Psyllid ID: psy6001

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-------300-------310-------320-------
MKRSADVIQKSDDENQIPKKQVKFDISRKKKKMKRSADVIQKSDDENQIPKKQVKFDISHEEGSRKPYTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIGSDKGQGGVGLLTKEKPLTVKYGIPGVSNQRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIIRSDVQGSTHCPVVLRLSL
ccccHHHHcccccccccccccccHHHHHHHHHcccccccccccccccccccccccccccccccccccccccEEEEEEEHHHHHHHHHcccHHHHHHHccccEEEEEccccccccccHHHHHcccccEEEEEcccccccEEEEEEEccccEEEEcccccccccccEEEEEEccEEEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEcccccccccccccccccccccccccHHHHHHHHHHHHccccEEEcccccccccccEEcccccccccccccccEEEEEEccHHHHHHHHHcEEcccccccccccEEEEEEc
ccccHHHHEccccHHHcHHHHHHccccccccHHHHHHcccccccccccccccccccccccccccccccccEEEEEEEEcccHHHHHccccHHHHHHHccccEEEEEEcccccccccHHHHccccccHHHHHHHcccccEEEEEEcccccEEEEccccccccccEEEEEEcccEEEEEEEccccccccHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEccccccHHHEccHHHHcccccccHHHHHHHHHHHHccccccHHHccccccccEEHHHHHHHHccccccEEccEEEEEcHHHHHHEEEEEEccccccccEccEEEEEcc
mkrsadviqksddenqipkkqvKFDISRKKKKMKRSADViqksddenqipkkqvkfdisheegsrkpyttKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIrcqedevpesfRKSLSHYHMFWigsdkgqggvglltkekpltvkygipgvsnqrgrviTAKFKRFTFITVyvpnsgiklkaIDFRMIWDQHFYDYIQSElrsnsniiisgDLNVCLqsidlanpdknvktagytVEERRNFRELLDTGLVDAFrhlypdeegaytYWSFRNKSARLNNKGWRLDYHLVSEQLANNIkdciirsdvqgsthcpVVLRLSL
mkrsadviqksddenqipkkqvkfdisrkkkkmkrsadviqksddenqipkkqvkfdisheegsrkpyttkvkvstwnvnglracVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIGSDKGQGGVGLLTKEKPLtvkygipgvsnqrgrviTAKFKRFTFITvyvpnsgiklkAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDlanpdknvktagytveerrnFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIirsdvqgsthcpvvlrlsl
MKRSADVIQKSDDENQIPKKQVKFDISRKKKKMKRSADVIQKSDDENQIPKKQVKFDISHEEGSRKPYTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIGSDKGQGGVGLLTKEKPLTVKYGIPGVSNQRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIIRSDVQGSTHCPVVLRLSL
*******************************************************************YTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIGSDKGQGGVGLLTKEKPLTVKYGIPGVSNQRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIIRSDVQGSTHCPVVLR***
*********************************************************************TKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIGSDKGQGGVGLLTKEKPLTVKYGIPGVSNQRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIIRSDVQGSTHCPVVLRLSL
***********DDENQIPKKQVKFD****************KSDDENQIPKKQVKFDISHEEGSRKPYTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIGSDKGQGGVGLLTKEKPLTVKYGIPGVSNQRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIIRSDVQGSTHCPVVLRLSL
***************QIPKKQV*****************************KQVKFDIS*EEGSRKPYTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIGSDKGQGGVGLLTKEKPLTVKYGIPGVSNQRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIIRSDVQGSTHCPVVLRLSL
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MKRSADVIQKSDDENQIPKKQVKFDISRKKKKMKRSADVIQKSDDENQIPKKQVKFDISHEEGSRKPYTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIGSDKGQGGVGLLTKEKPLTVKYGIPGVSNQRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIIRSDVQGSTHCPVVLRLSL
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 ?
Query327 2.2.26 [Sep-21-2011]
P27864679 Recombination repair prot yes N/A 0.749 0.360 0.445 4e-58
P28352317 DNA-(apurinic or apyrimid yes N/A 0.908 0.936 0.398 4e-58
P43138317 DNA-(apurinic or apyrimid yes N/A 0.908 0.936 0.394 7e-58
A0MTA1310 DNA-(apurinic or apyrimid yes N/A 0.773 0.816 0.432 8e-58
P27695318 DNA-(apurinic or apyrimid yes N/A 0.792 0.814 0.444 2e-57
A2T7I6318 DNA-(apurinic or apyrimid N/A N/A 0.792 0.814 0.444 2e-57
A2T6Y4318 DNA-(apurinic or apyrimid yes N/A 0.792 0.814 0.444 2e-57
A1YFZ3318 DNA-(apurinic or apyrimid N/A N/A 0.792 0.814 0.444 2e-57
P37454252 Exodeoxyribonuclease OS=B yes N/A 0.752 0.976 0.450 2e-56
P23196318 DNA-(apurinic or apyrimid yes N/A 0.782 0.805 0.429 4e-56
>sp|P27864|RRP1_DROME Recombination repair protein 1 OS=Drosophila melanogaster GN=Rrp1 PE=1 SV=2 Back     alignment and function desciption
 Score =  225 bits (573), Expect = 4e-58,   Method: Compositional matrix adjust.
 Identities = 114/256 (44%), Positives = 160/256 (62%), Gaps = 11/256 (4%)

Query: 72  VKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWI 131
           +K+ +WNV GLRA +KK+  ++ I  E PDI  LQ+ +C  D++PE   + L  YH +W+
Sbjct: 427 LKICSWNVAGLRAWLKKDG-LQLIDLEEPDIFCLQETKCANDQLPEEVTR-LPGYHPYWL 484

Query: 132 GSDKGQGGVGLLTKEKPLTVKYGIPGVSNQR----GRVITAKFKRFTFITVYVPNSGIKL 187
               G  GV + +K  P+ V+YGI    N+     GR+ITA++++F  I VYVPNSG KL
Sbjct: 485 CMPGGYAGVAIYSKIMPIHVEYGI---GNEEFDDVGRMITAEYEKFYLINVYVPNSGRKL 541

Query: 188 KAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERR 247
             ++ RM W++ F  Y++ +L +   ++I GD+NV    IDL NP  N K AG+T EER 
Sbjct: 542 VNLEPRMRWEKLFQAYVK-KLDALKPVVICGDMNVSHMPIDLENPKNNTKNAGFTQEERD 600

Query: 248 NFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDC 307
              ELL  G VD FRHLYPD +GAYT+W++   +AR  N GWRLDY LVSE+    + + 
Sbjct: 601 KMTELLGLGFVDTFRHLYPDRKGAYTFWTYM-ANARARNVGWRLDYCLVSERFVPKVVEH 659

Query: 308 IIRSDVQGSTHCPVVL 323
            IRS   GS HCP+ +
Sbjct: 660 EIRSQCLGSDHCPITI 675
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|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|A0MTA1|APEX1_DANRE DNA-(apurinic or apyrimidinic site) lyase OS=Danio rerio GN=apex1 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|A2T7I6|APEX1_PONPY DNA-(apurinic or apyrimidinic site) lyase OS=Pongo pygmaeus GN=APEX1 PE=3 SV=1 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|P37454|EXOA_BACSU Exodeoxyribonuclease OS=Bacillus subtilis (strain 168) GN=exoA PE=1 SV=1 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

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 ?
Query327
346473687350 hypothetical protein [Amblyomma maculatu 0.792 0.74 0.486 5e-68
350410618334 PREDICTED: recombination repair protein 0.767 0.751 0.484 2e-65
340719564357 PREDICTED: LOW QUALITY PROTEIN: recombin 0.767 0.703 0.484 2e-64
340382054372 PREDICTED: DNA-(apurinic or apyrimidinic 0.801 0.704 0.478 7e-64
443711514307 hypothetical protein CAPTEDRAFT_159745 [ 0.813 0.866 0.445 2e-62
307212268327 Recombination repair protein 1 [Harpegna 0.972 0.972 0.416 6e-62
158298437 606 AGAP009587-PA [Anopheles gambiae str. PE 0.767 0.414 0.445 2e-61
332024107356 Recombination repair protein 1 [Acromyrm 0.896 0.823 0.430 3e-61
328782712346 PREDICTED: recombination repair protein 0.850 0.803 0.432 5e-61
383862977336 PREDICTED: recombination repair protein 0.767 0.747 0.453 9e-61
>gi|346473687|gb|AEO36688.1| hypothetical protein [Amblyomma maculatum] Back     alignment and taxonomy information
 Score =  264 bits (674), Expect = 5e-68,   Method: Compositional matrix adjust.
 Identities = 131/269 (48%), Positives = 188/269 (69%), Gaps = 10/269 (3%)

Query: 62  EGSRKPYTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRK 121
           EG +KP+   +K+ +WNVNG+RA + K   +EY+ +E PDI A+Q+ +C + ++P    K
Sbjct: 89  EGDKKPWN--LKLCSWNVNGVRAWLGKEG-LEYLKKEQPDIFAIQETKCSDSKLPPEM-K 144

Query: 122 SLSHYHMFWIGSDK-GQGGVGLLTKEKPLTVKYGIPGVS--NQRGRVITAKFKRFTFITV 178
           S+  YH +++  D+ G  GV LL K KPL VKYGI G+   ++ GRVITA+F +F  + V
Sbjct: 145 SVEGYHSYFLAGDQEGYSGVALLAKIKPLDVKYGI-GMEKHDKEGRVITAEFDKFYLVAV 203

Query: 179 YVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKT 238
           YVPN+G KL  +D+RM WD+ F  Y++ EL +  ++++ GD+NV  Q IDLANP  N K 
Sbjct: 204 YVPNAGKKLVRLDYRMEWDKDFRAYLK-ELEAKKHVVLCGDMNVAHQEIDLANPKTNKKN 262

Query: 239 AGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSE 298
           AG+T EER  F  LL++G VD+FRHLYPD++GAYT+W++   +AR  N GWRLDY ++S+
Sbjct: 263 AGFTQEERDGFTALLESGFVDSFRHLYPDKKGAYTFWTYM-MNARAKNVGWRLDYFILSK 321

Query: 299 QLANNIKDCIIRSDVQGSTHCPVVLRLSL 327
            LA+NI D +I S V GS HCPV+L L++
Sbjct: 322 ALASNISDSLIHSQVMGSDHCPVILLLNI 350

Source: Amblyomma maculatum

Species: Amblyomma maculatum

Genus: Amblyomma

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|350410618|ref|XP_003489091.1| PREDICTED: recombination repair protein 1-like [Bombus impatiens] Back     alignment and taxonomy information
>gi|340719564|ref|XP_003398220.1| PREDICTED: LOW QUALITY PROTEIN: recombination repair protein 1-like [Bombus terrestris] Back     alignment and taxonomy information
>gi|340382054|ref|XP_003389536.1| PREDICTED: DNA-(apurinic or apyrimidinic site) lyase-like [Amphimedon queenslandica] Back     alignment and taxonomy information
>gi|443711514|gb|ELU05263.1| hypothetical protein CAPTEDRAFT_159745 [Capitella teleta] Back     alignment and taxonomy information
>gi|307212268|gb|EFN88076.1| Recombination repair protein 1 [Harpegnathos saltator] Back     alignment and taxonomy information
>gi|158298437|ref|XP_318609.4| AGAP009587-PA [Anopheles gambiae str. PEST] gi|157013880|gb|EAA14571.4| AGAP009587-PA [Anopheles gambiae str. PEST] 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|383862977|ref|XP_003706959.1| PREDICTED: recombination repair protein 1-like [Megachile rotundata] 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 ?
Query327
UNIPROTKB|P27695318 APEX1 "DNA-(apurinic or apyrim 0.917 0.943 0.403 6.8e-56
UNIPROTKB|A1YFZ3318 APEX1 "DNA-(apurinic or apyrim 0.917 0.943 0.403 8.6e-56
UNIPROTKB|A2T6Y4318 APEX1 "DNA-(apurinic or apyrim 0.917 0.943 0.403 8.6e-56
UNIPROTKB|A2T7I6318 APEX1 "DNA-(apurinic or apyrim 0.917 0.943 0.400 1.4e-55
MGI|MGI:88042317 Apex1 "apurinic/apyrimidinic e 0.908 0.936 0.398 1.4e-55
ZFIN|ZDB-GENE-040426-2761310 apex1 "APEX nuclease (multifun 0.865 0.912 0.406 1.4e-55
RGD|2126317 Apex1 "APEX nuclease (multifun 0.908 0.936 0.394 2.3e-55
UNIPROTKB|Q9Z2J2317 APE "Apurinic/apyrimidinic end 0.908 0.936 0.398 2.9e-55
UNIPROTKB|J9PA46318 APEX1 "Uncharacterized protein 0.889 0.915 0.406 6.1e-55
FB|FBgn0004584679 Rrp1 "Recombination repair pro 0.948 0.456 0.393 7.8e-55
UNIPROTKB|P27695 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
 Score = 576 (207.8 bits), Expect = 6.8e-56, P = 6.8e-56
 Identities = 124/307 (40%), Positives = 181/307 (58%)

Query:    25 DISRKKKKMKRSADVIQKSDDENQIPKKQVKFDISHEEGSRKPYTTKVKVSTWNVNGLRA 84
             D  R + + K+S    +K+D E       +  D   ++ S       +K+ +WNV+GLRA
Sbjct:    15 DELRTEPEAKKSKTAAKKNDKEAAGEGPALYEDPPDQKTSPSGKPATLKICSWNVDGLRA 74

Query:    85 CVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIG-SDK-GQGGVGL 142
              +KK   ++++ EE PDI+ LQ+ +C E+++P   ++     H +W   SDK G  GVGL
Sbjct:    75 WIKKKG-LDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQYWSAPSDKEGYSGVGL 133

Query:   143 LTKEKPLTVKYGIPGVSN-QRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFY 201
             L+++ PL V YGI    + Q GRVI A+F  F  +T YVPN+G  L  +++R  WD+ F 
Sbjct:   134 LSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYRQRWDEAFR 193

Query:   202 DYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRNFRELLDT-GLVDA 260
              +++  L S   +++ GDLNV  + IDL NP  N K AG+T +ER+ F ELL    L D+
Sbjct:   194 KFLKG-LASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADS 252

Query:   261 FRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIIRSDVQGSTHCP 320
             FRHLYP+   AYT+W++   +AR  N GWRLDY L+S  L   + D  IRS   GS HCP
Sbjct:   253 FRHLYPNTPYAYTFWTYM-MNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKALGSDHCP 311

Query:   321 VVLRLSL 327
             + L L+L
Sbjct:   312 ITLYLAL 318
GO:0003723 "RNA binding" evidence=IEA
GO:0006310 "DNA recombination" evidence=IEA
GO:0006351 "transcription, DNA-dependent" evidence=IEA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA
GO:0005667 "transcription factor complex" evidence=IEA
GO:0007568 "aging" evidence=IEA
GO:0014912 "negative regulation of smooth muscle cell migration" evidence=IEA
GO:0032403 "protein complex binding" evidence=IEA
GO:0042493 "response to drug" evidence=IEA
GO:0045454 "cell redox homeostasis" evidence=IEA
GO:0045750 "positive regulation of S phase of mitotic cell cycle" evidence=IEA
GO:0051059 "NF-kappaB binding" evidence=IEA
GO:0070301 "cellular response to hydrogen peroxide" evidence=IEA
GO:0071320 "cellular response to cAMP" evidence=IEA
GO:0071375 "cellular response to peptide hormone stimulus" evidence=IEA
GO:0003906 "DNA-(apurinic or apyrimidinic site) lyase activity" evidence=IDA;TAS
GO:0003713 "transcription coactivator activity" evidence=IDA
GO:0008408 "3'-5' exonuclease activity" evidence=IDA;TAS
GO:0005634 "nucleus" evidence=IDA
GO:0004528 "phosphodiesterase I activity" evidence=TAS
GO:0005840 "ribosome" evidence=TAS
GO:0005783 "endoplasmic reticulum" evidence=TAS
GO:0004523 "ribonuclease H activity" evidence=TAS
GO:0003677 "DNA binding" evidence=IDA
GO:0005515 "protein binding" evidence=IPI
GO:0048471 "perinuclear region of cytoplasm" evidence=IDA
GO:0016491 "oxidoreductase activity" evidence=IDA
GO:0046872 "metal ion binding" evidence=IDA
GO:0005737 "cytoplasm" evidence=IDA
GO:0043488 "regulation of mRNA stability" evidence=IMP
GO:0045739 "positive regulation of DNA repair" evidence=IDA
GO:0005730 "nucleolus" evidence=IDA
GO:0005654 "nucleoplasm" evidence=IDA;TAS
GO:0016607 "nuclear speck" evidence=IDA
GO:0003684 "damaged DNA binding" evidence=IDA
GO:0031490 "chromatin DNA binding" evidence=IDA
GO:0005739 "mitochondrion" evidence=IDA
GO:0006281 "DNA repair" evidence=IDA;TAS
GO:0016890 "site-specific endodeoxyribonuclease activity, specific for altered base" evidence=IDA
GO:0080111 "DNA demethylation" evidence=IDA
GO:0003714 "transcription corepressor activity" evidence=TAS
GO:0004520 "endodeoxyribonuclease activity" evidence=TAS
GO:0004844 "uracil DNA N-glycosylase activity" evidence=TAS
GO:0004519 "endonuclease activity" evidence=IDA
GO:0008081 "phosphoric diester hydrolase activity" evidence=IDA
GO:0006284 "base-excision repair" evidence=TAS
GO:0055114 "oxidation-reduction process" evidence=IDA
GO:0005813 "centrosome" evidence=IDA
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
UNIPROTKB|A2T7I6 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Pongo pygmaeus (taxid:9600)] Back     alignment and assigned GO terms
MGI|MGI:88042 Apex1 "apurinic/apyrimidinic endonuclease 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-2761 apex1 "APEX nuclease (multifunctional DNA repair enzyme) 1" [Danio rerio (taxid:7955)] 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|Q9Z2J2 APE "Apurinic/apyrimidinic endonuclease" [Cricetulus griseus (taxid:10029)] Back     alignment and assigned GO terms
UNIPROTKB|J9PA46 APEX1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
FB|FBgn0004584 Rrp1 "Recombination repair protein 1" [Drosophila melanogaster (taxid:7227)] 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, ., 20.33570.76750.9127yesN/A
P0A2X3EXOA_STRPN3, ., 1, ., 1, 1, ., 20.33570.76750.9127yesN/A
A0MTA1APEX1_DANRE4, ., 2, ., 9, 9, ., 1, 80.43240.77370.8161yesN/A
P44318EX3_HAEIN3, ., 1, ., 1, 1, ., 20.30740.74000.9063yesN/A
A2T6Y4APEX1_PANTR4, ., 2, ., 9, 9, ., 1, 80.44400.79200.8144yesN/A
P37454EXOA_BACSU3, ., 1, ., 1, 1, ., 20.45030.75220.9761yesN/A
P51173APEA_DICDI4, ., 2, ., 9, 9, ., 1, 80.38950.75530.6842yesN/A
P0A1A9EX3_SALTY3, ., 1, ., 1, 1, ., 20.30850.74310.9067yesN/A
P43138APEX1_RAT4, ., 2, ., 9, 9, ., 1, 80.39470.90820.9369yesN/A
P28352APEX1_MOUSE4, ., 2, ., 9, 9, ., 1, 80.39800.90820.9369yesN/A
P23196APEX1_BOVIN4, ., 2, ., 9, 9, ., 1, 80.42960.78280.8050yesN/A
P27695APEX1_HUMAN4, ., 2, ., 9, 9, ., 1, 80.44400.79200.8144yesN/A

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer4.2.990.766
4th Layer4.2.99.180.824

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 ?
Query327
cd09087253 cd09087, Ape1-like_AP-endo, Human Ape1-like subfam 1e-118
TIGR00633255 TIGR00633, xth, exodeoxyribonuclease III (xth) 6e-93
cd09073251 cd09073, ExoIII_AP-endo, Escherichia coli exonucle 6e-91
COG0708261 COG0708, XthA, Exonuclease III [DNA replication, r 6e-85
TIGR00195254 TIGR00195, exoDNase_III, exodeoxyribonuclease III 2e-80
cd09085252 cd09085, Mth212-like_AP-endo, Methanothermobacter 3e-78
cd09086254 cd09086, ExoIII-like_AP-endo, Escherichia coli exo 7e-65
cd10281253 cd10281, Nape_like_AP-endo, Neisseria meningitides 1e-64
PRK13911250 PRK13911, PRK13911, exodeoxyribonuclease III; Prov 5e-61
cd09088309 cd09088, Ape2-like_AP-endo, Human Ape2-like subfam 6e-41
PRK11756268 PRK11756, PRK11756, exonuclease III; Provisional 3e-31
cd08372241 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase 7e-27
cd09076236 cd09076, L1-EN, Endonuclease domain (L1-EN) of the 3e-26
cd09080248 cd09080, TDP2, Phosphodiesterase domain of human T 2e-09
pfam03372143 pfam03372, Exo_endo_phos, Endonuclease/Exonuclease 7e-09
cd09084246 cd09084, EEP-2, Exonuclease-Endonuclease-Phosphata 6e-07
COG3568259 COG3568, ElsH, Metal-dependent hydrolase [General 0.002
>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 =  341 bits (878), Expect = e-118
 Identities = 129/255 (50%), Positives = 175/255 (68%), Gaps = 5/255 (1%)

Query: 73  KVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIG 132
           K+ +WNVNGLRA +KK   ++Y+ +E+PDI+ LQ+ + QE +VP+  ++ L  YH +W  
Sbjct: 2   KIISWNVNGLRALLKKG-LLDYVKKEDPDILCLQETKLQEGDVPKELKELLKGYHQYWNA 60

Query: 133 SD-KGQGGVGLLTKEKPLTVKYGIPG-VSNQRGRVITAKFKRFTFITVYVPNSGIKLKAI 190
           ++ KG  G  +L+K+KPL+V YGI     +Q GRVITA+F+ F  +  YVPNSG  L+ +
Sbjct: 61  AEKKGYSGTAILSKKKPLSVTYGIGIEEHDQEGRVITAEFENFYLVNTYVPNSGRGLERL 120

Query: 191 DFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRNFR 250
           D R  WD  F  Y++ +L S   +I  GDLNV  + IDLANP  N K+AG+T EER +F 
Sbjct: 121 DRRKEWDVDFRAYLK-KLDSKKPVIWCGDLNVAHEEIDLANPKTNKKSAGFTPEERESFT 179

Query: 251 ELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCIIR 310
           ELL+ G VD FRHL+PD+EGAYT+WS+R   AR  N GWRLDY LVSE+L + + D  IR
Sbjct: 180 ELLEAGFVDTFRHLHPDKEGAYTFWSYRGN-ARAKNVGWRLDYFLVSERLKDRVVDSFIR 238

Query: 311 SDVQGSTHCPVVLRL 325
           SD+ GS HCP+ L L
Sbjct: 239 SDIMGSDHCPIGLEL 253

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|188032 TIGR00195, exoDNase_III, exodeoxyribonuclease III 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|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|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|139971 PRK13911, PRK13911, exodeoxyribonuclease III; Provisional 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|236970 PRK11756, PRK11756, exonuclease III; Provisional Back     alignment and domain information
>gnl|CDD|197306 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily 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|197314 cd09080, TDP2, Phosphodiesterase domain of human TDP2, a 5'-tyrosyl DNA phosphodiesterase, 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|226098 COG3568, ElsH, Metal-dependent hydrolase [General function prediction only] Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 327
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
PRK05421263 hypothetical protein; Provisional 99.92
PLN03144606 Carbon catabolite repressor protein 4 homolog; Pro 99.9
KOG1294|consensus335 99.87
COG3568259 ElsH Metal-dependent hydrolase [General function p 99.87
KOG2756|consensus349 99.86
TIGR03395283 sphingomy sphingomyelin phosphodiesterase. Members 99.86
PTZ00297 1452 pantothenate kinase; Provisional 99.84
KOG2338|consensus495 99.84
PRK15251271 cytolethal distending toxin subunit CdtB; Provisio 99.81
PF03372249 Exo_endo_phos: Endonuclease/Exonuclease/phosphatas 99.79
KOG3873|consensus 422 99.69
smart00476276 DNaseIc deoxyribonuclease I. Deoxyribonuclease I c 99.67
COG5239378 CCR4 mRNA deadenylase, exonuclease subunit and rel 99.64
COG3021309 Uncharacterized protein conserved in bacteria [Fun 99.62
KOG0620|consensus361 99.56
PF14529119 Exo_endo_phos_2: Endonuclease-reverse transcriptas 99.45
smart00128310 IPPc Inositol polyphosphate phosphatase, catalytic 99.42
COG2374798 Predicted extracellular nuclease [General function 98.92
KOG0566|consensus 1080 98.5
PLN03191621 Type I inositol-1,4,5-trisphosphate 5-phosphatase 97.65
COG5411 460 Phosphatidylinositol 5-phosphate phosphatase [Sign 96.86
KOG1294|consensus 335 93.87
PTZ00312 356 inositol-1,4,5-triphosphate 5-phosphatase; Provisi 93.12
PLN03191 621 Type I inositol-1,4,5-trisphosphate 5-phosphatase 85.91
>COG0708 XthA Exonuclease III [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=1.1e-53  Score=359.99  Aligned_cols=250  Identities=39%  Similarity=0.774  Sum_probs=228.4

Q ss_pred             eEEEEEEcCCchhhhhhhhHHHHHHhcCCCEEEEeeeecCCCCcch-hhhcccCCeEEEEEccCCceeeEEEEEeeCcce
Q psy6001          72 VKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPE-SFRKSLSHYHMFWIGSDKGQGGVGLLTKEKPLT  150 (327)
Q Consensus        72 l~i~s~Ni~~~~~~~~~~~i~~~i~~~~~DIl~LQEv~~~~~~~~~-~l~~~~~gy~~~~~~~~~~~~Gvai~~k~~~~~  150 (327)
                      |||+||||||++.+.+.  +.+++.+.+||||||||++..+..++. .+.  ..||+.++..+.++|+||||++|.++..
T Consensus         1 mkI~SwNVNgiRar~~~--~~~~l~~~~pDVlclQEtK~~~~~fp~~~~~--~~GY~~~~~~gqKgysGVailsr~~~~~   76 (261)
T COG0708           1 MKIASWNVNGLRARLKK--LLDWLEEEQPDVLCLQETKAQDEQFPREELE--ALGYHHVFNHGQKGYSGVAILSKKPPDD   76 (261)
T ss_pred             CeeEEEehhhHHHHHHH--HHHHHHHhCCCEEEEEecccCcccCCHhHHh--hCCceEEEecCcCCcceEEEEEccCchh
Confidence            68999999999999988  999999999999999999999988887 555  7999878777779999999999999888


Q ss_pred             eEeCCCCC--CCCcCcEEEEEeCcEEEEEEeccCCCC-cchhhHHHHHHHHHHHHHHHHHhcCCCcEEEEccCCCCCCcc
Q psy6001         151 VKYGIPGV--SNQRGRVITAKFKRFTFITVYVPNSGI-KLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSI  227 (327)
Q Consensus       151 ~~~~~~~~--~~~~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~r~~~~~~l~~~l~~~~~~~~~~Ii~GDFN~~~~~~  227 (327)
                      +..+++..  .+..+|+|.+.+..+.++++|+|++.. ..+++.+|+.|++.+.+++.+....+.|+|+|||||..|.+.
T Consensus        77 v~~g~~~~~~~d~e~R~I~a~~~~~~v~~~Y~PnG~~~~~~k~~yKl~f~~~l~~~l~~l~~~~~~~vl~GD~NIap~~i  156 (261)
T COG0708          77 VRRGFPGEEEDDEEGRVIEAEFDGFRVINLYFPNGSSIGLEKFDYKLRFLDALRNYLEELLKKGKPVVLCGDFNIAPEEI  156 (261)
T ss_pred             hhcCCCCCccccccCcEEEEEECCEEEEEEEcCCCCCCCCcchHHHHHHHHHHHHHHHHHhhcCCCEEEecccccCCchh
Confidence            88888873  567899999999999999999999998 888899999999999999995556779999999999999999


Q ss_pred             cccCCC---CCcccCCCCHHHHHHHHHHhcCCceeeEeccCCCCCCCccccCCCCCCccCCCccceeEEEEeCcchhccc
Q psy6001         228 DLANPD---KNVKTAGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNI  304 (327)
Q Consensus       228 d~~~~~---~~~~~~~~~~~~~~~~~~~~~~~l~d~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~riD~il~s~~~~~~~  304 (327)
                      |+.++.   .+.+..++.++++++|..+++.|++|++|.++|.... ||||+++. +....+.|+||||+++|+.+...+
T Consensus       157 Dv~~~~~~~~n~~~~~f~~eeR~~~~~ll~~G~~D~~R~~~p~~~~-YTwW~YR~-~~~~~n~G~RID~~l~S~~L~~~~  234 (261)
T COG0708         157 DVANPKKRWLNEGNSGFLPEERAWFRRLLNAGFVDTFRLFHPEPEK-YTWWDYRA-NAARRNRGWRIDYILVSPALADRL  234 (261)
T ss_pred             cccCchhhhhcCCCCCCCHHHHHHHHHHHHcchhhhhHhhCCCCCc-cccccccc-chhhhcCceeEEEEEeCHHHHHHH
Confidence            999996   5689999999999999999999999999999999776 99999999 655556999999999999999999


Q ss_pred             ceeeeccCCCC----CCCcceEEEEeC
Q psy6001         305 KDCIIRSDVQG----STHCPVVLRLSL  327 (327)
Q Consensus       305 ~~~~~~~~~~~----SDH~pV~~~~~l  327 (327)
                      .++.+..+.++    |||+||+++|++
T Consensus       235 ~~a~I~~~~rg~e~pSDHaPV~~e~~~  261 (261)
T COG0708         235 KDAGIDREVRGWEKPSDHAPVWVELDL  261 (261)
T ss_pred             HhcCccHHHhcCCCCCCcCcEEEEecC
Confidence            99999887776    999999999975

>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
>PRK05421 hypothetical protein; Provisional Back     alignment and domain information
>PLN03144 Carbon catabolite repressor protein 4 homolog; Provisional Back     alignment and domain information
>KOG1294|consensus Back     alignment and domain information
>COG3568 ElsH Metal-dependent hydrolase [General function prediction only] Back     alignment and domain information
>KOG2756|consensus Back     alignment and domain information
>TIGR03395 sphingomy sphingomyelin phosphodiesterase Back     alignment and domain information
>PTZ00297 pantothenate kinase; Provisional Back     alignment and domain information
>KOG2338|consensus Back     alignment and domain information
>PRK15251 cytolethal distending toxin subunit CdtB; Provisional 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
>KOG3873|consensus Back     alignment and domain information
>smart00476 DNaseIc deoxyribonuclease I Back     alignment and domain information
>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification] Back     alignment and domain information
>COG3021 Uncharacterized protein conserved in bacteria [Function unknown] Back     alignment and domain information
>KOG0620|consensus Back     alignment and domain information
>PF14529 Exo_endo_phos_2: Endonuclease-reverse transcriptase ; PDB: 2EI9_A 1WDU_B Back     alignment and domain information
>smart00128 IPPc Inositol polyphosphate phosphatase, catalytic domain homologues Back     alignment and domain information
>COG2374 Predicted extracellular nuclease [General function prediction only] Back     alignment and domain information
>KOG0566|consensus Back     alignment and domain information
>PLN03191 Type I inositol-1,4,5-trisphosphate 5-phosphatase 2; Provisional Back     alignment and domain information
>COG5411 Phosphatidylinositol 5-phosphate phosphatase [Signal transduction mechanisms] Back     alignment and domain information
>KOG1294|consensus 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

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query327
2o3c_A282 Crystal Structure Of Zebrafish Ape Length = 282 6e-59
2o3h_A285 Crystal Structure Of The Human C65a Ape Length = 28 1e-58
1e9n_A318 A Second Divalent Metal Ion In The Active Site Of A 1e-58
2isi_A317 Crystal Structure Of Ape1 From Homo Sapiens In A Ne 2e-58
1bix_A287 The Crystal Structure Of The Human Dna Repair Endon 2e-58
1dew_A279 Crystal Structure Of Human Ape1 Bound To Abasic Dna 3e-58
1de8_B276 Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bo 4e-58
3g91_A265 1.2 Angstrom Structure Of The Exonuclease Iii Homol 3e-42
3fzi_A265 1.9 Angstrom Structure Of The Thermophilic Exonucle 5e-42
3g00_A265 Mth0212 In Complex With A 9bp Blunt End Dsdna At 1. 2e-41
2jc5_A259 Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From 9e-30
2voa_A257 Structure Of An Ap Endonuclease From Archaeoglobus 2e-29
4b5h_A259 Substate Bound Inactive Mutant Of Neisseria Ap Endo 5e-29
2j63_A467 Crystal Structure Of Ap Endonuclease Lmap From Leis 3e-26
1ako_A268 Exonuclease Iii From Escherichia Coli Length = 268 2e-25
2jc4_A256 3'-5' Exonuclease (Nexo) From Neisseria Meningitidi 4e-25
4f1r_A293 Structure Analysis Of The Global Metabolic Regulato 3e-16
>pdb|2O3C|A Chain A, Crystal Structure Of Zebrafish Ape Length = 282 Back     alignment and structure 
Iteration: 1

 Score =  224 bits (571), Expect = 6e-59,   Method: Compositional matrix adjust.
 Identities = 112/259 (43%), Positives = 161/259 (62%), Gaps = 6/259 (2%)
Query: 72  VKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWI 131
           +K+++WNV+GLRA VKKN  ++++ +E+PDI+ LQ+ +C E  +P        + H +W 
Sbjct: 27  MKITSWNVDGLRAWVKKNG-LDWVRKEDPDILCLQETKCAEKALPADITAMPEYPHKYWA 85
Query: 132 GSD--KGQGGVGLLTKEKPLTVKYGIPGVSNQR-GRVITAKFKRFTFITVYVPNSGIKLK 188
           GS+  +G  GV +L K +PL V YGI    + + GRVITA+F  F  +T YVPN+   L 
Sbjct: 86  GSEDKEGYSGVAMLCKTEPLNVTYGIGKEEHDKEGRVITAEFPDFFLVTAYVPNASRGLV 145
Query: 189 AIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAGYTVEERRN 248
            +D+R  WD  F  Y+   L +   +++ GDLNV  Q IDL NP  N K AG+T EER  
Sbjct: 146 RLDYRKTWDVDFRAYLCG-LDARKPLVLCGDLNVAHQEIDLKNPKGNRKNAGFTPEEREG 204
Query: 249 FRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCI 308
           F +LL+ G  D+FR LYPD+  AYT+W++   +AR  N GWRLDY ++S  L   + D  
Sbjct: 205 FTQLLEAGFTDSFRELYPDQAYAYTFWTYM-MNARSKNVGWRLDYFVLSSALLPGLCDSK 263
Query: 309 IRSDVQGSTHCPVVLRLSL 327
           IR+   GS HCP+ L L++
Sbjct: 264 IRNTAMGSDHCPITLFLAV 282
>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|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|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|1DEW|A Chain A, Crystal Structure Of Human Ape1 Bound To Abasic Dna Length = 279 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|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|2VOA|A Chain A, Structure Of An Ap Endonuclease From Archaeoglobus Fulgidus Length = 257 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|2J63|A Chain A, Crystal Structure Of Ap Endonuclease Lmap From Leishmania Major Length = 467 Back     alignment and structure
>pdb|1AKO|A Chain A, Exonuclease Iii From Escherichia Coli Length = 268 Back     alignment and structure
>pdb|2JC4|A Chain A, 3'-5' Exonuclease (Nexo) From Neisseria Meningitidis Length = 256 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

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query327
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 1e-113
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 1e-111
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 1e-110
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 1e-103
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 5e-89
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 8e-81
1ako_A268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 1e-68
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 3e-64
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 4e-60
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 3e-26
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 3e-17
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 9e-10
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-04
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-04
2ddr_A306 Sphingomyelin phosphodiesterase; DNAse I like fold 2e-04
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 4e-04
3mpr_A298 Putative endonuclease/exonuclease/phosphatase FAM 5e-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 =  330 bits (848), Expect = e-113
 Identities = 124/330 (37%), Positives = 179/330 (54%), Gaps = 18/330 (5%)

Query: 2   KRSADVIQKSDDENQIPKKQVKFDISRKKKKMKRSADVIQKSDDENQIPKKQVKFDISHE 61
           KR        D +    + + K   +  KK  K +           + P           
Sbjct: 3   KRGKKGAVAEDGDELRTEPEAKKSKTAAKKNDKEA---------AGEGPALYEDPPDQKT 53

Query: 62  EGSRKPYTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRK 121
             S KP T  +K+ +WNV+GLRA +KK   ++++ EE PDI+ LQ+ +C E+++P   ++
Sbjct: 54  SPSGKPAT--LKICSWNVDGLRAWIKKKG-LDWVKEEAPDILCLQETKCSENKLPAELQE 110

Query: 122 SLSHYHMFWIGSD--KGQGGVGLLTKEKPLTVKYGIPG-VSNQRGRVITAKFKRFTFITV 178
                H +W      +G  GVGLL+++ PL V YGI     +Q GRVI A+F  F  +T 
Sbjct: 111 LPGLSHQYWSAPSDKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTA 170

Query: 179 YVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKT 238
           YVPN+G  L  +++R  WD+ F  +++  L S   +++ GDLNV  + IDL NP  N K 
Sbjct: 171 YVPNAGRGLVRLEYRQRWDEAFRKFLK-GLASRKPLVLCGDLNVAHEEIDLRNPKGNKKN 229

Query: 239 AGYTVEERRNFRELLD-TGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVS 297
           AG+T +ER+ F ELL    L D+FRHLYP+   AYT+W++    AR  N GWRLDY L+S
Sbjct: 230 AGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMN-ARSKNVGWRLDYFLLS 288

Query: 298 EQLANNIKDCIIRSDVQGSTHCPVVLRLSL 327
             L   + D  IRS   GS HCP+ L L+L
Sbjct: 289 HSLLPALCDSKIRSKALGSDHCPITLYLAL 318
>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
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query327
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 100.0
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 100.0
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 100.0
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 100.0
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 100.0
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 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 100.0
4gew_A362 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.98
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 99.97
4fva_A256 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.97
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 99.97
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 99.96
4gz1_A256 Tyrosyl-DNA phosphodiesterase 2; protein-DNA compl 99.96
4f1h_A250 Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA com 99.96
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 99.95
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 99.95
3mpr_A298 Putative endonuclease/exonuclease/phosphatase FAM 99.94
1zwx_A301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 99.93
2ddr_A306 Sphingomyelin phosphodiesterase; DNAse I like fold 99.91
3i41_A317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 99.91
3ngq_A398 CCR4-NOT transcription complex subunit 6-like; alp 99.89
2f1n_A262 CDT B, cytolethal distending toxin subunit B; E.co 99.87
4b8c_D727 Glucose-repressible alcohol dehydrogenase transcr 99.84
1sr4_B261 CDT B, cytolethal distending toxin protein B; bact 99.83
2a40_B260 Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse 99.82
2imq_X282 Salivary nitrophorin; ferrous heme, beta-sandwich, 99.7
1i9z_A347 Synaptojanin, phosphatidylinositol phosphate phosp 99.62
2xsw_A357 72 kDa inositol polyphosphate 5-phosphatase; inosi 99.55
3mtc_A313 Type II inositol-1,4,5-trisphosphate 5-phosphatas; 99.34
4a9c_A316 Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; 99.05
>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=1.4e-43  Score=309.88  Aligned_cols=252  Identities=35%  Similarity=0.706  Sum_probs=218.0

Q ss_pred             ceEEEEEEcCCchhhhhhhhHHHHHHhcCCCEEEEeeeecCCCCcchhhhcccCCeEEEEEccCC-ceeeEEEEEeeCcc
Q psy6001          71 KVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMFWIGSDK-GQGGVGLLTKEKPL  149 (327)
Q Consensus        71 ~l~i~s~Ni~~~~~~~~~~~i~~~i~~~~~DIl~LQEv~~~~~~~~~~l~~~~~gy~~~~~~~~~-~~~Gvai~~k~~~~  149 (327)
                      .|+|+||||+|++...++. +.++|+.++||||||||++.....+...+.. ..||..++..... ++.|+||++|.++.
T Consensus         3 ~l~i~s~Nv~g~~~~~~~~-l~~~i~~~~~DIv~LQEt~~~~~~~~~~~~~-~~gy~~~~~~~~~~~~~Gvail~k~~~~   80 (265)
T 3g91_A            3 VLKIISWNVNGLRAVHRKG-FLKWFMEEKPDILCLQEIKAAPEQLPRKLRH-VEGYRSFFTPAERKGYSGVAMYTKVPPS   80 (265)
T ss_dssp             EEEEEEEECSCHHHHHHHT-HHHHHHHHCCSEEEEECCCSCGGGSCHHHHC-CTTCEEEEECBSSTTSCCEEEEESSCCS
T ss_pred             ccEEEEEEcCCchhhhhhh-HHHHHHhcCCCEEEEEeccccccccChhhhc-ccCCcEEEccCCCCCcCEEEEEEecChH
Confidence            3999999999998877654 9999999999999999998776555553432 5899988876654 77899999999988


Q ss_pred             eeEeCCCCC-CCCcCcEEEEEeCcEEEEEEeccCCCCcchhhHHHHHHHHHHHHHHHHHhcCCCcEEEEccCCCCCCccc
Q psy6001         150 TVKYGIPGV-SNQRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSID  228 (327)
Q Consensus       150 ~~~~~~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~l~~~~~~~~~~Ii~GDFN~~~~~~d  228 (327)
                      .+..++... .+..++++.+.+..+.++++|+|+.....+++++|..|++.|.+++.+....+.|+|||||||+.+.+.|
T Consensus        81 ~~~~~~~~~~~d~~gr~i~~~~~~~~i~~vy~p~~~~~~~~~~~r~~~~~~l~~~~~~~~~~~~~~ii~GDfN~~~~~~d  160 (265)
T 3g91_A           81 SLREGFGVERFDTEGRIQIADFDDFLLYNIYFPNGAMSEERLKYKLEFYDAFLEDVNRERDSGRNVIICGDFNTAHREID  160 (265)
T ss_dssp             EEECCCSCHHHHSBSCEEEEECSSCEEEEEECCCCTTCHHHHHHHHHHHHHHHHHHHHHHHTTCCEEEEEECCCCCSGGG
T ss_pred             HhccCCCCcccCCcCCEEEEEeCCEEEEEEEecCCCCCchhHHHHHHHHHHHHHHHHHHHcCCCCEEEECccccCCchhh
Confidence            877766555 6778999999999999999999999888788899999999999999832244799999999999999999


Q ss_pred             ccCCCCCcccCCCCHHHHHHHHHHhcCCceeeEeccCCCCCCCccccCCCCCCccCCCccceeEEEEeCcchhcccceee
Q psy6001         229 LANPDKNVKTAGYTVEERRNFRELLDTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQLANNIKDCI  308 (327)
Q Consensus       229 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~d~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~riD~il~s~~~~~~~~~~~  308 (327)
                      ..++..+.+..++.+.++..+..+++.|+.|+|+..+|... .||||++++ +.+..+.++||||||+++.+...+..+.
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~l~~~gl~D~~r~~~p~~~-~yT~~~~~~-~~~~~~~~~rID~il~s~~~~~~~~~~~  238 (265)
T 3g91_A          161 LARPKENSNVSGFLPVERAWIDKFIENGYVDTFRMFNSDPG-QYTWWSYRT-RARERNVGWRLDYFFVNEEFKGKVKRSW  238 (265)
T ss_dssp             BSCTGGGTTSTTSCHHHHHHHHHHHHTTEEETHHHHCCCSC-CCSBCCSST-TTTTTTCCBCCEEEEEEGGGGGGEEEEE
T ss_pred             ccCHhhcCCCCccCHHHHHHHHHHHhcCcEEeeHhhCCCCC-CCCCcCCCC-CccccCceEEEEEEEECHHHHhhhcEEE
Confidence            88888777888899999999999998899999999998866 599999988 7777778899999999999988888999


Q ss_pred             eccCCCCCCCcceEEEEe
Q psy6001         309 IRSDVQGSTHCPVVLRLS  326 (327)
Q Consensus       309 ~~~~~~~SDH~pV~~~~~  326 (327)
                      +.....+|||+||++++.
T Consensus       239 i~~~~~~SDH~Pv~~~~~  256 (265)
T 3g91_A          239 ILSDVMGSDHCPIGLEIE  256 (265)
T ss_dssp             ECTTCCSSSBCCEEEEEE
T ss_pred             EeCCCCCCCcceEEEEhh
Confidence            987777899999999985
>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
>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
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} 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
>2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus} 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
>4fva_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; HET: EDO; 2.07A {Caenorhabditis elegans} 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
>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
>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
>3l1w_A Uncharacterized protein; APC29019.2, conserved protein, enterococcus faecalis V583, PSI-2, MCSG, structural genomics; 1.60A {Enterococcus faecalis} 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
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 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
>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
>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
>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C} 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
>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
>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
>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 327
d1hd7a_275 d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human 2e-43
d1akoa_268 d.151.1.1 (A:) DNA-repair enzyme exonuclease III { 3e-42
d1vyba_236 d.151.1.1 (A:) Endonuclease domain of LINE-1 rever 3e-28
d2imqx1280 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug ( 8e-27
d2f1na1250 d.151.1.1 (A:1-250) Cytolethal distending toxin su 1e-26
d1wdua_228 d.151.1.1 (A:) Endonuclease domain of TRAS1 retrot 3e-22
d1sr4b_261 d.151.1.1 (B:) Cytolethal distending toxin subunit 1e-18
d1i9za_345 d.151.1.2 (A:) Synaptojanin, IPP5C domain {Fission 5e-10
d2ddra1299 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesteras 6e-10
d2a40b1260 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos 7e-09
d1zwxa1293 d.151.1.3 (A:41-333) Sphingomyelin phosphodiestera 6e-08
>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 =  148 bits (374), Expect = 2e-43
 Identities = 115/268 (42%), Positives = 164/268 (61%), Gaps = 9/268 (3%)

Query: 64  SRKPYTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSL 123
           S KP T  +K+ +WNV+GLRA +KK   ++++ EE PDI+ LQ+ +C E+++P   ++  
Sbjct: 13  SGKPAT--LKICSWNVDGLRAWIKKKG-LDWVKEEAPDILCLQETKCSENKLPAELQELP 69

Query: 124 SHYHMFWIGS--DKGQGGVGLLTKEKPLTVKYGIPGVSN-QRGRVITAKFKRFTFITVYV 180
              H +W      +G  GVGLL+++ PL V YGI    + Q GRVI A+F  F  +T YV
Sbjct: 70  GLSHQYWSAPSDKEGYSGVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYV 129

Query: 181 PNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIISGDLNVCLQSIDLANPDKNVKTAG 240
           PN+G  L  +++R  WD+ F  +++    S   +++ GDLNV  + IDL NP  N K AG
Sbjct: 130 PNAGRGLVRLEYRQRWDEAFRKFLKGL-ASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAG 188

Query: 241 YTVEERRNFRELL-DTGLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLVSEQ 299
           +T +ER+ F ELL    L D+FRHLYP+   AYT+W++    AR  N GWRLDY L+S  
Sbjct: 189 FTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMN-ARSKNVGWRLDYFLLSHS 247

Query: 300 LANNIKDCIIRSDVQGSTHCPVVLRLSL 327
           L   + D  IRS   GS HCP+ L L+L
Sbjct: 248 LLPALCDSKIRSKALGSDHCPITLYLAL 275
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} Length = 268 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
>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {Escherichia coli [TaxId: 562]} Length = 250 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
>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]} Length = 261 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
>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} Length = 299 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
>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]} Length = 293 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 ?
Query327
d1hd7a_275 DNA repair endonuclease Hap1 {Human (Homo sapiens) 100.0
d1vyba_236 Endonuclease domain of LINE-1 reverse transcriptas 100.0
d1wdua_228 Endonuclease domain of TRAS1 retrotransposon (ORF2 99.96
d1akoa_268 DNA-repair enzyme exonuclease III {Escherichia col 99.96
d2imqx1280 Salivary nitrophorin {Bedbug (Cimex lectularius) [ 99.91
d1zwxa1293 Sphingomyelin phosphodiesterase C {Listeria ivanov 99.9
d2ddra1299 Sphingomyelin phosphodiesterase C {Bacillus cereus 99.9
d2f1na1250 Cytolethal distending toxin subunit B {Escherichia 99.9
d1sr4b_261 Cytolethal distending toxin subunit B {Haemophilus 99.89
d2a40b1260 Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913 99.86
d1i9za_345 Synaptojanin, IPP5C domain {Fission yeast (Schizos 99.69
>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=100.00  E-value=3.9e-34  Score=248.16  Aligned_cols=260  Identities=44%  Similarity=0.821  Sum_probs=175.7

Q ss_pred             cCCCCCCCCceEEEEEEcCCchhhhhhhhHHHHHHhcCCCEEEEeeeecCCCCcchhhhcccCCeEEE-EEccCC--cee
Q psy6001          62 EGSRKPYTTKVKVSTWNVNGLRACVKKNACVEYILEENPDIMALQQIRCQEDEVPESFRKSLSHYHMF-WIGSDK--GQG  138 (327)
Q Consensus        62 ~~~~~~~~~~l~i~s~Ni~~~~~~~~~~~i~~~i~~~~~DIl~LQEv~~~~~~~~~~l~~~~~gy~~~-~~~~~~--~~~  138 (327)
                      .+.+.+..  |||+||||+|++...++. ++++|++++|||||||||+.....+...+.. ..||..+ +....+  +..
T Consensus        11 ~~~~~~~~--mki~S~NvnGlr~~~~~~-~~~~i~~~~pDIi~LQE~k~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~   86 (275)
T d1hd7a_          11 SPSGKPAT--LKICSWNVDGLRAWIKKK-GLDWVKEEAPDILCLQETKCSENKLPAELQE-LPGLSHQYWSAPSDKEGYS   86 (275)
T ss_dssp             CTTSCBCC--EEEEEEECSSHHHHHHTT-HHHHHHHHCCSEEEEECCCCCC------------CCCEEEEECC-----CC
T ss_pred             CCCCCCCc--EEEEEEEeccHHhhhhcc-HHHHHHhCCCCEEEEEccccChhhCCHHHHh-ccCcceeeeeeeccccccc
Confidence            34444444  999999999987665554 8899999999999999997655555443443 5666433 333322  567


Q ss_pred             eEEEEEeeCcceeEeCCCCC-CCCcCcEEEEEeCcEEEEEEeccCCCCcchhhHHHHHHHHHHHHHHHHHhcCCCcEEEE
Q psy6001         139 GVGLLTKEKPLTVKYGIPGV-SNQRGRVITAKFKRFTFITVYVPNSGIKLKAIDFRMIWDQHFYDYIQSELRSNSNIIIS  217 (327)
Q Consensus       139 Gvai~~k~~~~~~~~~~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~l~~~~~~~~~~Ii~  217 (327)
                      |++++++..+..+....... ....+.+.........+...+.+............... ..+............+++++
T Consensus        87 ~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~  165 (275)
T d1hd7a_          87 GVGLLSRQCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYRQRW-DEAFRKFLKGLASRKPLVLC  165 (275)
T ss_dssp             CEEEEESSCCSEEEESCSCGGGSSSSCEEEEECSSCEEEEEECCCCCGGGTTHHHHHHH-HHHHHHHHHHHHHHSCEEEE
T ss_pred             ccceecccCceeeeeccccccchhhhheeeeeecceeeeeeeeeeccccccchhhhhhh-cccccccccccccCCceEee
Confidence            88899998877776555444 55566777777777666666666555444333322211 11212222122456899999


Q ss_pred             ccCCCCCCcccccCCCCCcccCCCCHHHHHHHHHHhcC-CceeeEeccCCCCCCCccccCCCCCCccCCCccceeEEEEe
Q psy6001         218 GDLNVCLQSIDLANPDKNVKTAGYTVEERRNFRELLDT-GLVDAFRHLYPDEEGAYTYWSFRNKSARLNNKGWRLDYHLV  296 (327)
Q Consensus       218 GDFN~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-~l~d~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~riD~il~  296 (327)
                      ||||..+.+.+..+.............+...+..+++. ++.|+|+..++.....+|||+... +.+..+.++||||||+
T Consensus       166 gd~n~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~l~~~~~~D~~r~~~p~~~~~~t~~~~~~-~~~~~~~g~RIDyi~v  244 (275)
T d1hd7a_         166 GDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMM-NARSKNVGWRLDYFLL  244 (275)
T ss_dssp             EECSCCCSGGGBSCHHHHTTSTTSCHHHHHHHHHHHHHTTCEEHHHHHCTTCTTCCSBCCSGG-GHHHHTCCBCCEEEEE
T ss_pred             cccccCcchhhhccchhhhcccccccccchhhhhhhcccCcccceeeecCCcCCceeeccccC-CcccCCCCeEeEEEEe
Confidence            99999877665543333233344566667777777765 999999999887777799998887 6665667789999999


Q ss_pred             CcchhcccceeeeccCCCCCCCcceEEEEeC
Q psy6001         297 SEQLANNIKDCIIRSDVQGSTHCPVVLRLSL  327 (327)
Q Consensus       297 s~~~~~~~~~~~~~~~~~~SDH~pV~~~~~l  327 (327)
                      |+++...+.++.+.....+|||+||+++|+|
T Consensus       245 s~~l~~~v~~~~i~~~~~~SDH~PV~v~l~l  275 (275)
T d1hd7a_         245 SHSLLPALCDSKIRSKALGSDHCPITLYLAL  275 (275)
T ss_dssp             CGGGGGGEEEEEECTTCCSSSBCCEEEEECC
T ss_pred             ChHHhhheeEEEECCCCCCCCcccEEEEEEC
Confidence            9999888888888877778999999999986
>d1vyba_ d.151.1.1 (A:) Endonuclease domain of LINE-1 reverse transcriptase homolog {Human (Homo sapiens) [TaxId: 9606]} 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
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} 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
>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]} 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
>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
>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