Citrus Sinensis ID: 048138

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--
IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLILKL
ccccEEEcccccccccccccEEEEEcccEEEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHccccEEEEcccHHccccccccccccccccccccHHHHHHHHHHHHccccEEEEccccccccccccccccccccccccccEEEEEcccHHHHHHHHHccccccccccccccEEEEEEc
ccccEEEEccccHHHcccccEEEEEccccEEEEEEcccccHHHccHHHHHHHHHHHHHHHHHHHHccccEEEEEEccccccHHHEccHHHHcccccccHHHHHHHHHHHHHcccEEHHHHcccccccccEEccHHHccccccEEccEEEEEcHHHHHHEEEEEEccccccccEccEEEEEcc
ikplsvtyglgisdhdsegrlvtaeFDSFFLLScyvpnsgdglrRLSYritewdpsLSSYVKELekkkpviltgdlncahqeidiynpagnrrsagftdeerqsfganflskgfvdtfraqhrgvvgytywgyrhggrktnrgwrlDYFLVSQSladkfhdsyilpdvtgsdhspiglilkl
ikplsvtyglgisdhdseGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILpdvtgsdhspiglilkl
IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLILKL
******TYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELEKKKPVILTGDLNCAHQEIDIYNPAG*************SFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTG************
IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLILKL
IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLILKL
IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLILKL
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLILKL
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 ?
Query182 2.2.26 [Sep-21-2011]
P45951536 Apurinic endonuclease-red yes no 1.0 0.339 0.807 1e-88
P37454252 Exodeoxyribonuclease OS=B yes no 0.983 0.710 0.516 3e-53
P51173361 DNA-(apurinic or apyrimid yes no 0.989 0.498 0.516 6e-50
P43138317 DNA-(apurinic or apyrimid yes no 0.983 0.564 0.491 5e-47
P28352317 DNA-(apurinic or apyrimid yes no 0.983 0.564 0.491 1e-46
A0MTA1310 DNA-(apurinic or apyrimid yes no 0.983 0.577 0.505 2e-46
A2T6Y4318 DNA-(apurinic or apyrimid yes no 0.983 0.562 0.497 3e-46
A1YFZ3318 DNA-(apurinic or apyrimid N/A no 0.983 0.562 0.497 3e-46
P23196318 DNA-(apurinic or apyrimid yes no 0.983 0.562 0.486 3e-46
P27695318 DNA-(apurinic or apyrimid yes no 0.983 0.562 0.497 4e-46
>sp|P45951|ARP_ARATH Apurinic endonuclease-redox protein OS=Arabidopsis thaliana GN=ARP PE=2 SV=2 Back     alignment and function desciption
 Score =  325 bits (832), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 147/182 (80%), Positives = 165/182 (90%)

Query: 1   IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSY 60
           IKPLSV YG G+S HD+EGR+VTAEFDSF+L++ YVPNSGDGL+RLSYRI EWD +LS++
Sbjct: 355 IKPLSVRYGTGLSGHDTEGRIVTAEFDSFYLINTYVPNSGDGLKRLSYRIEEWDRTLSNH 414

Query: 61  VKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRA 120
           +KELEK KPV+LTGDLNCAH+EIDI+NPAGN+RSAGFT EERQSFGAN L KGFVDTFR 
Sbjct: 415 IKELEKSKPVVLTGDLNCAHEEIDIFNPAGNKRSAGFTIEERQSFGANLLDKGFVDTFRK 474

Query: 121 QHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLIL 180
           QH GVVGYTYWGYRHGGRKTN+GWRLDYFLVSQS+A   HDSYILPD+ GSDH PIGLIL
Sbjct: 475 QHPGVVGYTYWGYRHGGRKTNKGWRLDYFLVSQSIAANVHDSYILPDINGSDHCPIGLIL 534

Query: 181 KL 182
           KL
Sbjct: 535 KL 536
Repairs oxidative DNA damages, seems also to act as a redox factor. Is multifunctional and may be involved both in DNA repair and in the regulation of transcription.
Arabidopsis thaliana (taxid: 3702)
EC: 4EC: .EC: 2EC: .EC: 9EC: 9EC: .EC: 1EC: 8
>sp|P37454|EXOA_BACSU Exodeoxyribonuclease OS=Bacillus subtilis (strain 168) GN=exoA PE=1 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|P43138|APEX1_RAT DNA-(apurinic or apyrimidinic site) lyase OS=Rattus norvegicus GN=Apex1 PE=1 SV=2 Back     alignment and function description
>sp|P28352|APEX1_MOUSE DNA-(apurinic or apyrimidinic site) lyase OS=Mus musculus GN=Apex1 PE=1 SV=2 Back     alignment and function description
>sp|A0MTA1|APEX1_DANRE DNA-(apurinic or apyrimidinic site) lyase OS=Danio rerio GN=apex1 PE=1 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|P23196|APEX1_BOVIN DNA-(apurinic or apyrimidinic site) lyase OS=Bos taurus GN=APEX1 PE=1 SV=2 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

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 ?
Query182
356537505 543 PREDICTED: LOW QUALITY PROTEIN: apurinic 1.0 0.335 0.846 5e-91
356498631 507 PREDICTED: apurinic endonuclease-redox p 1.0 0.358 0.846 6e-91
224137778 428 predicted protein [Populus trichocarpa] 1.0 0.425 0.840 2e-90
255578467 486 ap endonuclease, putative [Ricinus commu 1.0 0.374 0.818 1e-89
449437801 501 PREDICTED: apurinic endonuclease-redox p 1.0 0.363 0.818 5e-88
297739882 542 unnamed protein product [Vitis vinifera] 1.0 0.335 0.824 7e-88
359482196 479 PREDICTED: apurinic endonuclease-redox p 1.0 0.379 0.824 8e-88
413952189 530 hypothetical protein ZEAMMB73_201373 [Ze 1.0 0.343 0.780 9e-88
170665740 538 apurinic endonuclease-redox protein [Ara 1.0 0.338 0.809 2e-87
226529129 510 LOC100280514 [Zea mays] gi|195604980|gb| 1.0 0.356 0.780 2e-87
>gi|356537505|ref|XP_003537267.1| PREDICTED: LOW QUALITY PROTEIN: apurinic endonuclease-redox protein-like [Glycine max] Back     alignment and taxonomy information
 Score =  338 bits (867), Expect = 5e-91,   Method: Compositional matrix adjust.
 Identities = 154/182 (84%), Positives = 170/182 (93%)

Query: 1   IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSY 60
           IKPLSV YGLGISDHDSEGRLVTAEFD+F+L+  YVPNSGDGL+RLSYR+TEWDPSLS+Y
Sbjct: 362 IKPLSVRYGLGISDHDSEGRLVTAEFDTFYLICGYVPNSGDGLKRLSYRVTEWDPSLSNY 421

Query: 61  VKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRA 120
           +KELEK KPVILTGDLNCAH+EIDIYNPAGN+RSAG TDEER+SF  NFLS+GFVDTFR 
Sbjct: 422 LKELEKSKPVILTGDLNCAHEEIDIYNPAGNKRSAGLTDEERKSFATNFLSRGFVDTFRR 481

Query: 121 QHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLIL 180
           QH GV+GYTYWGYRHGGRK NRGWRLDYFLVS+S+ADK HDSYILPDVTGSDH PIGL++
Sbjct: 482 QHPGVIGYTYWGYRHGGRKFNRGWRLDYFLVSESIADKVHDSYILPDVTGSDHCPIGLVV 541

Query: 181 KL 182
           KL
Sbjct: 542 KL 543

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|356498631|ref|XP_003518153.1| PREDICTED: apurinic endonuclease-redox protein-like [Glycine max] Back     alignment and taxonomy information
>gi|224137778|ref|XP_002322649.1| predicted protein [Populus trichocarpa] gi|222867279|gb|EEF04410.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|255578467|ref|XP_002530098.1| ap endonuclease, putative [Ricinus communis] gi|223530409|gb|EEF32297.1| ap endonuclease, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449437801|ref|XP_004136679.1| PREDICTED: apurinic endonuclease-redox protein-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|297739882|emb|CBI30064.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|359482196|ref|XP_002274714.2| PREDICTED: apurinic endonuclease-redox protein-like [Vitis vinifera] Back     alignment and taxonomy information
>gi|413952189|gb|AFW84838.1| hypothetical protein ZEAMMB73_201373 [Zea mays] Back     alignment and taxonomy information
>gi|170665740|gb|ACB29409.1| apurinic endonuclease-redox protein [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|226529129|ref|NP_001146906.1| LOC100280514 [Zea mays] gi|195604980|gb|ACG24320.1| apurinic endonuclease-redox protein [Zea mays] 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 ?
Query182
TAIR|locus:2060540536 ARP "apurinic endonuclease-red 1.0 0.339 0.807 2e-81
DICTYBASE|DDB_G0277701361 apeA "DNA-(apurinic or apyrimi 0.989 0.498 0.516 2.3e-48
TIGR_CMR|BA_3868252 BA_3868 "exodeoxyribonuclease 0.961 0.694 0.494 3.8e-46
ZFIN|ZDB-GENE-040426-2761310 apex1 "APEX nuclease (multifun 0.972 0.570 0.511 1.5e-44
UNIPROTKB|Q9Z2J2317 APE "Apurinic/apyrimidinic end 0.983 0.564 0.497 1.9e-44
RGD|2126317 Apex1 "APEX nuclease (multifun 0.983 0.564 0.491 3.1e-44
MGI|MGI:88042317 Apex1 "apurinic/apyrimidinic e 0.983 0.564 0.491 5e-44
UNIPROTKB|P27695318 APEX1 "DNA-(apurinic or apyrim 0.983 0.562 0.497 6.4e-44
UNIPROTKB|A1YFZ3318 APEX1 "DNA-(apurinic or apyrim 0.983 0.562 0.497 6.4e-44
UNIPROTKB|A2T6Y4318 APEX1 "DNA-(apurinic or apyrim 0.983 0.562 0.497 6.4e-44
TAIR|locus:2060540 ARP "apurinic endonuclease-redox protein" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 817 (292.7 bits), Expect = 2.0e-81, P = 2.0e-81
 Identities = 147/182 (80%), Positives = 165/182 (90%)

Query:     1 IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSY 60
             IKPLSV YG G+S HD+EGR+VTAEFDSF+L++ YVPNSGDGL+RLSYRI EWD +LS++
Sbjct:   355 IKPLSVRYGTGLSGHDTEGRIVTAEFDSFYLINTYVPNSGDGLKRLSYRIEEWDRTLSNH 414

Query:    61 VKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRA 120
             +KELEK KPV+LTGDLNCAH+EIDI+NPAGN+RSAGFT EERQSFGAN L KGFVDTFR 
Sbjct:   415 IKELEKSKPVVLTGDLNCAHEEIDIFNPAGNKRSAGFTIEERQSFGANLLDKGFVDTFRK 474

Query:   121 QHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLIL 180
             QH GVVGYTYWGYRHGGRKTN+GWRLDYFLVSQS+A   HDSYILPD+ GSDH PIGLIL
Sbjct:   475 QHPGVVGYTYWGYRHGGRKTNKGWRLDYFLVSQSIAANVHDSYILPDINGSDHCPIGLIL 534

Query:   181 KL 182
             KL
Sbjct:   535 KL 536
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0003677 "DNA binding" evidence=IEA
GO:0004518 "nuclease activity" evidence=IEA
GO:0004519 "endonuclease activity" evidence=IEA
GO:0005622 "intracellular" evidence=IEA
GO:0006281 "DNA repair" evidence=IEA
GO:0042644 "chloroplast nucleoid" evidence=IDA
GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA
GO:0008284 "positive regulation of cell proliferation" evidence=RCA
GO:0009640 "photomorphogenesis" evidence=RCA
GO:0010388 "cullin deneddylation" evidence=RCA
GO:0016567 "protein ubiquitination" evidence=RCA
GO:0016571 "histone methylation" evidence=RCA
GO:0016579 "protein deubiquitination" evidence=RCA
GO:0043687 "post-translational protein modification" evidence=RCA
GO:0045893 "positive regulation of transcription, DNA-dependent" evidence=RCA;TAS
GO:0048573 "photoperiodism, flowering" evidence=RCA
GO:0051276 "chromosome organization" evidence=RCA
GO:0003906 "DNA-(apurinic or apyrimidinic site) lyase activity" evidence=IDA
DICTYBASE|DDB_G0277701 apeA "DNA-(apurinic or apyrimidinic site) lyase" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
TIGR_CMR|BA_3868 BA_3868 "exodeoxyribonuclease III" [Bacillus anthracis str. Ames (taxid:198094)] 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
UNIPROTKB|Q9Z2J2 APE "Apurinic/apyrimidinic endonuclease" [Cricetulus griseus (taxid:10029)] 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
MGI|MGI:88042 Apex1 "apurinic/apyrimidinic endonuclease 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|P27695 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|A1YFZ3 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Pan paniscus (taxid:9597)] Back     alignment and assigned GO terms
UNIPROTKB|A2T6Y4 APEX1 "DNA-(apurinic or apyrimidinic site) lyase" [Pan troglodytes (taxid:9598)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
P0A2X4EXOA_STRR63, ., 1, ., 1, 1, ., 20.50580.92300.6109yesno
P0A2X3EXOA_STRPN3, ., 1, ., 1, 1, ., 20.50580.92300.6109yesno
P37454EXOA_BACSU3, ., 1, ., 1, 1, ., 20.51640.98350.7103yesno
P45951ARP_ARATH4, ., 2, ., 9, 9, ., 1, 80.80761.00.3395yesno

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 Layer4.2.990.691
4th Layer4.2.99.180.737

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
gw1.XVI.1419.1
hypothetical protein (428 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)
   •  • 0.753
eugene3.27440001
Peptide exporter, ABC transporter family protein (648 aa)
      • 0.731
gw1.XIII.413.1
annotation not avaliable (325 aa)
   •••• 0.637
fgenesh4_pg.C_LG_VII000186
hypothetical protein (362 aa)
     •• 0.635
gw1.XIV.3952.1
hypothetical protein (420 aa)
    • • 0.631
gw1.V.1402.1
SubName- Full=Putative uncharacterized protein; (326 aa)
      • 0.615
gw1.IX.5004.1
hypothetical protein (664 aa)
   • •• 0.609
grail3.17963000101
Predicted protein (126 aa)
•     • 0.608
gw1.V.2541.1
hypothetical protein (1081 aa)
   • •• 0.522
estExt_fgenesh4_pm.C_LG_XVI0187
hypothetical protein (198 aa)
      • 0.502

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 ?
Query182
cd09087253 cd09087, Ape1-like_AP-endo, Human Ape1-like subfam 1e-104
TIGR00633255 TIGR00633, xth, exodeoxyribonuclease III (xth) 5e-91
cd09073251 cd09073, ExoIII_AP-endo, Escherichia coli exonucle 4e-75
cd09085252 cd09085, Mth212-like_AP-endo, Methanothermobacter 4e-64
PRK13911250 PRK13911, PRK13911, exodeoxyribonuclease III; Prov 9e-63
TIGR00195254 TIGR00195, exoDNase_III, exodeoxyribonuclease III 2e-62
COG0708261 COG0708, XthA, Exonuclease III [DNA replication, r 2e-61
cd10281253 cd10281, Nape_like_AP-endo, Neisseria meningitides 3e-46
cd09086254 cd09086, ExoIII-like_AP-endo, Escherichia coli exo 1e-41
cd09088309 cd09088, Ape2-like_AP-endo, Human Ape2-like subfam 5e-28
cd08372241 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase 2e-17
cd09076236 cd09076, L1-EN, Endonuclease domain (L1-EN) of the 9e-16
PRK11756268 PRK11756, PRK11756, exonuclease III; Provisional 9e-16
cd09083252 cd09083, EEP-1, Exonuclease-Endonuclease-Phosphata 4e-06
cd09084246 cd09084, EEP-2, Exonuclease-Endonuclease-Phosphata 7e-06
cd09077205 cd09077, R1-I-EN, Endonuclease domain encoded by v 1e-04
>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 =  299 bits (768), Expect = e-104
 Identities = 107/181 (59%), Positives = 130/181 (71%), Gaps = 3/181 (1%)

Query: 1   IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSY 60
            KPLSVTYG+GI +HD EGR++TAEF++F+L++ YVPNSG GL RL  R  EWD    +Y
Sbjct: 75  KKPLSVTYGIGIEEHDQEGRVITAEFENFYLVNTYVPNSGRGLERLDRR-KEWDVDFRAY 133

Query: 61  VKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRA 120
           +K+L+ KKPVI  GDLN AH+EID+ NP  N++SAGFT EER+SF    L  GFVDTFR 
Sbjct: 134 LKKLDSKKPVIWCGDLNVAHEEIDLANPKTNKKSAGFTPEERESFTE-LLEAGFVDTFRH 192

Query: 121 QHRGVVG-YTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLI 179
            H    G YT+W YR   R  N GWRLDYFLVS+ L D+  DS+I  D+ GSDH PIGL 
Sbjct: 193 LHPDKEGAYTFWSYRGNARAKNVGWRLDYFLVSERLKDRVVDSFIRSDIMGSDHCPIGLE 252

Query: 180 L 180
           L
Sbjct: 253 L 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|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|139971 PRK13911, PRK13911, exodeoxyribonuclease III; Provisional Back     alignment and domain information
>gnl|CDD|188032 TIGR00195, exoDNase_III, exodeoxyribonuclease III Back     alignment and domain information
>gnl|CDD|223780 COG0708, XthA, Exonuclease III [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|197336 cd10281, Nape_like_AP-endo, Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|197320 cd09086, ExoIII-like_AP-endo, Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|197322 cd09088, Ape2-like_AP-endo, Human Ape2-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|197306 cd08372, EEP, Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily Back     alignment and domain information
>gnl|CDD|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|236970 PRK11756, PRK11756, exonuclease III; Provisional Back     alignment and domain information
>gnl|CDD|197317 cd09083, EEP-1, Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1 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|197311 cd09077, R1-I-EN, Endonuclease domain encoded by various R1- and I-clade non-long terminal repeat retrotransposons Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 182
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 99.97
KOG1294335 consensus Apurinic/apyrimidinic endonuclease and r 99.85
PF14529119 Exo_endo_phos_2: Endonuclease-reverse transcriptas 99.71
COG3568259 ElsH Metal-dependent hydrolase [General function p 99.62
PRK05421263 hypothetical protein; Provisional 99.48
PRK15251271 cytolethal distending toxin subunit CdtB; Provisio 99.38
TIGR03395283 sphingomy sphingomyelin phosphodiesterase. Members 99.32
COG3021309 Uncharacterized protein conserved in bacteria [Fun 99.26
PTZ00297 1452 pantothenate kinase; Provisional 99.22
PLN03144606 Carbon catabolite repressor protein 4 homolog; Pro 99.16
PF03372249 Exo_endo_phos: Endonuclease/Exonuclease/phosphatas 99.14
KOG3873 422 consensus Sphingomyelinase family protein [Signal 99.04
KOG2756349 consensus Predicted Mg2+-dependent phosphodiestera 98.7
smart00476276 DNaseIc deoxyribonuclease I. Deoxyribonuclease I c 98.57
smart00128310 IPPc Inositol polyphosphate phosphatase, catalytic 98.5
COG2374798 Predicted extracellular nuclease [General function 98.14
KOG2338495 consensus Transcriptional effector CCR4-related pr 98.02
COG5411 460 Phosphatidylinositol 5-phosphate phosphatase [Sign 97.59
PLN03191621 Type I inositol-1,4,5-trisphosphate 5-phosphatase 97.56
COG5239378 CCR4 mRNA deadenylase, exonuclease subunit and rel 97.35
KOG0620361 consensus Glucose-repressible alcohol dehydrogenas 97.33
KOG0566 1080 consensus Inositol-1,4,5-triphosphate 5-phosphatas 97.32
KOG1294 335 consensus Apurinic/apyrimidinic endonuclease and r 97.29
PTZ00312 356 inositol-1,4,5-triphosphate 5-phosphatase; Provisi 92.83
>COG0708 XthA Exonuclease III [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=1.6e-42  Score=262.67  Aligned_cols=179  Identities=45%  Similarity=0.799  Sum_probs=163.5

Q ss_pred             CCceeeeCCCC-CCCCCCCCEEEEEeCcEEEEEEEeeCCCC-CccchhhHHHHHHHHHHHHHHHh-cCCCCEEEEccCCc
Q 048138            2 KPLSVTYGLGI-SDHDSEGRLVTAEFDSFFLLSCYVPNSGD-GLRRLSYRITEWDPSLSSYVKEL-EKKKPVILTGDLNC   78 (182)
Q Consensus         2 ~~~~~~~~~~~-~~~~~~gR~i~~~~~~~~i~nvy~p~~~~-~~~~~~~k~~~~~~~l~~~l~~~-~~~~~~Ii~GDFN~   78 (182)
                      +|.+|.+||+. ...|.+||+|.++++.+.|+|+|+|++.. +.+++.+|+ +|++.+..++.++ ..+.++|+|||||.
T Consensus        73 ~~~~v~~g~~~~~~~d~e~R~I~a~~~~~~v~~~Y~PnG~~~~~~k~~yKl-~f~~~l~~~l~~l~~~~~~~vl~GD~NI  151 (261)
T COG0708          73 PPDDVRRGFPGEEEDDEEGRVIEAEFDGFRVINLYFPNGSSIGLEKFDYKL-RFLDALRNYLEELLKKGKPVVLCGDFNI  151 (261)
T ss_pred             CchhhhcCCCCCccccccCcEEEEEECCEEEEEEEcCCCCCCCCcchHHHH-HHHHHHHHHHHHHhhcCCCEEEeccccc
Confidence            67789999998 45788999999999999999999999998 788899999 9999999999996 45799999999999


Q ss_pred             cCCCccccCCC---CCCCCCCCCHHHHHHHHHhhhhCCceeceeccCCCCCCccccCCCCCCcCCCCcceeeEEEEChhh
Q 048138           79 AHQEIDIYNPA---GNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSL  155 (182)
Q Consensus        79 ~~~~~d~~~~~---~~~~~~~~~~~~~~~l~~~l~~~~l~D~~~~~~~~~~~~T~~~~~~~~~~~~~~~rID~i~~s~~~  155 (182)
                      +|.+.|..+++   .+.+.+++.++||+++. .|.+.||+|++|.++|+...||||+++.+.+..+.|+||||+++|+.+
T Consensus       152 ap~~iDv~~~~~~~~n~~~~~f~~eeR~~~~-~ll~~G~~D~~R~~~p~~~~YTwW~YR~~~~~~n~G~RID~~l~S~~L  230 (261)
T COG0708         152 APEEIDVANPKKRWLNEGNSGFLPEERAWFR-RLLNAGFVDTFRLFHPEPEKYTWWDYRANAARRNRGWRIDYILVSPAL  230 (261)
T ss_pred             CCchhcccCchhhhhcCCCCCCCHHHHHHHH-HHHHcchhhhhHhhCCCCCcccccccccchhhhcCceeEEEEEeCHHH
Confidence            99999999995   45788999999999998 577899999999999998889999999998877899999999999999


Q ss_pred             hcccccceecCCCCC----CCccceEEEEeC
Q 048138          156 ADKFHDSYILPDVTG----SDHSPIGLILKL  182 (182)
Q Consensus       156 ~~~~~~~~i~~~~~~----SDH~pv~~~l~l  182 (182)
                      ..++++|.|..+.+.    |||+||.++|++
T Consensus       231 ~~~~~~a~I~~~~rg~e~pSDHaPV~~e~~~  261 (261)
T COG0708         231 ADRLKDAGIDREVRGWEKPSDHAPVWVELDL  261 (261)
T ss_pred             HHHHHhcCccHHHhcCCCCCCcCcEEEEecC
Confidence            999999999987665    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
>KOG1294 consensus Apurinic/apyrimidinic endonuclease and related enzymes [Replication, recombination and repair] Back     alignment and domain information
>PF14529 Exo_endo_phos_2: Endonuclease-reverse transcriptase ; PDB: 2EI9_A 1WDU_B Back     alignment and domain information
>COG3568 ElsH Metal-dependent hydrolase [General function prediction only] Back     alignment and domain information
>PRK05421 hypothetical protein; Provisional Back     alignment and domain information
>PRK15251 cytolethal distending toxin subunit CdtB; Provisional Back     alignment and domain information
>TIGR03395 sphingomy sphingomyelin phosphodiesterase Back     alignment and domain information
>COG3021 Uncharacterized protein conserved in bacteria [Function unknown] 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
>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 Sphingomyelinase family protein [Signal transduction mechanisms] Back     alignment and domain information
>KOG2756 consensus Predicted Mg2+-dependent phosphodiesterase TTRAP [Signal transduction mechanisms] Back     alignment and domain information
>smart00476 DNaseIc deoxyribonuclease I 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
>KOG2338 consensus Transcriptional effector CCR4-related protein [Transcription] 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
>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification] Back     alignment and domain information
>KOG0620 consensus Glucose-repressible alcohol dehydrogenase transcriptional effector CCR4 and related proteins [Transcription] 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
>KOG1294 consensus Apurinic/apyrimidinic endonuclease and related enzymes [Replication, recombination and repair] 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 ?
Query182
2o3c_A282 Crystal Structure Of Zebrafish Ape Length = 282 2e-47
1bix_A287 The Crystal Structure Of The Human Dna Repair Endon 3e-47
2o3h_A285 Crystal Structure Of The Human C65a Ape Length = 28 3e-47
1e9n_A318 A Second Divalent Metal Ion In The Active Site Of A 3e-47
1de8_B276 Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bo 3e-47
1dew_A279 Crystal Structure Of Human Ape1 Bound To Abasic Dna 4e-47
2isi_A317 Crystal Structure Of Ape1 From Homo Sapiens In A Ne 4e-47
3g91_A265 1.2 Angstrom Structure Of The Exonuclease Iii Homol 5e-35
3fzi_A265 1.9 Angstrom Structure Of The Thermophilic Exonucle 1e-34
3g00_A265 Mth0212 In Complex With A 9bp Blunt End Dsdna At 1. 3e-34
2jc5_A259 Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From 3e-25
4b5h_A259 Substate Bound Inactive Mutant Of Neisseria Ap Endo 8e-25
2j63_A467 Crystal Structure Of Ap Endonuclease Lmap From Leis 2e-22
4f1r_A293 Structure Analysis Of The Global Metabolic Regulato 1e-13
2jc4_A256 3'-5' Exonuclease (Nexo) From Neisseria Meningitidi 2e-13
2voa_A257 Structure Of An Ap Endonuclease From Archaeoglobus 1e-12
1ako_A268 Exonuclease Iii From Escherichia Coli Length = 268 2e-12
>pdb|2O3C|A Chain A, Crystal Structure Of Zebrafish Ape Length = 282 Back     alignment and structure 
Iteration: 1

 Score =  185 bits (469), Expect = 2e-47,   Method: Compositional matrix adjust.
 Identities = 92/182 (50%), Positives = 118/182 (64%), Gaps = 3/182 (1%)
Query: 2   KPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYV 61
           +PL+VTYG+G  +HD EGR++TAEF  FFL++ YVPN+  GL RL YR T WD    +Y+
Sbjct: 103 EPLNVTYGIGKEEHDKEGRVITAEFPDFFLVTAYVPNASRGLVRLDYRKT-WDVDFRAYL 161
Query: 62  KELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQ 121
             L+ +KP++L GDLN AHQEID+ NP GNR++AGFT EER+ F    L  GF D+FR  
Sbjct: 162 CGLDARKPLVLCGDLNVAHQEIDLKNPKGNRKNAGFTPEEREGF-TQLLEAGFTDSFREL 220
Query: 122 HRG-VVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLIL 180
           +      YT+W Y    R  N GWRLDYF++S +L     DS I     GSDH PI L L
Sbjct: 221 YPDQAYAYTFWTYMMNARSKNVGWRLDYFVLSSALLPGLCDSKIRNTAMGSDHCPITLFL 280
Query: 181 KL 182
            +
Sbjct: 281 AV 282
>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|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|1DE8|B Chain B, Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bound To Abasic Dna Length = 276 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|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|3G91|A Chain A, 1.2 Angstrom Structure Of The Exonuclease Iii Homologue Mth0212 Length = 265 Back     alignment and structure
>pdb|3FZI|A Chain A, 1.9 Angstrom Structure Of The Thermophilic Exonuclease Iii Homologue Mth0212 Length = 265 Back     alignment and structure
>pdb|3G00|A Chain A, Mth0212 In Complex With A 9bp Blunt End Dsdna At 1.7 Angstrom Length = 265 Back     alignment and structure
>pdb|2JC5|A Chain A, Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From Neisseria Meningitidis Length = 259 Back     alignment and structure
>pdb|4B5H|A Chain A, Substate Bound Inactive Mutant Of Neisseria Ap Endonuclease In Presence Of Metal Ions Length = 259 Back     alignment and structure
>pdb|2J63|A Chain A, Crystal Structure Of Ap Endonuclease Lmap From Leishmania Major Length = 467 Back     alignment and structure
>pdb|4F1R|A Chain A, Structure Analysis Of The Global Metabolic Regulator Crc From Pseudomonas Aeruginos Length = 293 Back     alignment and structure
>pdb|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|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 ?
Query182
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 1e-97
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 1e-97
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 5e-95
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 2e-88
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 8e-78
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 1e-58
1ako_A268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 1e-48
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 7e-41
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 2e-40
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 6e-17
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 6e-12
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 1e-05
2ddr_A306 Sphingomyelin phosphodiesterase; DNAse I like fold 5e-04
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 6e-04
>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 =  283 bits (726), Expect = 1e-97
 Identities = 90/183 (49%), Positives = 115/183 (62%), Gaps = 2/183 (1%)

Query: 1   IKPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSY 60
             PL V+YG+G  +HD EGR++ AEFDSF L++ YVPN+G GL RL YR   WD +   +
Sbjct: 104 QCPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYRQ-RWDEAFRKF 162

Query: 61  VKELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRA 120
           +K L  +KP++L GDLN AH+EID+ NP GN+++AGFT +ERQ FG    +    D+FR 
Sbjct: 163 LKGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRH 222

Query: 121 QHRGVVG-YTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLI 179
            +      YT+W Y    R  N GWRLDYFL+S SL     DS I     GSDH PI L 
Sbjct: 223 LYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKALGSDHCPITLY 282

Query: 180 LKL 182
           L L
Sbjct: 283 LAL 285
>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
>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
>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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query182
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 100.0
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 100.0
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 99.97
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 99.97
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 99.97
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 99.97
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 99.96
1ako_A268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 99.94
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 99.92
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 99.87
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 99.85
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 99.78
4gew_A362 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.77
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 99.77
4fva_A256 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.75
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 99.72
1zwx_A301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 99.71
3mpr_A298 Putative endonuclease/exonuclease/phosphatase FAM 99.7
4gz1_A256 Tyrosyl-DNA phosphodiesterase 2; protein-DNA compl 99.7
4f1h_A250 Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA com 99.7
2ddr_A306 Sphingomyelin phosphodiesterase; DNAse I like fold 99.66
3i41_A317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 99.55
2f1n_A262 CDT B, cytolethal distending toxin subunit B; E.co 99.31
1sr4_B261 CDT B, cytolethal distending toxin protein B; bact 99.29
2a40_B260 Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse 99.26
4b8c_D727 Glucose-repressible alcohol dehydrogenase transcr 99.25
3ngq_A398 CCR4-NOT transcription complex subunit 6-like; alp 99.21
2imq_X282 Salivary nitrophorin; ferrous heme, beta-sandwich, 99.12
1i9z_A347 Synaptojanin, phosphatidylinositol phosphate phosp 98.94
2xsw_A357 72 kDa inositol polyphosphate 5-phosphatase; inosi 98.51
3mtc_A313 Type II inositol-1,4,5-trisphosphate 5-phosphatas; 98.01
4a9c_A316 Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; 98.0
>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=3.8e-34  Score=220.16  Aligned_cols=177  Identities=41%  Similarity=0.743  Sum_probs=152.9

Q ss_pred             CceeeeCCCCCCCCCCCCEEEEEeCcEEEEEEEeeCCCCCccchhhHHHHHHHHHHHHHHHhc-CCCCEEEEccCCccCC
Q 048138            3 PLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELE-KKKPVILTGDLNCAHQ   81 (182)
Q Consensus         3 ~~~~~~~~~~~~~~~~gR~i~~~~~~~~i~nvy~p~~~~~~~~~~~k~~~~~~~l~~~l~~~~-~~~~~Ii~GDFN~~~~   81 (182)
                      +..+..+++....+.+||++.++++.+.|+|+|+|++....++..+|+ +|++.|.++++++. .+.++|||||||+.+.
T Consensus        79 ~~~~~~~~~~~~~d~~gr~i~~~~~~~~i~~vy~p~~~~~~~~~~~r~-~~~~~l~~~~~~~~~~~~~~ii~GDfN~~~~  157 (265)
T 3g91_A           79 PSSLREGFGVERFDTEGRIQIADFDDFLLYNIYFPNGAMSEERLKYKL-EFYDAFLEDVNRERDSGRNVIICGDFNTAHR  157 (265)
T ss_dssp             CSEEECCCSCHHHHSBSCEEEEECSSCEEEEEECCCCTTCHHHHHHHH-HHHHHHHHHHHHHHHTTCCEEEEEECCCCCS
T ss_pred             hHHhccCCCCcccCCcCCEEEEEeCCEEEEEEEecCCCCCchhHHHHH-HHHHHHHHHHHHHHcCCCCEEEECccccCCc
Confidence            456666666666678999999999999999999999887767778887 88888999888864 3789999999999998


Q ss_pred             CccccCCCCCCCCCCCCHHHHHHHHHhhhhCCceeceeccCCCCCCccccCCCCCCcCCCCcceeeEEEEChhhhccccc
Q 048138           82 EIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGVVGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHD  161 (182)
Q Consensus        82 ~~d~~~~~~~~~~~~~~~~~~~~l~~~l~~~~l~D~~~~~~~~~~~~T~~~~~~~~~~~~~~~rID~i~~s~~~~~~~~~  161 (182)
                      +.|..++..+.+..++.++++.++..++ +.||+|+|+..+|....||||+.++..++.+.++||||||+|+.+...+.+
T Consensus       158 ~~d~~~~~~~~~~~~~~~~~~~~~~~l~-~~gl~D~~r~~~p~~~~yT~~~~~~~~~~~~~~~rID~il~s~~~~~~~~~  236 (265)
T 3g91_A          158 EIDLARPKENSNVSGFLPVERAWIDKFI-ENGYVDTFRMFNSDPGQYTWWSYRTRARERNVGWRLDYFFVNEEFKGKVKR  236 (265)
T ss_dssp             GGGBSCTGGGTTSTTSCHHHHHHHHHHH-HTTEEETHHHHCCCSCCCSBCCSSTTTTTTTCCBCCEEEEEEGGGGGGEEE
T ss_pred             hhhccCHhhcCCCCccCHHHHHHHHHHH-hcCcEEeeHhhCCCCCCCCCcCCCCCccccCceEEEEEEEECHHHHhhhcE
Confidence            8888777666667788899998888655 899999999999988899999999887777788899999999999888999


Q ss_pred             ceecCCCCCCCccceEEEEe
Q 048138          162 SYILPDVTGSDHSPIGLILK  181 (182)
Q Consensus       162 ~~i~~~~~~SDH~pv~~~l~  181 (182)
                      +.|.+...+|||+||++++.
T Consensus       237 ~~i~~~~~~SDH~Pv~~~~~  256 (265)
T 3g91_A          237 SWILSDVMGSDHCPIGLEIE  256 (265)
T ss_dssp             EEECTTCCSSSBCCEEEEEE
T ss_pred             EEEeCCCCCCCcceEEEEhh
Confidence            99998767999999999985
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} Back     alignment and structure
>2o3h_A DNA-(apurinic or apyrimidinic site) lyase; APE, endonuclease; 1.90A {Homo sapiens} PDB: 1bix_A 1dew_A* 1de8_B* 1de9_A* 2o3c_A Back     alignment and structure
>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
>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
>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
>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
>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest center for structural genomics; 2.99A {Leptotrichia buccalis c-1013-b} 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
>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
>4fva_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; HET: EDO; 2.07A {Caenorhabditis elegans} 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
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 Back     alignment and structure
>3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein; structural genomics, PSI-2, protein structure initiative; HET: MSE PEG; 1.90A {Bacteroides thetaiotaomicron} Back     alignment and structure
>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
>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
>2f1n_A CDT B, cytolethal distending toxin subunit B; E.coli, DNAse I, microbatch; 1.73A {Escherichia coli} SCOP: d.151.1.1 Back     alignment and structure
>1sr4_B CDT B, cytolethal distending toxin protein B; bacterial, virulence, DNA damage, genotoxin, cytotoxins, cell cycle, apoptosis, lectin; 2.00A {Haemophilus ducreyi} SCOP: d.151.1.1 PDB: 2f2f_B Back     alignment and structure
>2a40_B Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse I, ARP2/3, structural protein; HET: HIC NAG ATP; 1.80A {Bos taurus} SCOP: d.151.1.1 PDB: 1dnk_A* 2a3z_B* 2a41_B* 2a42_B* 2d1k_B* 2dnj_A* 3cjc_D* 3dni_A* 1atn_D* Back     alignment and structure
>4b8c_D Glucose-repressible alcohol dehydrogenase transcr effector; hydrolase-cell cycle complex; 3.41A {Saccharomyces cerevisiae S288C} Back     alignment and structure
>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
>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 182
d1hd7a_275 d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human 2e-30
d1akoa_268 d.151.1.1 (A:) DNA-repair enzyme exonuclease III { 2e-27
d2imqx1280 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug ( 2e-19
d1wdua_228 d.151.1.1 (A:) Endonuclease domain of TRAS1 retrot 4e-17
d1vyba_236 d.151.1.1 (A:) Endonuclease domain of LINE-1 rever 5e-15
d2f1na1250 d.151.1.1 (A:1-250) Cytolethal distending toxin su 5e-13
d1sr4b_261 d.151.1.1 (B:) Cytolethal distending toxin subunit 9e-10
d2ddra1299 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesteras 2e-06
d1i9za_345 d.151.1.2 (A:) Synaptojanin, IPP5C domain {Fission 1e-04
d1zwxa1293 d.151.1.3 (A:41-333) Sphingomyelin phosphodiestera 0.002
>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 =  110 bits (274), Expect = 2e-30
 Identities = 90/182 (49%), Positives = 115/182 (63%), Gaps = 2/182 (1%)

Query: 2   KPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYV 61
            PL V+YG+G  +HD EGR++ AEFDSF L++ YVPN+G GL RL YR   WD +   ++
Sbjct: 95  CPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYR-QRWDEAFRKFL 153

Query: 62  KELEKKKPVILTGDLNCAHQEIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQ 121
           K L  +KP++L GDLN AH+EID+ NP GN+++AGFT +ERQ FG    +    D+FR  
Sbjct: 154 KGLASRKPLVLCGDLNVAHEEIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHL 213

Query: 122 HRGVVG-YTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFHDSYILPDVTGSDHSPIGLIL 180
           +      YT+W Y    R  N GWRLDYFL+S SL     DS I     GSDH PI L L
Sbjct: 214 YPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKALGSDHCPITLYL 273

Query: 181 KL 182
            L
Sbjct: 274 AL 275
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} Length = 268 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
>d1wdua_ d.151.1.1 (A:) Endonuclease domain of TRAS1 retrotransposon (ORF2) {Silkworm (Bombyx mori) [TaxId: 7091]} Length = 228 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
>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {Escherichia coli [TaxId: 562]} Length = 250 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
>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} Length = 299 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
>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 ?
Query182
d1hd7a_275 DNA repair endonuclease Hap1 {Human (Homo sapiens) 99.88
d1vyba_236 Endonuclease domain of LINE-1 reverse transcriptas 99.87
d1wdua_228 Endonuclease domain of TRAS1 retrotransposon (ORF2 99.81
d2imqx1280 Salivary nitrophorin {Bedbug (Cimex lectularius) [ 99.6
d1akoa_268 DNA-repair enzyme exonuclease III {Escherichia col 99.6
d2f1na1250 Cytolethal distending toxin subunit B {Escherichia 99.59
d2ddra1299 Sphingomyelin phosphodiesterase C {Bacillus cereus 99.54
d1zwxa1293 Sphingomyelin phosphodiesterase C {Listeria ivanov 99.49
d1sr4b_261 Cytolethal distending toxin subunit B {Haemophilus 99.47
d2a40b1260 Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913 99.38
d1i9za_345 Synaptojanin, IPP5C domain {Fission yeast (Schizos 99.16
>d1hd7a_ d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: DNase I-like
superfamily: DNase I-like
family: DNase I-like
domain: DNA repair endonuclease Hap1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.88  E-value=2.7e-22  Score=151.67  Aligned_cols=180  Identities=50%  Similarity=0.912  Sum_probs=121.6

Q ss_pred             CCceeeeCCCCCCCCCCCCEEEEEeCcEEEEEEEeeCCCCCccchhhHHHHHHHHHHHHHHHhcCCCCEEEEccCCccCC
Q 048138            2 KPLSVTYGLGISDHDSEGRLVTAEFDSFFLLSCYVPNSGDGLRRLSYRITEWDPSLSSYVKELEKKKPVILTGDLNCAHQ   81 (182)
Q Consensus         2 ~~~~~~~~~~~~~~~~~gR~i~~~~~~~~i~nvy~p~~~~~~~~~~~k~~~~~~~l~~~l~~~~~~~~~Ii~GDFN~~~~   81 (182)
                      .|.++.........+.++.+..+......+...+.+..........+.. ...............+.+++++||||..+.
T Consensus        95 ~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~gd~n~~~~  173 (275)
T d1hd7a_          95 CPLKVSYGIGDEEHDQEGRVIVAEFDSFVLVTAYVPNAGRGLVRLEYRQ-RWDEAFRKFLKGLASRKPLVLCGDLNVAHE  173 (275)
T ss_dssp             CCSEEEESCSCGGGSSSSCEEEEECSSCEEEEEECCCCCGGGTTHHHHH-HHHHHHHHHHHHHHHHSCEEEEEECSCCCS
T ss_pred             Cceeeeeccccccchhhhheeeeeecceeeeeeeeeeccccccchhhhh-hhcccccccccccccCCceEeecccccCcc
Confidence            3555656555555667778888888776666666655444322332221 111111111111235789999999999876


Q ss_pred             CccccCCCCCCCCCCCCHHHHHHHHHhhhhCCceeceeccCCCC-CCccccCCCCCCcCCCCcceeeEEEEChhhhcccc
Q 048138           82 EIDIYNPAGNRRSAGFTDEERQSFGANFLSKGFVDTFRAQHRGV-VGYTYWGYRHGGRKTNRGWRLDYFLVSQSLADKFH  160 (182)
Q Consensus        82 ~~d~~~~~~~~~~~~~~~~~~~~l~~~l~~~~l~D~~~~~~~~~-~~~T~~~~~~~~~~~~~~~rID~i~~s~~~~~~~~  160 (182)
                      ..+..+.............+...+.+.+...+|.|+||..+|.. ..+|||+.....+..+.+.||||||+|+++..++.
T Consensus       174 ~~~~~~~~~~~~~~~~~~~e~~~~~~~l~~~~~~D~~r~~~p~~~~~~t~~~~~~~~~~~~~g~RIDyi~vs~~l~~~v~  253 (275)
T d1hd7a_         174 EIDLRNPKGNKKNAGFTPQERQGFGELLQAVPLADSFRHLYPNTPYAYTFWTYMMNARSKNVGWRLDYFLLSHSLLPALC  253 (275)
T ss_dssp             GGGBSCHHHHTTSTTSCHHHHHHHHHHHHHTTCEEHHHHHCTTCTTCCSBCCSGGGHHHHTCCBCCEEEEECGGGGGGEE
T ss_pred             hhhhccchhhhcccccccccchhhhhhhcccCcccceeeecCCcCCceeeccccCCcccCCCCeEeEEEEeChHHhhhee
Confidence            54443221112223444555666777788899999999998855 56899988776665566789999999999988888


Q ss_pred             cceecCCCCCCCccceEEEEeC
Q 048138          161 DSYILPDVTGSDHSPIGLILKL  182 (182)
Q Consensus       161 ~~~i~~~~~~SDH~pv~~~l~l  182 (182)
                      ++.|.....+|||+||+++|+|
T Consensus       254 ~~~i~~~~~~SDH~PV~v~l~l  275 (275)
T d1hd7a_         254 DSKIRSKALGSDHCPITLYLAL  275 (275)
T ss_dssp             EEEECTTCCSSSBCCEEEEECC
T ss_pred             EEEECCCCCCCCcccEEEEEEC
Confidence            9999887778999999999986
>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
>d2imqx1 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug (Cimex lectularius) [TaxId: 79782]} 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
>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {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
>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