4gew_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; 2.35A {Caenorhabditis elegans} PDB: 4f1i_A Back     alignment and structure
>2ei9_A Non-LTR retrotransposon R1BMKS ORF2 protein; four layered alpha beta sandwich, gene regulation; 2.00A {Bombyx mori} Back     alignment and structure
>1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein; 2.40A {Bombyx mori} SCOP: d.151.1.1 Back     alignment and structure
>4fva_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; HET: EDO; 2.07A {Caenorhabditis elegans} Back     alignment and structure
>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-b} Back     alignment and structure
>4gz1_A Tyrosyl-DNA phosphodiesterase 2; protein-DNA complex, DNA repair, 5'-DNA END processing, endonuclease/exonuclease/phosphatase domain; HET: DNA EPE; 1.50A {Mus musculus} PDB: 4gyz_A* 4gz0_A* 4gz2_A* Back     alignment and structure
>4f1h_A Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA complex; HET: DNA; 1.66A {Danio rerio} PDB: 4fpv_A* 4f1h_B* Back     alignment and structure
>3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis} Back     alignment and structure
>3g6s_A Putative endonuclease/exonuclease/phosphatase family protein; alpha-beta protein, structural genomics, PSI-2; 2.50A {Bacteroides vulgatus atcc 8482} Back     alignment and structure
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 Back     alignment and structure
>3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron} Back     alignment and structure
>3i41_A Beta-hemolysin; beta toxin, sphingomyelinase, toxin; 1.75A {Staphylococcus aureus} PDB: 3i46_A 3i48_A 3i5v_A* 3k55_A Back     alignment and structure
>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.40A {Bacillus cereus} SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X Back     alignment and structure
>3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB: 3ngo_A 3ngn_A Back     alignment and structure
>2f1n_A CDT B, cytolethal distending toxin subunit B; E.coli, DNAse I, microbatch; 1.73A {Escherichia coli} SCOP: d.151.1.1 Back     alignment and structure
>1sr4_B CDT B, cytolethal distending toxin protein B; bacterial, virulence, DNA damage, genotoxin, cytotoxins, cell cycle, apoptosis, lectin; 2.00A {Haemophilus ducreyi} SCOP: d.151.1.1 PDB: 2f2f_B Back     alignment and structure
>2a40_B Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse I, ARP2/3, structural protein; HET: HIC NAG ATP; 1.80A {Bos taurus} SCOP: d.151.1.1 PDB: 1dnk_A* 2a3z_B* 2a41_B* 2a42_B* 2d1k_B* 2dnj_A* 3cjc_D* 3dni_A* 1atn_D* Back     alignment and structure
>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C} Back     alignment and structure
>1i9z_A Synaptojanin, phosphatidylinositol phosphate phosphatase; spsynaptojanin, IPP5C, IP3, IP2,, hydrolase; HET: 2IP; 1.80A {Schizosaccharomyces pombe} SCOP: d.151.1.2 PDB: 1i9y_A* Back     alignment and structure
>2imq_X Salivary nitrophorin; ferrous heme, beta-sandwich, transport protein; HET: HEM; 1.30A {Cimex lectularius} SCOP: d.151.1.2 PDB: 1ntf_A* 1y21_A* 1yjh_A* 1si6_X* Back     alignment and structure
>2xsw_A 72 kDa inositol polyphosphate 5-phosphatase; inositol signalling, SGC stockholm, structural genomics CONS hydrolase; 1.90A {Homo sapiens} Back     alignment and structure
>3mtc_A Type II inositol-1,4,5-trisphosphate 5-phosphatas; INPP5BA,phosphoinositide 5-phosphatase, inositol signalling, phosphatase, magnesium; HET: PIF; 2.40A {Homo sapiens} PDB: 3n9v_A Back     alignment and structure
>4a9c_A Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; SGC, signalling, structural genomics consortium stockholm, magnesium binding, hydrolase; HET: B5F; 2.10A {Homo sapiens} PDB: 3nr8_B* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 295
d1hd7a_275 d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human 6e-36
d1akoa_268 d.151.1.1 (A:) DNA-repair enzyme exonuclease III { 2e-32
d2f1na1250 d.151.1.1 (A:1-250) Cytolethal distending toxin su 8e-23
d1vyba_236 d.151.1.1 (A:) Endonuclease domain of LINE-1 rever 4e-20
d2imqx1280 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug ( 2e-17
d1sr4b_261 d.151.1.1 (B:) Cytolethal distending toxin subunit 3e-17
d1wdua_228 d.151.1.1 (A:) Endonuclease domain of TRAS1 retrot 5e-13
d2a40b1260 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos 1e-10
d2ddra1299 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesteras 1e-08
d1zwxa1293 d.151.1.3 (A:41-333) Sphingomyelin phosphodiestera 8e-08
d1i9za_345 d.151.1.2 (A:) Synaptojanin, IPP5C domain {Fission 7e-06
>d1hd7a_ d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human (Homo sapiens) [TaxId: 9606]} Length = 275 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: DNase I-like
superfamily: DNase I-like
family: DNase I-like
domain: DNA repair endonuclease Hap1
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  128 bits (321), Expect = 6e-36
 Identities = 104/230 (45%), Positives = 140/230 (60%), Gaps = 4/230 (1%)

Query: 62  NKKNKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKM 121
            K +  G+    KI SWNV GLRA +KK+GLD++K+E  DI CLQETKC E +LP E++ 
Sbjct: 8   QKTSPSGKPATLKICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQE 67

Query: 122 -KFPEYKTYWLSSPKAGYAGVGLYTKVKPNKVTYGLGTKNEHY-GRNCNSNIVNTFYIRK 179
                ++ +   S K GY+GVGL ++  P KV+YG+G +     GR   +   +   +  
Sbjct: 68  LPGLSHQYWSAPSDKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTA 127

Query: 180 NVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGDLNVSHKPIDLANPTTNTRSA 239
            VPNAG GL  L+ R  WD+ F + L  L + KP++L GDLNV+H+ IDL NP  N ++A
Sbjct: 128 YVPNAGRGLVRLEYRQRWDEAFRKFLKGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNA 187

Query: 240 GFTIEERDSF-SSLLDKGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTG 288
           GFT +ER  F   L      DSFRHLYP    AYT+W+YM   ARS+N G
Sbjct: 188 GFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMN-ARSKNVG 236
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} Length = 268 Back     information, alignment and structure
>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {Escherichia coli [TaxId: 562]} Length = 250 Back     information, alignment and structure
>d1vyba_ d.151.1.1 (A:) Endonuclease domain of LINE-1 reverse transcriptase homolog {Human (Homo sapiens) [TaxId: 9606]} Length = 236 Back     information, alignment and structure
>d2imqx1 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug (Cimex lectularius) [TaxId: 79782]} Length = 280 Back     information, alignment and structure
>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]} Length = 261 Back     information, alignment and structure
>d1wdua_ d.151.1.1 (A:) Endonuclease domain of TRAS1 retrotransposon (ORF2) {Silkworm (Bombyx mori) [TaxId: 7091]} Length = 228 Back     information, alignment and structure
>d2a40b1 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913]} Length = 260 Back     information, alignment and structure
>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} Length = 299 Back     information, alignment and structure
>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]} Length = 293 Back     information, alignment and structure
>d1i9za_ d.151.1.2 (A:) Synaptojanin, IPP5C domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 345 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query295
d1hd7a_275 DNA repair endonuclease Hap1 {Human (Homo sapiens) 99.97
d1vyba_236 Endonuclease domain of LINE-1 reverse transcriptas 99.96
d1akoa_268 DNA-repair enzyme exonuclease III {Escherichia col 99.9
d1wdua_228 Endonuclease domain of TRAS1 retrotransposon (ORF2 99.86
d1zwxa1293 Sphingomyelin phosphodiesterase C {Listeria ivanov 99.81
d2f1na1250 Cytolethal distending toxin subunit B {Escherichia 99.77
d1sr4b_261 Cytolethal distending toxin subunit B {Haemophilus 99.77
d2imqx1280 Salivary nitrophorin {Bedbug (Cimex lectularius) [ 99.75
d2ddra1299 Sphingomyelin phosphodiesterase C {Bacillus cereus 99.72
d2a40b1260 Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913 99.69
d1i9za_345 Synaptojanin, IPP5C domain {Fission yeast (Schizos 99.23
>d1hd7a_ d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: DNase I-like
superfamily: DNase I-like
family: DNase I-like
domain: DNA repair endonuclease Hap1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.5e-31  Score=231.86  Aligned_cols=230  Identities=48%  Similarity=0.872  Sum_probs=154.1

Q ss_pred             cCCCCCCCCceEEEEEecCCcchhhhhhHHHHHhhcCCcEEEEcccCCCCCCCChhhhhcCCCC-eEEEec-CCCCCcce
Q psy6130          63 KKNKLGEEPNFKIASWNVAGLRACVKKEGLDYIKKEDADIFCLQETKCHETQLPPEVKMKFPEY-KTYWLS-SPKAGYAG  140 (295)
Q Consensus        63 ~~~~~~~~~~lkI~TwNv~g~~~~~~~~~~~~i~~~~pDIi~LQE~~~~~~~~~~~~~~~~~gy-~~~~~~-~~~~g~~G  140 (295)
                      .+.+.+.+.+|||+||||+|++.+.++.++++|++++|||||||||++...++...+.. ..+| +..+.. .+..+..|
T Consensus         9 ~~~~~~~~~~mki~S~NvnGlr~~~~~~~~~~i~~~~pDIi~LQE~k~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~   87 (275)
T d1hd7a_           9 KTSPSGKPATLKICSWNVDGLRAWIKKKGLDWVKEEAPDILCLQETKCSENKLPAELQE-LPGLSHQYWSAPSDKEGYSG   87 (275)
T ss_dssp             CBCTTSCBCCEEEEEEECSSHHHHHHTTHHHHHHHHCCSEEEEECCCCCC------------CCCEEEEECC-----CCC
T ss_pred             cCCCCCCCCcEEEEEEEeccHHhhhhccHHHHHHhCCCCEEEEEccccChhhCCHHHHh-ccCcceeeeeeecccccccc
Confidence            35566777889999999999988777778899999999999999998776666655555 6677 444443 45556678


Q ss_pred             EEEEEeccCceEEecCCCCCC-CCcceEEEEeCCEEEEEEecCCCCCCcccHHHHHHHHHHHHHHHHhhcCCCCEEEEcc
Q psy6130         141 VGLYTKVKPNKVTYGLGTKNE-HYGRNCNSNIVNTFYIRKNVPNAGAGLKTLDKRLEWDKLFHEHLVKLDAEKPVILIGD  219 (295)
Q Consensus       141 vailsk~~~~~~~~~~~~~~~-~~~r~i~~~~~~~~l~~vy~p~~~~~~~~~~~r~~~~~~l~~~l~~l~~~~pvIl~GD  219 (295)
                      ++++++..+..+......... ..+.+.........+...+.+........+.+.................+.+++++||
T Consensus        88 ~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gd  167 (275)
T d1hd7a_          88 VGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYRQRWDEAFRKFLKGLASRKPLVLCGD  167 (275)
T ss_dssp             EEEEESSCCSEEEESCSCGGGSSSSCEEEEECSSCEEEEEECCCCCGGGTTHHHHHHHHHHHHHHHHHHHHHSCEEEEEE
T ss_pred             cceecccCceeeeeccccccchhhhheeeeeecceeeeeeeeeeccccccchhhhhhhcccccccccccccCCceEeecc
Confidence            889988877776654433332 5566666677666666666665444444443333222222222222234689999999


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHh-CCceeeecccCCCCCCcccccCCCCCCCccCCCccc-cccC
Q psy6130         220 LNVSHKPIDLANPTTNTRSAGFTIEERDSFSSLLD-KGFTDSFRHLYPKRTGAYTYWSYMSKTARSRNTGCT-NYFG  294 (295)
Q Consensus       220 FN~~~~~~D~~~~~~~~~~~~~~~~e~~~~~~ll~-~gl~D~~r~~~p~~~~~yT~~s~~~~~~~~~~~~~R-Dy~~  294 (295)
                      ||....+.+..+.............|...|.++++ .||.|+||..+|...+.||||+++. +++.++.|+| ||||
T Consensus       168 ~n~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~l~~~~~~D~~r~~~p~~~~~~t~~~~~~-~~~~~~~g~RIDyi~  243 (275)
T d1hd7a_         168 LNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMM-NARSKNVGWRLDYFL  243 (275)
T ss_dssp             CSCCCSGGGBSCHHHHTTSTTSCHHHHHHHHHHHHHTTCEEHHHHHCTTCTTCCSBCCSGG-GHHHHTCCBCCEEEE
T ss_pred             cccCcchhhhccchhhhcccccccccchhhhhhhcccCcccceeeecCCcCCceeeccccC-CcccCCCCeEeEEEE
Confidence            99988766554433333445566777788888776 4999999999998877899999999 9999999999 9975
>d1vyba_ d.151.1.1 (A:) Endonuclease domain of LINE-1 reverse transcriptase homolog {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1wdua_ d.151.1.1 (A:) Endonuclease domain of TRAS1 retrotransposon (ORF2) {Silkworm (Bombyx mori) [TaxId: 7091]} Back     information, alignment and structure
>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]} Back     information, alignment and structure
>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]} Back     information, alignment and structure
>d2imqx1 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug (Cimex lectularius) [TaxId: 79782]} Back     information, alignment and structure
>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure
>d2a40b1 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure
>d1i9za_ d.151.1.2 (A:) Synaptojanin, IPP5C domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Back     information, alignment and structure