Citrus Sinensis ID: 019834

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-------330-----
MKRFFKPIEKECSAKKPALSPSKKDGETTETSSEENSKKDPLKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLELSEASSDSEKREKKNLDE
ccccccccccccccccccccccccccccccccccccccccccEEEEEEHHHHHHHHHcccHHHHHHHHHccccEEEEEcccccccccccccccEEEEcccccccEEEEEEEccccccEEEEccccccccccccccEEEEEEccEEEEEEEEccccccccccHHHHHHHHHHHHHHHHHHcccccEEEEcccccccccccccccHHHHHHHccccccccccccccccccHHHHHHHHHHHHcccEEEEcccccccccccEEEEcccccccccccccEEEEEEEccHHHHHHHHcEEEcccccccccccccccccEEEEEccccccHHHHHHHcccc
cccEEEEccccccccccccccccccccccccccccccccccEEEEEEcccHHHHHHccccHHHHHHHHHccccEEEEEEcccccccccccccHHHHHHHcccccEEEEEEccccccEEEEEcccccHHHcccccEEEEEEcccEEEEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEccccccHHHEccHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHccccEccHHHccccccccEEEEEEEcHHHHHHccccEEEEEEEcHHHHHHHHHccccHHHHHcccccccccccEEEEEccccccccccccccccc
mkrffkpiekecsakkpalspskkdgettetsseenskkdplkFVTWNANSLLLRVknnwpefsnfittfdpDVIALQILMRalssppfknyqIWWSLADSKYAGTALLVKKcfqpkkvsFSLEKTalkyepdgrVILAEFETFYLLntyapnngwkeeENSFQRRRKWDKRIQEFVLQcsgkpliwcgdlnvsheeidvshpeFFAAAklngyvppnkedwgqpgftiAERKRFGAILKEGRLIDAYRFLHkekdmdcgfswsgnpigkyrgkrmridYFIVSEELKDRIIACEMQghgielegfygsdhcpvslelseassdsEKREKKNLDE
mkrffkpiekecsakkpalspskkdgettetsseenskkdplkfVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKcfqpkkvsfslektalkyepdGRVILAEFETFYLLNTyapnngwkeeeNSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKekdmdcgfswsgnpigkyrgkrMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLelseassdsekrekknlde
MKRFFKPIEKECsakkpalspskkdgettetsseenskkDPLKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVslelseassdseKREKKNLDE
*****************************************LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPV*********************
******************************************KFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLE******************
MKRFFKPIEKEC***************************DPLKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLEL*****************
********EK****************************KDPLKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLELSEA**************
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MKRFFKPIEKECSAKKPALSPSKKDGETTETSSEENSKKDPLKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLELSEASSDSEKREKKNLDE
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 ?
Query335 2.2.26 [Sep-21-2011]
P43138317 DNA-(apurinic or apyrimid yes no 0.829 0.876 0.303 1e-29
P28352317 DNA-(apurinic or apyrimid yes no 0.829 0.876 0.303 1e-29
A2T6Y4318 DNA-(apurinic or apyrimid yes no 0.820 0.864 0.3 7e-29
A1YFZ3318 DNA-(apurinic or apyrimid N/A no 0.820 0.864 0.3 7e-29
A2T7I6318 DNA-(apurinic or apyrimid N/A no 0.820 0.864 0.3 7e-29
P27695318 DNA-(apurinic or apyrimid yes no 0.820 0.864 0.3 1e-28
A1YES6318 DNA-(apurinic or apyrimid N/A no 0.817 0.861 0.305 2e-28
P51173361 DNA-(apurinic or apyrimid yes no 0.752 0.698 0.305 2e-28
P37454252 Exodeoxyribonuclease OS=B yes no 0.722 0.960 0.313 4e-27
P23196318 DNA-(apurinic or apyrimid yes no 0.820 0.864 0.284 2e-26
>sp|P43138|APEX1_RAT DNA-(apurinic or apyrimidinic site) lyase OS=Rattus norvegicus GN=Apex1 PE=1 SV=2 Back     alignment and function desciption
 Score =  130 bits (328), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 98/323 (30%), Positives = 163/323 (50%), Gaps = 45/323 (13%)

Query: 6   KPIEKECSAKKPALSPSKKDGETTETSSEENSKKDPLKFVTWNANSLLLRVKNNWPEFSN 65
           K  EKE + + P L     D +T+ +      K   LK  +WN + L   +K    +  +
Sbjct: 30  KKTEKEAAGEGPVLYEDPPDQKTSASG-----KSATLKICSWNVDGLRAWIKK---KGLD 81

Query: 66  FITTFDPDVIALQ-------ILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPK 117
           ++    PD++ LQ        L   L   P   +Q W + +D + Y+G  LL ++C  P 
Sbjct: 82  WVKEEAPDILCLQETKCSENKLPAELQELPGLTHQYWSAPSDKEGYSGVGLLSRQC--PL 139

Query: 118 KVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFV 177
           KVS+ + +   +++ +GRVI+AEFE+F L+  Y PN G        + R++WD+  ++F+
Sbjct: 140 KVSYGIGEE--EHDQEGRVIVAEFESFILVTAYVPNAG--RGLVRLEYRQRWDEAFRKFL 195

Query: 178 LQ-CSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFG 236
               S KPL+ CGDLNV+HEEID+ +P+             NK++    GFT  ER+ FG
Sbjct: 196 KDLASRKPLVLCGDLNVAHEEIDLRNPKG------------NKKN---AGFTPQERQGFG 240

Query: 237 AILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEM 296
            +L+   L D++R L+        F W+     + +    R+DYF++S  L   +   ++
Sbjct: 241 EMLQAVPLADSFRHLYPNTAYAYTF-WTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKI 299

Query: 297 QGHGIELEGFYGSDHCPVSLELS 319
           +   +      GSDHCP++L L+
Sbjct: 300 RSKAL------GSDHCPITLYLA 316
Multifunctional protein that plays a central role in the cellular response to oxidative stress. The two major activities of APEX1 in DNA repair and redox regulation of transcriptional factors. Functions as a apurinic/apyrimidinic (AP) endodeoxyribonuclease in the DNA base excision repair (BER) pathway of DNA lesions induced by oxidative and alkylating agents. Initiates repair of AP sites in DNA by catalyzing hydrolytic incision of the phosphodiester backbone immediately adjacent to the damage, generating a single-strand break with 5'-deoxyribose phosphate and 3'-hydroxyl ends. Does also incise at AP sites in the DNA strand of DNA/RNA hybrids, single-stranded DNA regions of R-loop structures, and single-stranded RNA molecules. Has a 3'-5' exoribonuclease activity on mismatched deoxyribonucleotides at the 3' termini of nicked or gapped DNA molecules during short-patch BER. Possesses a DNA 3' phosphodiesterase activity capable of removing lesions (such as phosphoglycolate) blocking the 3' side of DNA strand breaks. May also play a role in the epigenetic regulation of gene expression by participating in DNA demethylation. Acts as a loading factor for POLB onto non-incised AP sites in DNA and stimulates the 5'-terminal deoxyribose 5'-phosphate (dRp) excision activity of POLB. Plays a role in the protection from granzymes-mediated cellular repair leading to cell death. Also involved in the DNA cleavage step of class switch recombination (CSR). On the other hand, APEX1 also exerts reversible nuclear redox activity to regulate DNA binding affinity and transcriptional activity of transcriptional factors by controlling the redox status of their DNA-binding domain, such as the FOS/JUN AP-1 complex after exposure to IR. Involved in calcium-dependent down-regulation of parathyroid hormone (PTH) expression by binding to negative calcium response elements (nCaREs). Together with HNRNPL or the dimer XRCC5/XRCC6, associates with nCaRE, acting as an activator of transcriptional repression. Stimulates the YBX1-mediated MDR1 promoter activity, when acetylated at Lys-6, leading to drug resistance. Acts also as an endoribonuclease involved in the control of single-stranded RNA metabolism. Plays a role in regulating MYC mRNA turnover by preferentially cleaving in between UA and CA dinucleotides of the MYC coding region determinant (CRD). In association with NMD1, plays a role in the rRNA quality control process during cell cycle progression. Associates, together with YBX1, on the MDR1 promoter. Together with NPM1, associates with rRNA. Binds DNA and RNA.
Rattus norvegicus (taxid: 10116)
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|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
>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|A1YES6|APEX1_GORGO DNA-(apurinic or apyrimidinic site) lyase OS=Gorilla gorilla gorilla GN=APEX1 PE=3 SV=1 Back     alignment and function description
>sp|P51173|APEA_DICDI DNA-(apurinic or apyrimidinic site) lyase OS=Dictyostelium discoideum GN=apeA PE=2 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|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 ?
Query335
224133800366 predicted protein [Populus trichocarpa] 0.970 0.887 0.732 1e-149
297816036 684 hypothetical protein ARALYDRAFT_347932 [ 0.988 0.483 0.701 1e-147
449487730361 PREDICTED: LOW QUALITY PROTEIN: DNA-(apu 0.964 0.894 0.714 1e-146
449469598361 PREDICTED: DNA-(apurinic or apyrimidinic 0.964 0.894 0.714 1e-146
225456791357 PREDICTED: DNA-(apurinic or apyrimidinic 0.970 0.910 0.703 1e-145
4678346 686 putative protein [Arabidopsis thaliana] 0.988 0.482 0.690 1e-145
42565714364 endonuclease/exonuclease/phosphatase dom 0.988 0.909 0.690 1e-144
356508768355 PREDICTED: exodeoxyribonuclease-like [Gl 0.940 0.887 0.688 1e-141
358348989367 DNA-(apurinic or apyrimidinic site) lyas 0.958 0.874 0.682 1e-138
46200513348 putative AP endonuclease [Sorghum bicolo 0.982 0.945 0.647 1e-131
>gi|224133800|ref|XP_002321664.1| predicted protein [Populus trichocarpa] gi|222868660|gb|EEF05791.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
 Score =  533 bits (1373), Expect = e-149,   Method: Compositional matrix adjust.
 Identities = 266/363 (73%), Positives = 295/363 (81%), Gaps = 38/363 (10%)

Query: 1   MKRFFKPIEKECSAKKPALSPSKKDGETTE------TSSEENS-KKDPLKFVTWNANSLL 53
           MKRFFKPIEK+ SAKKP LS +++D E  E      T++  N+ KK+PLKF+TWNANSLL
Sbjct: 1   MKRFFKPIEKDGSAKKPTLSTNQEDNEKKEASESEETNNNGNTMKKEPLKFITWNANSLL 60

Query: 54  LRVKNNWPEFSNFITTFDPDVIALQ-------------------------------ILMR 82
           LRVKNNWP FS F++  DPDVI +Q                               ILMR
Sbjct: 61  LRVKNNWPGFSKFVSDIDPDVIVIQEVRMPAAGSKGAPKNSGEIKDDTNSSREEKKILMR 120

Query: 83  ALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFE 142
           ALSS PF NY +WWSLADSKYAGTALLVKKCFQP KVSF+L++TA K+EPDGRVILAEF+
Sbjct: 121 ALSSSPFGNYNVWWSLADSKYAGTALLVKKCFQPVKVSFALDQTASKHEPDGRVILAEFK 180

Query: 143 TFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSH 202
           TF LLNTYAPNNGWKEEE SFQRRRKWDKR+ E V+Q S KPLIWCGDLNVSHEEIDVSH
Sbjct: 181 TFRLLNTYAPNNGWKEEEKSFQRRRKWDKRMLEVVVQLSDKPLIWCGDLNVSHEEIDVSH 240

Query: 203 PEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFS 262
           PEFF+AAK+NGYVPPNKED GQPGFT++ERKRFGAILKEG+LIDAYRFLHKE+DM+ GFS
Sbjct: 241 PEFFSAAKVNGYVPPNKEDCGQPGFTLSERKRFGAILKEGKLIDAYRFLHKERDMERGFS 300

Query: 263 WSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLELSEAS 322
           WSGNPIGKYRGKRMRID+FIVSE+LKDRII CEM GHGIELEGFYGSDHCPVSLELS AS
Sbjct: 301 WSGNPIGKYRGKRMRIDFFIVSEKLKDRIIQCEMHGHGIELEGFYGSDHCPVSLELSPAS 360

Query: 323 SDS 325
            DS
Sbjct: 361 PDS 363

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|297816036|ref|XP_002875901.1| hypothetical protein ARALYDRAFT_347932 [Arabidopsis lyrata subsp. lyrata] gi|297321739|gb|EFH52160.1| hypothetical protein ARALYDRAFT_347932 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|449487730|ref|XP_004157772.1| PREDICTED: LOW QUALITY PROTEIN: DNA-(apurinic or apyrimidinic site) lyase-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449469598|ref|XP_004152506.1| PREDICTED: DNA-(apurinic or apyrimidinic site) lyase-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|225456791|ref|XP_002277389.1| PREDICTED: DNA-(apurinic or apyrimidinic site) lyase [Vitis vinifera] gi|297733638|emb|CBI14885.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|4678346|emb|CAB41156.1| putative protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|42565714|ref|NP_566904.2| endonuclease/exonuclease/phosphatase domain-containing protein [Arabidopsis thaliana] gi|53828525|gb|AAU94372.1| At3g48425 [Arabidopsis thaliana] gi|55733769|gb|AAV59281.1| At3g48425 [Arabidopsis thaliana] gi|332644894|gb|AEE78415.1| endonuclease/exonuclease/phosphatase domain-containing protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|356508768|ref|XP_003523126.1| PREDICTED: exodeoxyribonuclease-like [Glycine max] Back     alignment and taxonomy information
>gi|358348989|ref|XP_003638523.1| DNA-(apurinic or apyrimidinic site) lyase [Medicago truncatula] gi|355504458|gb|AES85661.1| DNA-(apurinic or apyrimidinic site) lyase [Medicago truncatula] Back     alignment and taxonomy information
>gi|46200513|gb|AAL73527.2|AF466200_6 putative AP endonuclease [Sorghum bicolor] 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 ?
Query335
TAIR|locus:505006392364 AT3G48425 [Arabidopsis thalian 0.707 0.651 0.818 2.7e-126
GENEDB_PFALCIPARUM|PFC0250c617 PFC0250c "AP endonuclease (DNA 0.722 0.392 0.412 2.3e-50
UNIPROTKB|O97240617 PFC0250c "AP endonuclease (DNA 0.722 0.392 0.412 2.3e-50
TAIR|locus:2060540536 ARP "apurinic endonuclease-red 0.561 0.350 0.321 2.3e-28
DICTYBASE|DDB_G0277701361 apeA "DNA-(apurinic or apyrimi 0.674 0.626 0.324 1e-27
ZFIN|ZDB-GENE-040426-2761310 apex1 "APEX nuclease (multifun 0.546 0.590 0.300 9.4e-27
MGI|MGI:88042317 Apex1 "apurinic/apyrimidinic e 0.659 0.697 0.321 5.9e-25
RGD|2126317 Apex1 "APEX nuclease (multifun 0.659 0.697 0.321 7.6e-25
UNIPROTKB|Q9Z2J2317 APE "Apurinic/apyrimidinic end 0.659 0.697 0.321 9.7e-25
UNIPROTKB|J9PA46318 APEX1 "Uncharacterized protein 0.659 0.694 0.321 1.2e-24
TAIR|locus:505006392 AT3G48425 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1082 (385.9 bits), Expect = 2.7e-126, Sum P(2) = 2.7e-126
 Identities = 194/237 (81%), Positives = 218/237 (91%)

Query:    78 QILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVI 137
             QIL RALSSPPF NY +WWSLADSKYAGTALLVKKCF+P+KV F+L+K A K+EPDGRVI
Sbjct:   110 QILTRALSSPPFGNYGVWWSLADSKYAGTALLVKKCFKPRKVYFNLDKLASKHEPDGRVI 169

Query:   138 LAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEE 197
             LAEFETF LLNTY+PNNGWK+EEN+FQRRRKWDKRI EF+ + S KPLIWCGDLNVSHEE
Sbjct:   170 LAEFETFRLLNTYSPNNGWKDEENAFQRRRKWDKRIVEFLNKTSDKPLIWCGDLNVSHEE 229

Query:   198 IDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDM 257
             IDVSHPEFFA AKLNGYVPPNKED GQPGFT +ER RFGA +KEGRL+DAYR+LHKE++M
Sbjct:   230 IDVSHPEFFATAKLNGYVPPNKEDCGQPGFTPSERGRFGATIKEGRLVDAYRYLHKEQEM 289

Query:   258 DCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPV 314
             + GFSWSGNPIGKYRGKRMRIDYF+VSE+LKDRI++C+M G GIELEGF+GSDHCPV
Sbjct:   290 ESGFSWSGNPIGKYRGKRMRIDYFLVSEQLKDRIVSCKMHGRGIELEGFHGSDHCPV 346
GO:0004518 "nuclease activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0006281 "DNA repair" evidence=IEA
GO:0016787 "hydrolase activity" evidence=ISS
GO:0009507 "chloroplast" evidence=IDA
GENEDB_PFALCIPARUM|PFC0250c PFC0250c "AP endonuclease (DNA-(apurinic or apyrimidinic site) lyase), putative" [Plasmodium falciparum (taxid:5833)] Back     alignment and assigned GO terms
UNIPROTKB|O97240 PFC0250c "AP endonuclease (DNA-[apurinic or apyrimidinic site] lyase), putative" [Plasmodium falciparum 3D7 (taxid:36329)] Back     alignment and assigned GO terms
TAIR|locus:2060540 ARP "apurinic endonuclease-redox protein" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0277701 apeA "DNA-(apurinic or apyrimidinic site) lyase" [Dictyostelium discoideum (taxid:44689)] 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
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|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

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) ?
P43138APEX1_RAT4, ., 2, ., 9, 9, ., 1, 80.30340.82980.8769yesno
P28352APEX1_MOUSE4, ., 2, ., 9, 9, ., 1, 80.30340.82980.8769yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer4.2.99LOW CONFIDENCE prediction!
4th Layer4.2.99.18LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
eugene3.00150677
hypothetical protein (366 aa)
(Populus trichocarpa)
Predicted Functional Partners:
gw1.X.1153.1
hypothetical protein; Excises uracil residues from the DNA which can arise as a result of misin [...] (216 aa)
   •  • 0.523
fgenesh4_pg.C_LG_VI000370
hypothetical protein (331 aa)
  •     0.505

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query335
cd09087253 cd09087, Ape1-like_AP-endo, Human Ape1-like subfam 3e-91
cd09073251 cd09073, ExoIII_AP-endo, Escherichia coli exonucle 3e-53
COG0708261 COG0708, XthA, Exonuclease III [DNA replication, r 4e-52
TIGR00633255 TIGR00633, xth, exodeoxyribonuclease III (xth) 6e-48
TIGR00195254 TIGR00195, exoDNase_III, exodeoxyribonuclease III 8e-43
cd09085252 cd09085, Mth212-like_AP-endo, Methanothermobacter 4e-36
cd09086254 cd09086, ExoIII-like_AP-endo, Escherichia coli exo 3e-32
PRK13911250 PRK13911, PRK13911, exodeoxyribonuclease III; Prov 7e-32
cd09088309 cd09088, Ape2-like_AP-endo, Human Ape2-like subfam 9e-26
cd10281253 cd10281, Nape_like_AP-endo, Neisseria meningitides 4e-24
cd09076236 cd09076, L1-EN, Endonuclease domain (L1-EN) of the 3e-21
cd08372241 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase 1e-20
PRK11756268 PRK11756, PRK11756, exonuclease III; Provisional 5e-12
pfam03372143 pfam03372, Exo_endo_phos, Endonuclease/Exonuclease 5e-09
cd09080248 cd09080, TDP2, Phosphodiesterase domain of human T 1e-05
cd09084246 cd09084, EEP-2, Exonuclease-Endonuclease-Phosphata 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 =  272 bits (698), Expect = 3e-91
 Identities = 99/286 (34%), Positives = 151/286 (52%), Gaps = 42/286 (14%)

Query: 42  LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPP------FKNYQIW 95
           LK ++WN N L   +K       +++   DPD++ LQ         P       K Y  +
Sbjct: 1   LKIISWNVNGLRALLKKG---LLDYVKKEDPDILCLQETKLQEGDVPKELKELLKGYHQY 57

Query: 96  WSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNN 154
           W+ A+ K Y+GTA+L KK   P  V++ +     +++ +GRVI AEFE FYL+NTY PN+
Sbjct: 58  WNAAEKKGYSGTAILSKKK--PLSVTYGIGIE--EHDQEGRVITAEFENFYLVNTYVPNS 113

Query: 155 GWKEEENSFQRRRKWDKRIQEFVLQC-SGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNG 213
           G   E     RR++WD   + ++ +  S KP+IWCGDLNV+HEEID+++P+         
Sbjct: 114 GRGLE--RLDRRKEWDVDFRAYLKKLDSKKPVIWCGDLNVAHEEIDLANPKTNK------ 165

Query: 214 YVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIG-KYR 272
                       GFT  ER+ F  +L+ G  +D +R LH +K+    +++       + +
Sbjct: 166 ---------KSAGFTPEERESFTELLEAG-FVDTFRHLHPDKEGA--YTFWSYRGNARAK 213

Query: 273 GKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLEL 318
               R+DYF+VSE LKDR++   +           GSDHCP+ LEL
Sbjct: 214 NVGWRLDYFLVSERLKDRVVDSFI------RSDIMGSDHCPIGLEL 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|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|233064 TIGR00633, xth, exodeoxyribonuclease III (xth) 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|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|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|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|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|217520 pfam03372, Exo_endo_phos, Endonuclease/Exonuclease/phosphatase family 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|197318 cd09084, EEP-2, Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2 Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 335
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 99.89
COG3568259 ElsH Metal-dependent hydrolase [General function p 99.85
TIGR03395283 sphingomy sphingomyelin phosphodiesterase. Members 99.83
PRK15251271 cytolethal distending toxin subunit CdtB; Provisio 99.81
PTZ00297 1452 pantothenate kinase; Provisional 99.79
PLN03144606 Carbon catabolite repressor protein 4 homolog; Pro 99.78
KOG2756349 consensus Predicted Mg2+-dependent phosphodiestera 99.76
KOG1294335 consensus Apurinic/apyrimidinic endonuclease and r 99.74
KOG3873 422 consensus Sphingomyelinase family protein [Signal 99.74
PF03372249 Exo_endo_phos: Endonuclease/Exonuclease/phosphatas 99.7
smart00476276 DNaseIc deoxyribonuclease I. Deoxyribonuclease I c 99.6
KOG2338495 consensus Transcriptional effector CCR4-related pr 99.46
COG3021309 Uncharacterized protein conserved in bacteria [Fun 99.43
PF14529119 Exo_endo_phos_2: Endonuclease-reverse transcriptas 99.36
COG5239378 CCR4 mRNA deadenylase, exonuclease subunit and rel 99.12
smart00128310 IPPc Inositol polyphosphate phosphatase, catalytic 99.02
KOG0620361 consensus Glucose-repressible alcohol dehydrogenas 98.98
COG2374798 Predicted extracellular nuclease [General function 98.75
KOG0566 1080 consensus Inositol-1,4,5-triphosphate 5-phosphatas 98.29
COG5411 460 Phosphatidylinositol 5-phosphate phosphatase [Sign 96.31
PLN03191621 Type I inositol-1,4,5-trisphosphate 5-phosphatase 95.91
PTZ00312356 inositol-1,4,5-triphosphate 5-phosphatase; Provisi 89.41
>COG0708 XthA Exonuclease III [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=3.8e-47  Score=332.07  Aligned_cols=251  Identities=31%  Similarity=0.544  Sum_probs=211.7

Q ss_pred             cEEEEEecccchhhhcCChhHHHHHHhhcCCcEEEEeccccccCCCC-----CCCceEEEeccCCCcceEEEEEeecCCC
Q 019834           42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSPP-----FKNYQIWWSLADSKYAGTALLVKKCFQP  116 (335)
Q Consensus        42 lrI~swNv~~~~~~~~~~~~~l~~~i~~~~~DIv~LQEv~~~~~~~~-----~~~y~~~~~~~~~~~~Gvailsr~~l~~  116 (335)
                      |||+||||||++.+.    ..+.+++.+.+||||||||++..-.+++     ..||+.++..+.++|+||||+||.+  +
T Consensus         1 mkI~SwNVNgiRar~----~~~~~~l~~~~pDVlclQEtK~~~~~fp~~~~~~~GY~~~~~~gqKgysGVailsr~~--~   74 (261)
T COG0708           1 MKIASWNVNGLRARL----KKLLDWLEEEQPDVLCLQETKAQDEQFPREELEALGYHHVFNHGQKGYSGVAILSKKP--P   74 (261)
T ss_pred             CeeEEEehhhHHHHH----HHHHHHHHHhCCCEEEEEecccCcccCCHhHHhhCCceEEEecCcCCcceEEEEEccC--c
Confidence            799999999999999    5699999999999999999985443322     3699666666789999999999986  4


Q ss_pred             ceEEeccccccccCCCCCCEEEEEeCcEEEEEEEcCCCCC-CcchhhHHHHHHHHHHHHHHHHhc--CCCCEEEEccCCC
Q 019834          117 KKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGW-KEEENSFQRRRKWDKRIQEFVLQC--SGKPLIWCGDLNV  193 (335)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~r~i~~~~~~~~i~~~y~~~~~~-~~~~~~~~~r~~~~~~l~~~l~~~--~~~p~Il~GDFN~  193 (335)
                      ..+..+++. ....+.++|+|.+.+..+.|+|+|+|++.. +.  +++.+|..|++.+..++.+.  .+.|+|+|||||.
T Consensus        75 ~~v~~g~~~-~~~~d~e~R~I~a~~~~~~v~~~Y~PnG~~~~~--~k~~yKl~f~~~l~~~l~~l~~~~~~~vl~GD~NI  151 (261)
T COG0708          75 DDVRRGFPG-EEEDDEEGRVIEAEFDGFRVINLYFPNGSSIGL--EKFDYKLRFLDALRNYLEELLKKGKPVVLCGDFNI  151 (261)
T ss_pred             hhhhcCCCC-CccccccCcEEEEEECCEEEEEEEcCCCCCCCC--cchHHHHHHHHHHHHHHHHHhhcCCCEEEeccccc
Confidence            456666653 123566899999999999999999999997 43  55888999999999999873  5699999999999


Q ss_pred             CCCcccCcCc-hhhhhhhcCCCCCCCCCCCCCCCCCHHHHHHHHHHhccCCeeEeeecccCCCCCCceeeeeCCCCCCc-
Q 019834          194 SHEEIDVSHP-EFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKY-  271 (335)
Q Consensus       194 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~~~~~~~~~~~~~~T~~~~~~~~~-  271 (335)
                      .|...|.+++ +.|.             +.+.++++++++++|..+++.| |+|++|.++|...   .||||+++...+ 
T Consensus       152 ap~~iDv~~~~~~~~-------------n~~~~~f~~eeR~~~~~ll~~G-~~D~~R~~~p~~~---~YTwW~YR~~~~~  214 (261)
T COG0708         152 APEEIDVANPKKRWL-------------NEGNSGFLPEERAWFRRLLNAG-FVDTFRLFHPEPE---KYTWWDYRANAAR  214 (261)
T ss_pred             CCchhcccCchhhhh-------------cCCCCCCCHHHHHHHHHHHHcc-hhhhhHhhCCCCC---cccccccccchhh
Confidence            9999999988 4442             2488999999999999999988 9999999999874   599999987744 


Q ss_pred             CCCcceeEEEEeChhhhcceeeeeeccCccccCCcCCCCccceEEEEec
Q 019834          272 RGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLELSE  320 (335)
Q Consensus       272 ~~~~~riD~i~~s~~~~~~~~~~~v~~~~~~~~~~~~SDH~pV~~~~~~  320 (335)
                      .+.|.||||+++|+.+..+++++.+..+..  ....+|||+||.++|++
T Consensus       215 ~n~G~RID~~l~S~~L~~~~~~a~I~~~~r--g~e~pSDHaPV~~e~~~  261 (261)
T COG0708         215 RNRGWRIDYILVSPALADRLKDAGIDREVR--GWEKPSDHAPVWVELDL  261 (261)
T ss_pred             hcCceeEEEEEeCHHHHHHHHhcCccHHHh--cCCCCCCcCcEEEEecC
Confidence            568999999999999999999999986432  23578999999999974

>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
>COG3568 ElsH Metal-dependent hydrolase [General function prediction only] Back     alignment and domain information
>TIGR03395 sphingomy sphingomyelin phosphodiesterase Back     alignment and domain information
>PRK15251 cytolethal distending toxin subunit CdtB; Provisional Back     alignment and domain information
>PTZ00297 pantothenate kinase; Provisional Back     alignment and domain information
>PLN03144 Carbon catabolite repressor protein 4 homolog; Provisional Back     alignment and domain information
>KOG2756 consensus Predicted Mg2+-dependent phosphodiesterase TTRAP [Signal transduction mechanisms] Back     alignment and domain information
>KOG1294 consensus Apurinic/apyrimidinic endonuclease and related enzymes [Replication, recombination and repair] Back     alignment and domain information
>KOG3873 consensus Sphingomyelinase family protein [Signal transduction mechanisms] 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
>smart00476 DNaseIc deoxyribonuclease I Back     alignment and domain information
>KOG2338 consensus Transcriptional effector CCR4-related protein [Transcription] 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 Glucose-repressible alcohol dehydrogenase transcriptional effector CCR4 and related proteins [Transcription] Back     alignment and domain information
>COG2374 Predicted extracellular nuclease [General function prediction only] Back     alignment and domain information
>KOG0566 consensus Inositol-1,4,5-triphosphate 5-phosphatase (synaptojanin), INP51/INP52/INP53 family [Intracellular trafficking, secretion, and vesicular transport] Back     alignment and domain information
>COG5411 Phosphatidylinositol 5-phosphate phosphatase [Signal transduction mechanisms] Back     alignment and domain information
>PLN03191 Type I inositol-1,4,5-trisphosphate 5-phosphatase 2; Provisional Back     alignment and domain information
>PTZ00312 inositol-1,4,5-triphosphate 5-phosphatase; 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 ?
Query335
2o3h_A285 Crystal Structure Of The Human C65a Ape Length = 28 6e-27
1e9n_A318 A Second Divalent Metal Ion In The Active Site Of A 7e-27
2isi_A317 Crystal Structure Of Ape1 From Homo Sapiens In A Ne 7e-27
1bix_A287 The Crystal Structure Of The Human Dna Repair Endon 8e-27
1dew_A279 Crystal Structure Of Human Ape1 Bound To Abasic Dna 8e-27
1de8_B276 Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bo 9e-27
2o3c_A282 Crystal Structure Of Zebrafish Ape Length = 282 2e-22
3g91_A265 1.2 Angstrom Structure Of The Exonuclease Iii Homol 6e-18
3fzi_A265 1.9 Angstrom Structure Of The Thermophilic Exonucle 1e-17
3g00_A265 Mth0212 In Complex With A 9bp Blunt End Dsdna At 1. 3e-17
2jc4_A256 3'-5' Exonuclease (Nexo) From Neisseria Meningitidi 2e-12
2voa_A257 Structure Of An Ap Endonuclease From Archaeoglobus 2e-09
2jc5_A259 Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From 8e-09
2j63_A467 Crystal Structure Of Ap Endonuclease Lmap From Leis 1e-08
4b5h_A259 Substate Bound Inactive Mutant Of Neisseria Ap Endo 3e-08
1ako_A268 Exonuclease Iii From Escherichia Coli Length = 268 1e-06
>pdb|2O3H|A Chain A, Crystal Structure Of The Human C65a Ape Length = 285 Back     alignment and structure 
Iteration: 1

 Score =  118 bits (295), Expect = 6e-27,   Method: Compositional matrix adjust.
 Identities = 86/282 (30%), Positives = 145/282 (51%), Gaps = 40/282 (14%)
Query: 42  LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQ-------ILMRALSSPPFKNYQI 94
           LK  +WN + L   +K    +  +++    PD++ LQ        L   L   P  ++Q 
Sbjct: 29  LKIASWNVDGLRAWIKK---KGLDWVKEEAPDILCLQETKCSENKLPAELQELPGLSHQY 85
Query: 95  WWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPN 153
           W + +D + Y+G  LL ++C  P KVS+ +     +++ +GRVI+AEF++F L+  Y PN
Sbjct: 86  WSAPSDKEGYSGVGLLSRQC--PLKVSYGIGDE--EHDQEGRVIVAEFDSFVLVTAYVPN 141
Query: 154 NGWKEEENSFQRRRKWDKRIQEFVLQ-CSGKPLIWCGDLNVSHEEIDVSHPEFFAAAKLN 212
            G        + R++WD+  ++F+    S KPL+ CGDLNV+HEEID+ +P+        
Sbjct: 142 AG--RGLVRLEYRQRWDEAFRKFLKGLASRKPLVLCGDLNVAHEEIDLRNPKG------- 192
Query: 213 GYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYR 272
                NK++    GFT  ER+ FG +L+   L D++R L+        F W+     + +
Sbjct: 193 -----NKKN---AGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTF-WTYMMNARSK 243
Query: 273 GKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPV 314
               R+DYF++S  L   +   +++   +      GSDHCP+
Sbjct: 244 NVGWRLDYFLLSHSLLPALCDSKIRSKAL------GSDHCPI 279
>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|2O3C|A Chain A, Crystal Structure Of Zebrafish Ape Length = 282 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|2JC4|A Chain A, 3'-5' Exonuclease (Nexo) From Neisseria Meningitidis Length = 256 Back     alignment and structure
>pdb|2VOA|A Chain A, Structure Of An Ap Endonuclease From Archaeoglobus Fulgidus Length = 257 Back     alignment and structure
>pdb|2JC5|A Chain A, Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From Neisseria Meningitidis 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|4B5H|A Chain A, Substate Bound Inactive Mutant Of Neisseria Ap Endonuclease In Presence Of Metal Ions Length = 259 Back     alignment and structure
>pdb|1AKO|A Chain A, Exonuclease Iii From Escherichia Coli Length = 268 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 ?
Query335
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 4e-59
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 2e-58
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 2e-56
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 1e-54
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 3e-50
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 8e-50
1ako_A268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 1e-35
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 1e-31
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 8e-29
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 8e-16
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 1e-12
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 5e-09
3i41_A317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 3e-08
2ddr_A306 Sphingomyelin phosphodiesterase; DNAse I like fold 2e-07
1zwx_A301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 1e-06
3mpr_A298 Putative endonuclease/exonuclease/phosphatase FAM 2e-05
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 9e-05
>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
 Score =  190 bits (486), Expect = 4e-59
 Identities = 94/325 (28%), Positives = 152/325 (46%), Gaps = 60/325 (18%)

Query: 13  SAKKPALSPSKKDGETTETSSEENSKKDPLKFVTWNANSLLLR--VKNNWPEFSNFITTF 70
           S          +D    +TS     K   LK  +WN + L  R  +K       +++   
Sbjct: 2   SHMASEGPALYEDPPDQKTSPS--GKPATLKIASWNVDGL--RAWIKKK---GLDWVKEE 54

Query: 71  DPDVIALQ-------ILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFS 122
            PD++ LQ        L   L   P  ++Q W + +D + Y+G  LL ++   P KVS+ 
Sbjct: 55  APDILCLQETKCSENKLPAELQELPGLSHQYWSAPSDKEGYSGVGLLSRQ--CPLKVSYG 112

Query: 123 LEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQC-S 181
           +     +++ +GRVI+AEF++F L+  Y PN G       +  R++WD+  ++F+    S
Sbjct: 113 IGDE--EHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEY--RQRWDEAFRKFLKGLAS 168

Query: 182 GKPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKE 241
            KPL+ CGDLNV+HEEID+ +P+             NK      GFT  ER+ FG +L+ 
Sbjct: 169 RKPLVLCGDLNVAHEEIDLRNPK------------GNK---KNAGFTPQERQGFGELLQA 213

Query: 242 GRLIDAYRFLHKEKDMDCGFS-WSGNPIGKYRGK-R-----MRIDYFIVSEELKDRIIAC 294
             L D++R L+        ++ W+      Y    R      R+DYF++S  L   +   
Sbjct: 214 VPLADSFRHLYPNTPYA--YTFWT------YMMNARSKNVGWRLDYFLLSHSLLPALCDS 265

Query: 295 EMQGHGIELEGFYGSDHCPVSLELS 319
           ++           GSDHCP++L L+
Sbjct: 266 KI------RSKALGSDHCPITLYLA 284
>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
>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
>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
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} Length = 467 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
>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
>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
>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
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query335
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 100.0
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 100.0
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 100.0
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 100.0
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 100.0
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 100.0
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 100.0
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 100.0
1ako_A268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 100.0
4gew_A362 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.97
4fva_A256 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.96
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 99.96
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 99.96
4gz1_A256 Tyrosyl-DNA phosphodiesterase 2; protein-DNA compl 99.95
4f1h_A250 Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA com 99.95
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 99.95
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 99.93
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 99.93
3mpr_A298 Putative endonuclease/exonuclease/phosphatase FAM 99.91
1zwx_A301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 99.9
3i41_A317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 99.89
2ddr_A306 Sphingomyelin phosphodiesterase; DNAse I like fold 99.88
2f1n_A262 CDT B, cytolethal distending toxin subunit B; E.co 99.83
3ngq_A398 CCR4-NOT transcription complex subunit 6-like; alp 99.81
1sr4_B261 CDT B, cytolethal distending toxin protein B; bact 99.8
2a40_B260 Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse 99.76
4b8c_D727 Glucose-repressible alcohol dehydrogenase transcr 99.73
2imq_X282 Salivary nitrophorin; ferrous heme, beta-sandwich, 99.5
1i9z_A347 Synaptojanin, phosphatidylinositol phosphate phosp 99.47
2xsw_A357 72 kDa inositol polyphosphate 5-phosphatase; inosi 99.31
3mtc_A313 Type II inositol-1,4,5-trisphosphate 5-phosphatas; 99.03
4a9c_A316 Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; 98.81
>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=3.6e-37  Score=276.38  Aligned_cols=251  Identities=27%  Similarity=0.531  Sum_probs=196.1

Q ss_pred             ccEEEEEecccchhhhcCChhHHHHHHhhcCCcEEEEeccccccCCC-----CCCCceEEEecc-CCCcceEEEEEeecC
Q 019834           41 PLKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRALSSP-----PFKNYQIWWSLA-DSKYAGTALLVKKCF  114 (335)
Q Consensus        41 ~lrI~swNv~~~~~~~~~~~~~l~~~i~~~~~DIv~LQEv~~~~~~~-----~~~~y~~~~~~~-~~~~~Gvailsr~~l  114 (335)
                      .|||+||||+|++.+.+   ..+.++|++.+||||||||++......     ...+|..++... ..++.|++|++|.+ 
T Consensus         3 ~l~i~s~Nv~g~~~~~~---~~l~~~i~~~~~DIv~LQEt~~~~~~~~~~~~~~~gy~~~~~~~~~~~~~Gvail~k~~-   78 (265)
T 3g91_A            3 VLKIISWNVNGLRAVHR---KGFLKWFMEEKPDILCLQEIKAAPEQLPRKLRHVEGYRSFFTPAERKGYSGVAMYTKVP-   78 (265)
T ss_dssp             EEEEEEEECSCHHHHHH---HTHHHHHHHHCCSEEEEECCCSCGGGSCHHHHCCTTCEEEEECBSSTTSCCEEEEESSC-
T ss_pred             ccEEEEEEcCCchhhhh---hhHHHHHHhcCCCEEEEEeccccccccChhhhcccCCcEEEccCCCCCcCEEEEEEecC-
Confidence            69999999999988764   258999999999999999997432221     136898777643 35578999999986 


Q ss_pred             CCceEEeccccccccCCCCCCEEEEEeCcEEEEEEEcCCCCCCcchhhHHHHHHHHHHHHHHHHhc--CCCCEEEEccCC
Q 019834          115 QPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQC--SGKPLIWCGDLN  192 (335)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~r~i~~~~~~~~i~~~y~~~~~~~~~~~~~~~r~~~~~~l~~~l~~~--~~~p~Il~GDFN  192 (335)
                       +..+...+.  ....+..+|++.+....+.|+++|+|+....  ..++..|..+++.+.+++.+.  .+.++|||||||
T Consensus        79 -~~~~~~~~~--~~~~d~~gr~i~~~~~~~~i~~vy~p~~~~~--~~~~~~r~~~~~~l~~~~~~~~~~~~~~ii~GDfN  153 (265)
T 3g91_A           79 -PSSLREGFG--VERFDTEGRIQIADFDDFLLYNIYFPNGAMS--EERLKYKLEFYDAFLEDVNRERDSGRNVIICGDFN  153 (265)
T ss_dssp             -CSEEECCCS--CHHHHSBSCEEEEECSSCEEEEEECCCCTTC--HHHHHHHHHHHHHHHHHHHHHHHTTCCEEEEEECC
T ss_pred             -hHHhccCCC--CcccCCcCCEEEEEeCCEEEEEEEecCCCCC--chhHHHHHHHHHHHHHHHHHHHcCCCCEEEECccc
Confidence             333433332  1223467899999999999999999998863  356667889999999988764  368999999999


Q ss_pred             CCCCcccCcCchhhhhhhcCCCCCCCCCCCCCCCCCHHHHHHHHHHhccCCeeEeeecccCCCCCCceeeeeCCCCCCc-
Q 019834          193 VSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKY-  271 (335)
Q Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~~~~~~~~~~~~~~T~~~~~~~~~-  271 (335)
                      +.+...|..++..               ..+..++.+.++..+..+++. +|+|+|+..+|..   ..|||+++..+.. 
T Consensus       154 ~~~~~~d~~~~~~---------------~~~~~~~~~~~~~~~~~l~~~-gl~D~~r~~~p~~---~~yT~~~~~~~~~~  214 (265)
T 3g91_A          154 TAHREIDLARPKE---------------NSNVSGFLPVERAWIDKFIEN-GYVDTFRMFNSDP---GQYTWWSYRTRARE  214 (265)
T ss_dssp             CCCSGGGBSCTGG---------------GTTSTTSCHHHHHHHHHHHHT-TEEETHHHHCCCS---CCCSBCCSSTTTTT
T ss_pred             cCCchhhccCHhh---------------cCCCCccCHHHHHHHHHHHhc-CcEEeeHhhCCCC---CCCCCcCCCCCccc
Confidence            9998877776542               236778889899999999954 4999999999875   4799998766544 


Q ss_pred             CCCcceeEEEEeChhhhcceeeeeeccCccccCCcCCCCccceEEEEecCCCch
Q 019834          272 RGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLELSEASSDS  325 (335)
Q Consensus       272 ~~~~~riD~i~~s~~~~~~~~~~~v~~~~~~~~~~~~SDH~pV~~~~~~~~~~~  325 (335)
                      .+.+.||||||+|.++..++..+.+...      ..+|||+||+++|..+..+.
T Consensus       215 ~~~~~rID~il~s~~~~~~~~~~~i~~~------~~~SDH~Pv~~~~~~~~~~~  262 (265)
T 3g91_A          215 RNVGWRLDYFFVNEEFKGKVKRSWILSD------VMGSDHCPIGLEIELLEHHH  262 (265)
T ss_dssp             TTCCBCCEEEEEEGGGGGGEEEEEECTT------CCSSSBCCEEEEEECCCCC-
T ss_pred             cCceEEEEEEEECHHHHhhhcEEEEeCC------CCCCCcceEEEEhhhhhhcc
Confidence            4567899999999999988999998753      36799999999999776543
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} Back     alignment and structure
>2voa_A AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP endonuclease, lyase; 1.7A {Archaeoglobus fulgidus} 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
>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
>2jc4_A Exodeoxyribonuclease III; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: 1PE; 1.90A {Neisseria meningitidis} 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
>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
>1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1 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
>4fva_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; HET: EDO; 2.07A {Caenorhabditis elegans} 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
>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
>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-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
>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
>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
>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
>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
>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 335
d1hd7a_275 d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human 3e-26
d1akoa_268 d.151.1.1 (A:) DNA-repair enzyme exonuclease III { 9e-23
d1wdua_228 d.151.1.1 (A:) Endonuclease domain of TRAS1 retrot 8e-17
d2f1na1250 d.151.1.1 (A:1-250) Cytolethal distending toxin su 3e-15
d2imqx1280 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug ( 4e-15
d1vyba_236 d.151.1.1 (A:) Endonuclease domain of LINE-1 rever 5e-14
d2ddra1299 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesteras 1e-10
d1zwxa1293 d.151.1.3 (A:41-333) Sphingomyelin phosphodiestera 4e-09
d2a40b1260 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos 8e-09
d1sr4b_261 d.151.1.1 (B:) Cytolethal distending toxin subunit 3e-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 =  103 bits (256), Expect = 3e-26
 Identities = 79/289 (27%), Positives = 125/289 (43%), Gaps = 36/289 (12%)

Query: 38  KKDPLKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQ-------ILMRALSSPPFK 90
           K   LK  +WN + L   +K       +++    PD++ LQ        L   L   P  
Sbjct: 15  KPATLKICSWNVDGLRAWIKKK---GLDWVKEEAPDILCLQETKCSENKLPAELQELPGL 71

Query: 91  NYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEPDGRVILAEFETFYLLNTY 150
           ++Q W + +D +      L+ +   P KVS+ +       E    V  AEF++F L+  Y
Sbjct: 72  SHQYWSAPSDKEGYSGVGLLSR-QCPLKVSYGIGDEEHDQEGRVIV--AEFDSFVLVTAY 128

Query: 151 APNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSHPEFFAAAK 210
            PN G       +++R     R        S KPL+ CGDLNV+HEEID+ +P+      
Sbjct: 129 VPNAGRGLVRLEYRQRWDEAFRKFLKG-LASRKPLVLCGDLNVAHEEIDLRNPKGN---- 183

Query: 211 LNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGK 270
                          GFT  ER+ FG +L+   L D++R L+        F W+     +
Sbjct: 184 -----------KKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTF-WTYMMNAR 231

Query: 271 YRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLELS 319
            +    R+DYF++S  L   +   ++           GSDHCP++L L+
Sbjct: 232 SKNVGWRLDYFLLSHSLLPALCDSKI------RSKALGSDHCPITLYLA 274
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} Length = 268 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
>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {Escherichia coli [TaxId: 562]} Length = 250 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
>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
>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
>d2a40b1 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913]} Length = 260 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

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query335
d1vyba_236 Endonuclease domain of LINE-1 reverse transcriptas 99.97
d1hd7a_275 DNA repair endonuclease Hap1 {Human (Homo sapiens) 99.96
d1wdua_228 Endonuclease domain of TRAS1 retrotransposon (ORF2 99.94
d1akoa_268 DNA-repair enzyme exonuclease III {Escherichia col 99.93
d2ddra1299 Sphingomyelin phosphodiesterase C {Bacillus cereus 99.9
d1zwxa1293 Sphingomyelin phosphodiesterase C {Listeria ivanov 99.89
d2f1na1250 Cytolethal distending toxin subunit B {Escherichia 99.89
d2imqx1280 Salivary nitrophorin {Bedbug (Cimex lectularius) [ 99.84
d2a40b1260 Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913 99.81
d1sr4b_261 Cytolethal distending toxin subunit B {Haemophilus 99.81
d1i9za_345 Synaptojanin, IPP5C domain {Fission yeast (Schizos 99.59
>d1vyba_ d.151.1.1 (A:) Endonuclease domain of LINE-1 reverse transcriptase homolog {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: Endonuclease domain of LINE-1 reverse transcriptase homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.97  E-value=1.2e-30  Score=226.75  Aligned_cols=227  Identities=24%  Similarity=0.351  Sum_probs=151.4

Q ss_pred             CCCccEEEEEecccchhhhcCChhHHHHHHhhcCCcEEEEecccccc---CCCCCCCceEEEe-ccCCCcceEEEEEeec
Q 019834           38 KKDPLKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQILMRAL---SSPPFKNYQIWWS-LADSKYAGTALLVKKC  113 (335)
Q Consensus        38 ~~~~lrI~swNv~~~~~~~~~~~~~l~~~i~~~~~DIv~LQEv~~~~---~~~~~~~y~~~~~-~~~~~~~Gvailsr~~  113 (335)
                      ..++|||+||||+|++...+.  ..|.++|++.+|||||||||+...   ......++.+++. .......|++|+++++
T Consensus         2 ~~~~~kv~s~Nv~g~~~~~~~--~~i~~~i~~~~~DIi~LQE~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~i~~k~~   79 (236)
T d1vyba_           2 SNSHITILTLNINGLNSAIKR--HRLASWIKSQDPSVCCIQETHLTCRDTHRLKIKGWRKIYQANGKQKKAGVAILVSDK   79 (236)
T ss_dssp             CCCCEEEEEEECSCCCSHHHH--HHHHHHHHHHCCSEEEEECCCCCTTSGGGCCCTTCCEEEEECCSSSSCCEEEEECTT
T ss_pred             CCCCeEEEEEEcCCccchhhH--HHHHHHHHHCCCeEEEEEcccCccccchhhhhcccceEEEeeccccccceeeEeecc
Confidence            457999999999999765543  789999999999999999986322   2222334444443 3345578999999997


Q ss_pred             CCCceEEeccccccccCCCCCCEEEEEe----CcEEEEEEEcCCCCCCcchhhHHHHHHHHHHHHHHHHhcCCCCEEEEc
Q 019834          114 FQPKKVSFSLEKTALKYEPDGRVILAEF----ETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCG  189 (335)
Q Consensus       114 l~~~~~~~~~~~~~~~~~~~~r~i~~~~----~~~~i~~~y~~~~~~~~~~~~~~~r~~~~~~l~~~l~~~~~~p~Il~G  189 (335)
                      +.........       ...+++..+..    ..+.++++|+++...          ..+...+...+....+.|+|++|
T Consensus        80 ~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~----------~~~~~~~~~~~~~~~~~~~Il~G  142 (236)
T d1vyba_          80 TDFKPTKIKR-------DKEGHYIMVKGSIQQEELTILNIYAPNTGA----------PRFIKQVLSDLQRDLDSHTLIMG  142 (236)
T ss_dssp             CCCEEEEEEE-------CTTSSEEEEEEEETTEEEEEEEEECCSSSH----------HHHHHHHHHHTTTTCCTTEEEEE
T ss_pred             cccccccccc-------cccccceeeeeeeccCcceeEEeccccccc----------HHHHHhhhhhhcccccceeEEee
Confidence            5322222211       23344433333    369999999987662          12233334344344678999999


Q ss_pred             cCCCCCCcccCcCchhhhhhhcCCCCCCCCCCCCCCCCCHHHHHHHHHHhccCCeeEeeecccCCCCCCceeeeeCCCCC
Q 019834          190 DLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIG  269 (335)
Q Consensus       190 DFN~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~~~~~~~~~~~~~~T~~~~~~~  269 (335)
                      |||..+...+....                     ..... +...+...+...++.|+|+..++..   ..+||+.... 
T Consensus       143 DfN~~~~~~d~~~~---------------------~~~~~-~~~~~~~~~~~~~~~d~~r~~~~~~---~~~~~~~~~~-  196 (236)
T d1vyba_         143 DFNTPLSTLDRSTR---------------------QKVNK-DTQELNSALHQADLIDIYRTLHPKS---TEYTFFSAPH-  196 (236)
T ss_dssp             ECSSCSSGGGBTTC---------------------CCCCH-HHHHHHHHHHHTTEEEHHHHHCTTC---CCCSEEETTT-
T ss_pred             ccccccchhhhccc---------------------ccchh-hHHHHHHHHHhhhcccccceeccCC---ccccccCCCC-
Confidence            99987776544321                     12222 3344555555566999999887665   4577765332 


Q ss_pred             CcCCCcceeEEEEeChhhhcceeeeeeccCccccCCcCCCCccceEEEEe
Q 019834          270 KYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPVSLELS  319 (335)
Q Consensus       270 ~~~~~~~riD~i~~s~~~~~~~~~~~v~~~~~~~~~~~~SDH~pV~~~~~  319 (335)
                         +...||||||+|+.+..++..+.+.+.       .+|||+||+++|.
T Consensus       197 ---~~~~RiD~il~s~~~~~~~~~~~i~~~-------~~SDH~pv~~~lk  236 (236)
T d1vyba_         197 ---HTYSKIDHIVGSKALLSKCKRTEIITN-------YLSDHSAIKLELR  236 (236)
T ss_dssp             ---TEEECCEEEEEEGGGGGGEEEEEEECC-------SSSSSCEEEEEEC
T ss_pred             ---CCCceeEEEEEChHHHhhceEEEECCC-------CCCCcccEEEEeC
Confidence               234799999999999888888887752       5799999999984
>d1hd7a_ d.151.1.1 (A:) DNA repair endonuclease Hap1 {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
>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} 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
>d2imqx1 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug (Cimex lectularius) [TaxId: 79782]} 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
>d1sr4b_ d.151.1.1 (B:) Cytolethal distending toxin subunit B {Haemophilus ducreyi [TaxId: 730]} 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