Citrus Sinensis ID: 010035

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-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------52
MEGLEDFSKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPSLASRYLPIIRGVQQTLVSVLMKREVAKQGKSCKFSGSLPAESNSTGDTEDCSENVDRSLNNYCDSGILQGVYCSSSNQESEGEFTKTIENCRDSANVASHSTITQGSSNHISPFHVDRARKKAKKSQLGQLSLKSFFHKRSNVSHDDNNSITDTSLNVNNSVTDTSLSQEEVPESHHHSNKIPVTDYSCSVHELHGVNSSVCSHDQDEKKGKRFLDKERNNVALLEWRRIQQLMETSIPLCKGHKEPCVARVVKKPGPTFGRRFFVCARAEGPASNPEANCGYFKWAFSKSKQK
ccccccccHHHHccccccccEEEEEcccEEEEEEEcccccccccHHHHHHHHHHHHHHHHHHHHHHccccEEEEccccccccccccccccccccccHHHHHHHHHHHcccccEEEEEcccccccccccccccccccccccccccEEEEEEEccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccEEEcccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccEEEEcccccccccccccccccEEEcccccccc
cccccEEcccccccccccccEEEEEcccEEEEEEEccccccccHHHHHHHHHHHHHHHHHHHHHHHccccEEEEEcccccccHcccccccHHHcccHHHHHHHHHHHccccEEEEcHHHHcccccccEEEEEEEccccccccccEEEEEEEcHHHHHHHHHHHHHHHHHccccccccccccccEEEEEcccccccccccEcccccccEEEEcccccccccccccccHHHHcHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccccccccccEEEEEcccccccccEEEEEcccccccccHHHccccEEEEccccccc
megledfskdellkidsegrcvitdhgHFILfnvygpradsedtVRIQFKLQFFHVLQKRWEFLLCQgrrifvvgdlniapaaidrcdagpdfakNEFRIWFRSMLVesggsffdvfrskhperreaytcwpsntgaeqfnygtridhilcagpclhqkhdlqshnfvtchvnecdilidykrwkpgnaprwkggmstrlegsdhapvymclgevpeipqhstpslasrylpiIRGVQQTLVSVLMKREVAkqgksckfsgslpaesnstgdtedcsenVDRSlnnycdsgilqgvycsssnqesegeFTKTIENCRdsanvashstitqgssnhispfhVDRARKKAkksqlgqlsLKSFFhkrsnvshddnnsitdtslnvnnsvtdtslsqeevpeshhhsnkipvtdyscsvhelhgvnssvcshdqdekkgkrfLDKERNNVALLEWRRIQQLMETsiplckghkepcvarvvkkpgptfgrRFFVcaraegpasnpeancgyfkwAFSKSKQK
megledfsKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFVVGDLNIAPAaidrcdagpdFAKNEFRIWFRSMLVESGGSFFDVFRSKHPErreaytcwpsntgAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPSLASRYLPIIRGVQQTLVSVLMKREVAkqgksckfsgslpaesnstgdteDCSENVDRSLNNYCDSGILQGVYCSSSNQESEGEFTKTIENCRDSANVASHstitqgssnhispFHVDRARKKAKKSQLGQLSLKSFFHKRSNVshddnnsitdtslnvNNSVTDTSLSQEEVPESHHHSNKIPVTDYSCSVHELHGvnssvcshdqdekkgkrfldkernnvALLEWRRIQQLMETSiplckghkepCVARVVKKPGPTFGRRFFVCARAEgpasnpeancgyfkwafskskqk
MEGLEDFSKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPSLASRYLPIIRGVQQTLVSVLMKREVAKQGKSCKFSGSLPAESNSTGDTEDCSENVDRSLNNYCDSGILQGVYCSSSNQESEGEFTKTIENCRDSANVASHSTITQGSSNHISPFHVDRARKKAKKSQLGQLSLKSFFHKRSNVSHDDNNSITDTSLNVNNSVTDTSLSQEEVPESHHHSNKIPVTDYSCSVHELHGVNSSVCSHDQDEKKGKRFLDKERNNVALLEWRRIQQLMETSIPLCKGHKEPCVARVVKKPGPTFGRRFFVCARAEGPASNPEANCGYFKWAFSKSKQK
************LKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQH*TPSLASRYLPIIRGVQQTLVSVLMKRE**********************************LNNYCDSGILQGVYC**************************************************************************************************************VTDYSCSVHELHGV*********************RNNVALLEWRRIQQLMETSIPLCKGHKEPCVARVVKKPGPTFGRRFFVCARAEGP***PEANCGYFKWAF******
MEGLEDFSKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPSLASRYLPIIRGVQQTL***********************************************************************************************************************************************************************************************************************QL*ETSIPLCKGHKEPCVARVVKKPGPTFGRRFFVCARAEGPASNPEANCGYFKWAFSK****
MEGLEDFSKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPSLASRYLPIIRGVQQTLVSVLMKREVAKQGKSCKFS******************NVDRSLNNYCDSGILQGVYCS***********KTIENCRDSANVASHSTITQGSSNHISPFHV************GQLSLKSFFHKRSNVSHDDNNSITDTSLNVNNSVT*****************KIPVTDYSCSVHELHGVNSS***********KRFLDKERNNVALLEWRRIQQLMETSIPLCKGHKEPCVARVVKKPGPTFGRRFFVCARAEGPASNPEANCGYFKWAFSKSKQK
***LEDFSKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPSLASRYLPIIRGVQQTLVSVLMK****************************************************************************************************************************************************************************************************RNNVALLEWRRIQQLMETSIPLCKGHKEPCVARVVKKPGPTFGRRFFVCARAEGPASNPEANCGYFKWAFS*****
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MEGLEDFSKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPSLASRYLPIIRGVQQTLVSVLMKREVAKQGKSCKFSGSLPAESNSTGDTEDCSENVDRSLNNYCDSGILQGVYCSSSNQESEGEFTKTIENCRDSANVASHSTITQGSSNHISPFHVDRARKKAKKSQLGQLSLKSFFHKRSNVSHDDNNSITDTSLNVNNSVTDTSLSQEEVPESHHHSNKIPVTDYSCSVHELHGVNSSVCSHDQDEKKGKRFLDKERNNVALLEWRRIQQLMETSIPLCKGHKEPCVARVVKKPGPTFGRRFFVCARAEGPASNPEANCGYFKWAFSKSKQK
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 ?
Query519 2.2.26 [Sep-21-2011]
Q68G58516 DNA-(apurinic or apyrimid yes no 0.412 0.414 0.306 2e-28
Q9UBZ4518 DNA-(apurinic or apyrimid yes no 0.412 0.413 0.306 7e-27
Q5E9N9514 DNA-(apurinic or apyrimid yes no 0.406 0.410 0.306 6e-26
P87175523 DNA-(apurinic or apyrimid yes no 0.319 0.317 0.322 1e-17
P38207520 DNA-(apurinic or apyrimid yes no 0.423 0.423 0.237 3e-08
P37454252 Exodeoxyribonuclease OS=B yes no 0.290 0.599 0.291 1e-07
P51173361 DNA-(apurinic or apyrimid yes no 0.267 0.385 0.263 4e-07
P27864679 Recombination repair prot yes no 0.300 0.229 0.258 6e-07
P43138317 DNA-(apurinic or apyrimid no no 0.246 0.403 0.308 2e-06
P23196318 DNA-(apurinic or apyrimid no no 0.254 0.415 0.293 3e-06
>sp|Q68G58|APEX2_MOUSE DNA-(apurinic or apyrimidinic site) lyase 2 OS=Mus musculus GN=Apex2 PE=1 SV=1 Back     alignment and function desciption
 Score =  127 bits (319), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 81/264 (30%), Positives = 124/264 (46%), Gaps = 50/264 (18%)

Query: 4   LEDFSKDELLKIDSEGRCVITDHG---------HFILFNVYGPRADSEDTVRIQFKLQFF 54
           +++F+++EL  +DSEGR ++T H             L NVY P AD     R+ FK++F+
Sbjct: 115 MDEFTQEELRVLDSEGRALLTQHKIRTLEGKEKTLTLINVYCPHADPGKPERLTFKMRFY 174

Query: 55  HVLQKRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGPD--FAKNEFRIWFRSMLVESG-- 110
            +LQ R E LL  G  + ++GDLN A   ID CDA     F ++  R W   +L   G  
Sbjct: 175 RLLQMRAEALLAAGSHVIILGDLNTAHRPIDHCDASSLECFEEDPGRKWMDGLLSNPGDE 234

Query: 111 -----GSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSH 165
                G F D +R  HP+++ A+TCW   +GA   NYG+R+D++L               
Sbjct: 235 AGPHIGLFMDSYRYLHPKQQRAFTCWSVVSGARHLNYGSRLDYVL--------------- 279

Query: 166 NFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPS 225
                   +  ++ID  +            +   + GSDH PV   L  V  +P    P+
Sbjct: 280 -------GDRALVIDTFQ---------ASFLLPEVMGSDHCPVGAVL-NVSCVPAKQCPA 322

Query: 226 LASRYLPIIRGVQQTLVSVLMKRE 249
           L +R+LP   G Q  ++  L+  E
Sbjct: 323 LCTRFLPEFAGTQLKILRFLVPLE 346
Function as a weak 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. Displays also double-stranded DNA 3'-5' exonuclease, 3'-phosphodiesterase activities. Shows robust 3'-5' exonuclease activity on 3'-recessed heteroduplex DNA and is able to remove mismatched nucleotides preferentially. Shows fairly strong 3'-phosphodiesterase activity involved in the removal of 3'-damaged termini formed in DNA by oxidative agents. In the nucleus functions in the PCNA-dependent BER pathway. Required for somatic hypermutation (SHM) and DNA cleavage step of class switch recombination (CSR) of immunoglobulin genes. Required for proper cell cycle progression during proliferation of peripheral lymphocytes.
Mus musculus (taxid: 10090)
EC: 4EC: .EC: 2EC: .EC: 9EC: 9EC: .EC: 1EC: 8
>sp|Q9UBZ4|APEX2_HUMAN DNA-(apurinic or apyrimidinic site) lyase 2 OS=Homo sapiens GN=APEX2 PE=1 SV=1 Back     alignment and function description
>sp|Q5E9N9|APEX2_BOVIN DNA-(apurinic or apyrimidinic site) lyase 2 OS=Bos taurus GN=APEX2 PE=2 SV=1 Back     alignment and function description
>sp|P87175|APN2_SCHPO DNA-(apurinic or apyrimidinic site) lyase 2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=apn2 PE=1 SV=1 Back     alignment and function description
>sp|P38207|APN2_YEAST DNA-(apurinic or apyrimidinic site) lyase 2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=APN2 PE=1 SV=1 Back     alignment and function description
>sp|P37454|EXOA_BACSU Exodeoxyribonuclease OS=Bacillus subtilis (strain 168) GN=exoA PE=1 SV=1 Back     alignment and function description
>sp|P51173|APEA_DICDI DNA-(apurinic or apyrimidinic site) lyase OS=Dictyostelium discoideum GN=apeA PE=2 SV=2 Back     alignment and function description
>sp|P27864|RRP1_DROME Recombination repair protein 1 OS=Drosophila melanogaster GN=Rrp1 PE=1 SV=2 Back     alignment and function description
>sp|P43138|APEX1_RAT DNA-(apurinic or apyrimidinic site) lyase OS=Rattus norvegicus GN=Apex1 PE=1 SV=2 Back     alignment and function description
>sp|P23196|APEX1_BOVIN DNA-(apurinic or apyrimidinic site) lyase OS=Bos taurus GN=APEX1 PE=1 SV=2 Back     alignment and function description

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 ?
Query519
255561291586 ap endonuclease, putative [Ricinus commu 0.957 0.848 0.608 0.0
359476825596 PREDICTED: DNA-(apurinic or apyrimidinic 0.961 0.837 0.588 1e-174
225431130 625 PREDICTED: DNA-(apurinic or apyrimidinic 0.961 0.798 0.588 1e-174
224074261617 predicted protein [Populus trichocarpa] 0.965 0.811 0.576 1e-163
147789500 632 hypothetical protein VITISV_019797 [Viti 0.919 0.754 0.570 1e-160
449434154611 PREDICTED: DNA-(apurinic or apyrimidinic 0.947 0.805 0.552 1e-159
356502118 622 PREDICTED: DNA-(apurinic or apyrimidinic 0.959 0.800 0.549 1e-156
357518059613 DNA-(apurinic or apyrimidinic site) lyas 0.944 0.799 0.540 1e-152
297798308616 endonuclease/exonuclease/phosphatase fam 0.865 0.728 0.525 1e-132
79610414610 endonuclease 2 [Arabidopsis thaliana] gi 0.872 0.742 0.525 1e-131
>gi|255561291|ref|XP_002521656.1| ap endonuclease, putative [Ricinus communis] gi|223539047|gb|EEF40643.1| ap endonuclease, putative [Ricinus communis] Back     alignment and taxonomy information
 Score =  643 bits (1659), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 315/518 (60%), Positives = 383/518 (73%), Gaps = 21/518 (4%)

Query: 2   EGLEDFSKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRW 61
           +GLE+F KDELLKIDSEGRC+ITDHGHF+LFN+YGPRA+S+DT RI FKL F+++LQKRW
Sbjct: 90  QGLEEFDKDELLKIDSEGRCIITDHGHFVLFNLYGPRAESDDTERIHFKLLFYNILQKRW 149

Query: 62  EFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKH 121
           E LL QGRRIFVVGDLNIAP A+DRCDA PDF KNEFRIWFRSMLV+SGG FFDVFRSKH
Sbjct: 150 ESLLQQGRRIFVVGDLNIAPTAMDRCDADPDFEKNEFRIWFRSMLVKSGGPFFDVFRSKH 209

Query: 122 PERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDY 181
           P+RREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQ+HD Q H+FV+CH+ +CDILIDY
Sbjct: 210 PDRREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQEHDFQVHDFVSCHMKDCDILIDY 269

Query: 182 KRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPSLASRYLPIIRGVQQTL 241
           KRWKPG+  RWKGG  T+LEGSDHAPVY  L E+P+IPQH TPSL++RYLP+I G QQTL
Sbjct: 270 KRWKPGDTMRWKGGWGTKLEGSDHAPVYTSLVEIPDIPQHGTPSLSARYLPMIHGFQQTL 329

Query: 242 VSVLMKREVAKQGKSCKFSGSLPAESNSTGDTEDCSENVDRSLNNYCDSGILQGVYCSSS 301
           VSVLMKR+ + Q  S    G++  ++        C+E++ + L N C+         S +
Sbjct: 330 VSVLMKRQASTQVSSSFSDGNVTIKA--------CNESI-KGLYNNCNISDHSASDSSCA 380

Query: 302 NQESEGEFTKTIENCRDSANVASHSTITQGSSNHISPFHVDRARKKAKKSQLGQLSLKSF 361
            ++S+G   +  ++C+D ++     +     S HI+  H +  +KKA+KSQ  QLSL+SF
Sbjct: 381 TKDSDGAILRMEKHCKDFSDQTCSDSTIMLQSRHINSMHTEGTKKKARKSQCSQLSLRSF 440

Query: 362 FHKRSNVSHDDNNSITDTSLNVNNSVTDTSLSQEEVPESHHHSNKIPVTDYSCSVHELHG 421
           F +  N           T     N+  D S SQE V  S+   ++    D   +     G
Sbjct: 441 FQRTPN-----------TRSGAENTALDISHSQENVSNSNSPPSETASQDDHNNTPGHCG 489

Query: 422 VNSSVCSHDQDEKKGKRFLDKERNNVALLEWRRIQQLMETSIPLCKGHKEPCVARVVKKP 481
           +NSS  + DQDE       +KE+NNVALLEW+RIQQLM+ SIPLCKGHKEPCV+R+VKKP
Sbjct: 490 LNSSSGTQDQDEINNGP-SEKEKNNVALLEWQRIQQLMQNSIPLCKGHKEPCVSRIVKKP 548

Query: 482 GPTFGRRFFVCARAEGPASNPEANCGYFKWAFSKSKQK 519
           GPT G RF+VCARAEGPASNPEANCGYFKWA SKS+QK
Sbjct: 549 GPTCGHRFYVCARAEGPASNPEANCGYFKWASSKSRQK 586

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|359476825|ref|XP_003631894.1| PREDICTED: DNA-(apurinic or apyrimidinic site) lyase 2-like isoform 2 [Vitis vinifera] Back     alignment and taxonomy information
>gi|225431130|ref|XP_002265926.1| PREDICTED: DNA-(apurinic or apyrimidinic site) lyase 2-like isoform 1 [Vitis vinifera] Back     alignment and taxonomy information
>gi|224074261|ref|XP_002304326.1| predicted protein [Populus trichocarpa] gi|222841758|gb|EEE79305.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|147789500|emb|CAN69587.1| hypothetical protein VITISV_019797 [Vitis vinifera] Back     alignment and taxonomy information
>gi|449434154|ref|XP_004134861.1| PREDICTED: DNA-(apurinic or apyrimidinic site) lyase 2-like [Cucumis sativus] gi|449491354|ref|XP_004158869.1| PREDICTED: DNA-(apurinic or apyrimidinic site) lyase 2-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356502118|ref|XP_003519868.1| PREDICTED: DNA-(apurinic or apyrimidinic site) lyase 2-like [Glycine max] Back     alignment and taxonomy information
>gi|357518059|ref|XP_003629318.1| DNA-(apurinic or apyrimidinic site) lyase [Medicago truncatula] gi|355523340|gb|AET03794.1| DNA-(apurinic or apyrimidinic site) lyase [Medicago truncatula] Back     alignment and taxonomy information
>gi|297798308|ref|XP_002867038.1| endonuclease/exonuclease/phosphatase family protein [Arabidopsis lyrata subsp. lyrata] gi|297312874|gb|EFH43297.1| endonuclease/exonuclease/phosphatase family protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|79610414|ref|NP_974691.2| endonuclease 2 [Arabidopsis thaliana] gi|332661207|gb|AEE86607.1| endonuclease 2 [Arabidopsis thaliana] 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 ?
Query519
TAIR|locus:2135164610 AT4G36050 [Arabidopsis thalian 0.757 0.644 0.539 4.3e-109
MGI|MGI:1924872516 Apex2 "apurinic/apyrimidinic e 0.283 0.284 0.375 1e-42
UNIPROTKB|F1RUD3515 LOC100519003 "Uncharacterized 0.283 0.285 0.375 7.4e-41
UNIPROTKB|Q9UBZ4518 APEX2 "DNA-(apurinic or apyrim 0.283 0.283 0.375 2.2e-39
UNIPROTKB|F1MSK4514 APEX2 "DNA-(apurinic or apyrim 0.283 0.285 0.381 2.4e-39
UNIPROTKB|Q5E9N9514 APEX2 "DNA-(apurinic or apyrim 0.283 0.285 0.381 2.4e-39
UNIPROTKB|E2RCW8515 APEX2 "Uncharacterized protein 0.283 0.285 0.369 4.5e-39
UNIPROTKB|J9NYZ7515 APEX2 "Uncharacterized protein 0.283 0.285 0.369 4.5e-39
RGD|1586200516 Apex2l1 "APEX nuclease (apurin 0.283 0.284 0.369 1.4e-37
ZFIN|ZDB-GENE-040426-835558 apex2 "APEX nuclease (apurinic 0.520 0.483 0.282 6.5e-33
TAIR|locus:2135164 AT4G36050 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1078 (384.5 bits), Expect = 4.3e-109, P = 4.3e-109
 Identities = 217/402 (53%), Positives = 280/402 (69%)

Query:     2 EGLEDFSKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRW 61
             EGLE++ K+ELL ID EGRCVITDHGHF++FNVYGPRA ++D  RI+FK +F+ VL++RW
Sbjct:   120 EGLEEYEKEELLMIDQEGRCVITDHGHFVVFNVYGPRAVADDADRIEFKHRFYGVLERRW 179

Query:    62 EFLLCQGRRIFVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKH 121
             E LL QGRR+FVVGDLNIAP A+DRC+AGPDF KNEFR WFRS+LVE GGSF DVFRSKH
Sbjct:   180 ECLLRQGRRVFVVGDLNIAPFAMDRCEAGPDFEKNEFRKWFRSLLVERGGSFSDVFRSKH 239

Query:   122 PERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDY 181
             PER++A+TCW S++GAEQFNYG+RIDHIL AG CLHQ  D Q H+F+ CHV ECDIL +Y
Sbjct:   240 PERKDAFTCWSSSSGAEQFNYGSRIDHILVAGSCLHQDEDKQGHSFLACHVKECDILTEY 299

Query:   182 KRWKPGNAP-RWKGGMSTRLEGSDHAPVYMCLGEVPEIPQHSTPSLASRYLPIIRGVQQT 240
             KR+K  N P RWKGG+ T+ +GSDH PV++   ++P+IP+HSTP LASRYLP+I G QQT
Sbjct:   300 KRFKNENMPTRWKGGLVTKFKGSDHVPVFISFDDLPDIPEHSTPPLASRYLPMIYGFQQT 359

Query:   241 LVSVLMKREVAKQGKSCKFSGSLPAESNSTGDTEDCSENVDRSLNNYCDSGILQGVYCSS 300
             LVSV  KR   ++ K+ + S S   +SN++    D S      L N    GI     CS 
Sbjct:   360 LVSVFKKRRANEEAKAIEVSCSSSTQSNTSSICGDISTG---PLRNCGSMGISLEKSCSF 416

Query:   301 SNQESEGEFTKTIENCRDSANVASHSTITQGSSNHISPFHVDRARKKAKKSQLGQLSLKS 360
              N+ + G  T+  E    + ++ + S   + SS        D  RKKA+K Q  QLSLKS
Sbjct:   417 ENKSTSG-VTEA-ETVAATGSIDNLSDGIRASSVRALNISRDGDRKKARKIQSSQLSLKS 474

Query:   361 FFHKRSNVSH--DDNNSITDTSLNVN-NSVTDTSLSQEEVPE 399
             FF   S V++  D ++S   +S +    S+T+ ++S +E  E
Sbjct:   475 FFTTNSKVNNVEDSSSSYVSSSPSSQVESITEPNVSGKEDSE 516
GO:0004518 "nuclease activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0006281 "DNA repair" evidence=IEA
GO:0008270 "zinc ion binding" evidence=IEA
GO:0048573 "photoperiodism, flowering" evidence=RCA
MGI|MGI:1924872 Apex2 "apurinic/apyrimidinic endonuclease 2" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1RUD3 LOC100519003 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|Q9UBZ4 APEX2 "DNA-(apurinic or apyrimidinic site) lyase 2" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1MSK4 APEX2 "DNA-(apurinic or apyrimidinic site) lyase 2" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|Q5E9N9 APEX2 "DNA-(apurinic or apyrimidinic site) lyase 2" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2RCW8 APEX2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|J9NYZ7 APEX2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
RGD|1586200 Apex2l1 "APEX nuclease (apurinic/apyrimidinic endonuclease) 2-like 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-835 apex2 "APEX nuclease (apurinic/apyrimidinic endonuclease) 2" [Danio rerio (taxid:7955)] 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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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:
fgenesh4_pm.C_LG_III000229
hypothetical protein (617 aa)
(Populus trichocarpa)
Predicted Functional Partners:
 
Sorry, there are no predicted associations at the current settings.
 

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 ?
Query519
cd09088309 cd09088, Ape2-like_AP-endo, Human Ape2-like subfam 2e-63
cd09073251 cd09073, ExoIII_AP-endo, Escherichia coli exonucle 1e-27
COG0708261 COG0708, XthA, Exonuclease III [DNA replication, r 2e-26
TIGR00633255 TIGR00633, xth, exodeoxyribonuclease III (xth) 2e-23
TIGR00195254 TIGR00195, exoDNase_III, exodeoxyribonuclease III 2e-19
cd09085252 cd09085, Mth212-like_AP-endo, Methanothermobacter 6e-19
cd09086254 cd09086, ExoIII-like_AP-endo, Escherichia coli exo 1e-17
cd09087253 cd09087, Ape1-like_AP-endo, Human Ape1-like subfam 5e-15
cd10281253 cd10281, Nape_like_AP-endo, Neisseria meningitides 2e-12
PRK13911250 PRK13911, PRK13911, exodeoxyribonuclease III; Prov 7e-12
cd09076236 cd09076, L1-EN, Endonuclease domain (L1-EN) of the 9e-09
PRK11756268 PRK11756, PRK11756, exonuclease III; Provisional 2e-06
pfam0683945 pfam06839, zf-GRF, GRF zinc finger 5e-06
>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 
 Score =  209 bits (533), Expect = 2e-63
 Identities = 94/225 (41%), Positives = 116/225 (51%), Gaps = 46/225 (20%)

Query: 2   EGLEDFSKDELLKIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRW 61
           E LE     ELL++DSEGRCV+TDHG F+L NVY PRAD E   R++FKL F+ +L++R 
Sbjct: 117 EMLEFTDSKELLELDSEGRCVLTDHGTFVLINVYCPRADPEKEERLEFKLDFYRLLEERV 176

Query: 62  EFLLCQGRRIFVVGDLNIAPAAIDRCDA-------GPDFAKNEFRIWFRSMLVES----- 109
           E LL  GRR+ +VGD+N++   ID CD        G  F  N  R W   +L +S     
Sbjct: 177 EALLKAGRRVILVGDVNVSHRPIDHCDPDDSEDFGGESFEDNPSRQWLDQLLGDSGEGGG 236

Query: 110 --GGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNF 167
             GG   D FR  HP R+ AYTCW + TGA   NYGTRID+IL     L           
Sbjct: 237 SPGGLLIDSFRYFHPTRKGAYTCWNTLTGARPTNYGTRIDYILADRGLLPW--------- 287

Query: 168 VTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCL 212
               V   DIL +                   +EGSDH PVY  L
Sbjct: 288 ----VKAADILPE-------------------VEGSDHCPVYADL 309

This subfamily includes human APE2, Saccharomyces cerevisiae Apn2/Eth1, 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 examples, Ape1 and Ape2 in humans, and Apn1 and Apn2 in bakers yeast. Ape2 and Apn2/Eth1 are both found in this subfamily, and have the weaker AP endonuclease activity. Ape2 shows strong 3'-5' exonuclease and 3'-phosphodiesterase activities; it can reduce the mutagenic consequences of attack by reactive oxygen species by removing 3'-end adenine opposite from 8-oxoG, in addition to repairing 3'-damaged termini. Apn2/Eth1 exhibits AP endonuclease activity, but has 30-40 fold more active 3'-phosphodiesterase and 3'-5' exonuclease 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 = 309
>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|197321 cd09087, Ape1-like_AP-endo, Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|197336 cd10281, Nape_like_AP-endo, Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases Back     alignment and domain information
>gnl|CDD|139971 PRK13911, PRK13911, exodeoxyribonuclease III; Provisional Back     alignment and domain information
>gnl|CDD|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|219199 pfam06839, zf-GRF, GRF zinc finger Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 519
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 99.97
TIGR00633255 xth exodeoxyribonuclease III (xth). This family is 99.96
KOG1294335 consensus Apurinic/apyrimidinic endonuclease and r 99.86
KOG1294335 consensus Apurinic/apyrimidinic endonuclease and r 99.73
PF14529119 Exo_endo_phos_2: Endonuclease-reverse transcriptas 99.46
PF0683945 zf-GRF: GRF zinc finger; InterPro: IPR010666 Zinc 99.34
COG3568259 ElsH Metal-dependent hydrolase [General function p 99.3
PRK05421263 hypothetical protein; Provisional 99.24
PTZ00297 1452 pantothenate kinase; Provisional 99.0
PF03372249 Exo_endo_phos: Endonuclease/Exonuclease/phosphatas 98.97
KOG3873422 consensus Sphingomyelinase family protein [Signal 98.93
TIGR03395283 sphingomy sphingomyelin phosphodiesterase. Members 98.9
PRK15251271 cytolethal distending toxin subunit CdtB; Provisio 98.69
COG3021309 Uncharacterized protein conserved in bacteria [Fun 98.61
PLN03144606 Carbon catabolite repressor protein 4 homolog; Pro 98.33
KOG2756349 consensus Predicted Mg2+-dependent phosphodiestera 97.44
KOG1956758 consensus DNA topoisomerase III alpha [Replication 97.34
smart00476276 DNaseIc deoxyribonuclease I. Deoxyribonuclease I c 97.18
smart00128310 IPPc Inositol polyphosphate phosphatase, catalytic 96.43
KOG05661080 consensus Inositol-1,4,5-triphosphate 5-phosphatas 95.19
COG2374798 Predicted extracellular nuclease [General function 95.14
KOG4399 325 consensus C2HC-type Zn-finger protein [General fun 94.48
KOG2338495 consensus Transcriptional effector CCR4-related pr 93.17
PLN03191621 Type I inositol-1,4,5-trisphosphate 5-phosphatase 93.06
KOG0620361 consensus Glucose-repressible alcohol dehydrogenas 92.89
COG5239378 CCR4 mRNA deadenylase, exonuclease subunit and rel 92.87
COG5411460 Phosphatidylinositol 5-phosphate phosphatase [Sign 89.37
>COG0708 XthA Exonuclease III [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=2.7e-40  Score=329.21  Aligned_cols=179  Identities=35%  Similarity=0.585  Sum_probs=160.1

Q ss_pred             CceEEEecCcccc----------ccCCCCEEEEEECCEEEEEEEeCCCCCCChhhHHHHHHHHHHHHHHHHHHHhcCCcE
Q 010035            2 EGLEDFSKDELLK----------IDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRI   71 (519)
Q Consensus         2 ~Gvailsr~~l~~----------lD~EGR~Ii~~~~~~vLiNVY~P~~~~~~~eR~~fKl~F~~~L~~ri~~ll~~g~~V   71 (519)
                      .|||||+|.++..          .|.|||+|.++++.|.|+|+|+||+.....+|+.||++|+..|+.++++++..+++|
T Consensus        64 sGVailsr~~~~~v~~g~~~~~~~d~e~R~I~a~~~~~~v~~~Y~PnG~~~~~~k~~yKl~f~~~l~~~l~~l~~~~~~~  143 (261)
T COG0708          64 SGVAILSKKPPDDVRRGFPGEEEDDEEGRVIEAEFDGFRVINLYFPNGSSIGLEKFDYKLRFLDALRNYLEELLKKGKPV  143 (261)
T ss_pred             ceEEEEEccCchhhhcCCCCCccccccCcEEEEEECCEEEEEEEcCCCCCCCCcchHHHHHHHHHHHHHHHHHhhcCCCE
Confidence            5999999987532          257899999999999999999999998678999999999999999999999999999


Q ss_pred             EEeCCCCCCCCcccccCCC--------CCCCchHHHHHHHHHHHHcCCCeEeeecccCCCCCCCCCcCCCCCCCccCCcc
Q 010035           72 FVVGDLNIAPAAIDRCDAG--------PDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYG  143 (519)
Q Consensus        72 II~GDfN~~~~~iD~~d~~--------~~f~~~e~R~~l~~lL~~~g~~LvD~~R~~hP~~~~~yT~ws~~~~ar~~N~G  143 (519)
                      |||||||++|.+||..++.        .+|.+.| |.||+.|+. .  +|+|+||.+||+.. .||||+++.++++.|.|
T Consensus       144 vl~GD~NIap~~iDv~~~~~~~~n~~~~~f~~ee-R~~~~~ll~-~--G~~D~~R~~~p~~~-~YTwW~YR~~~~~~n~G  218 (261)
T COG0708         144 VLCGDFNIAPEEIDVANPKKRWLNEGNSGFLPEE-RAWFRRLLN-A--GFVDTFRLFHPEPE-KYTWWDYRANAARRNRG  218 (261)
T ss_pred             EEecccccCCchhcccCchhhhhcCCCCCCCHHH-HHHHHHHHH-c--chhhhhHhhCCCCC-cccccccccchhhhcCc
Confidence            9999999999999988773        4677766 999999985 3  59999999999974 49999999998888899


Q ss_pred             ceeeEEEEcCCccccccccccccccccceeeEEEeccccccCCCCCCCCCCCCCCCCCCCCccceEEEEe
Q 010035          144 TRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLG  213 (519)
Q Consensus       144 sRIDyILvS~~ll~~~~~l~~~~~~~~~V~~~~I~~~~r~~~~~~~~~w~~~~~~~~~gSDH~PV~~~L~  213 (519)
                      +||||||+|+.|+             .++++|.|+.+.+.|+               .+||||||+++|.
T Consensus       219 ~RID~~l~S~~L~-------------~~~~~a~I~~~~rg~e---------------~pSDHaPV~~e~~  260 (261)
T COG0708         219 WRIDYILVSPALA-------------DRLKDAGIDREVRGWE---------------KPSDHAPVWVELD  260 (261)
T ss_pred             eeEEEEEeCHHHH-------------HHHHhcCccHHHhcCC---------------CCCCcCcEEEEec
Confidence            9999999999874             4899999999877763               7899999999986

>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
>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
>PF06839 zf-GRF: GRF zinc finger; InterPro: IPR010666 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule 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
>PTZ00297 pantothenate kinase; 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
>TIGR03395 sphingomy sphingomyelin phosphodiesterase Back     alignment and domain information
>PRK15251 cytolethal distending toxin subunit CdtB; Provisional Back     alignment and domain information
>COG3021 Uncharacterized protein conserved in bacteria [Function unknown] 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
>KOG1956 consensus DNA topoisomerase III alpha [Replication, recombination and repair] 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
>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
>COG2374 Predicted extracellular nuclease [General function prediction only] Back     alignment and domain information
>KOG4399 consensus C2HC-type Zn-finger protein [General function prediction only] Back     alignment and domain information
>KOG2338 consensus Transcriptional effector CCR4-related protein [Transcription] Back     alignment and domain information
>PLN03191 Type I inositol-1,4,5-trisphosphate 5-phosphatase 2; Provisional Back     alignment and domain information
>KOG0620 consensus Glucose-repressible alcohol dehydrogenase transcriptional effector CCR4 and related proteins [Transcription] Back     alignment and domain information
>COG5239 CCR4 mRNA deadenylase, exonuclease subunit and related nucleases [RNA processing and modification] Back     alignment and domain information
>COG5411 Phosphatidylinositol 5-phosphate phosphatase [Signal transduction mechanisms] 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 ?
Query519
3fzi_A265 1.9 Angstrom Structure Of The Thermophilic Exonucle 6e-08
3g91_A265 1.2 Angstrom Structure Of The Exonuclease Iii Homol 7e-08
3g00_A265 Mth0212 In Complex With A 9bp Blunt End Dsdna At 1. 2e-07
1e9n_A318 A Second Divalent Metal Ion In The Active Site Of A 7e-07
2o3c_A282 Crystal Structure Of Zebrafish Ape Length = 282 7e-07
2isi_A317 Crystal Structure Of Ape1 From Homo Sapiens In A Ne 7e-07
1bix_A287 The Crystal Structure Of The Human Dna Repair Endon 9e-07
2o3h_A285 Crystal Structure Of The Human C65a Ape Length = 28 9e-07
1de8_B276 Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bo 1e-06
1dew_A279 Crystal Structure Of Human Ape1 Bound To Abasic Dna 1e-06
2jc5_A259 Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From 2e-06
4b5h_A259 Substate Bound Inactive Mutant Of Neisseria Ap Endo 5e-06
2jc4_A256 3'-5' Exonuclease (Nexo) From Neisseria Meningitidi 1e-05
2voa_A257 Structure Of An Ap Endonuclease From Archaeoglobus 1e-05
1ako_A268 Exonuclease Iii From Escherichia Coli Length = 268 4e-05
>pdb|3FZI|A Chain A, 1.9 Angstrom Structure Of The Thermophilic Exonuclease Iii Homologue Mth0212 Length = 265 Back     alignment and structure 
Iteration: 1

 Score = 55.8 bits (133), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 40/142 (28%), Positives = 65/142 (45%), Gaps = 9/142 (6%)
Query: 14  KIDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFV 73
           + D+EGR  I D   F+L+N+Y P     +  R+++KL+F+    +        GR + +
Sbjct: 90  RFDTEGRIQIADFDDFLLYNIYFPNGKMSEE-RLKYKLEFYDAFLEDVNRERDSGRNVII 148
Query: 74  VGDLNIAPAAIDRCDAGPDFAKNEF----RIWFRSMLVESGGSFFDVFRSKHPERREAYT 129
            GD N A   ID      +   + F    R W     +E+G  + D FR  + +  + YT
Sbjct: 149 CGDFNTAHREIDLARPKENSNVSGFLPVERAWI-DKFIENG--YVDTFRMFNSDPGQ-YT 204
Query: 130 CWPSNTGAEQFNYGTRIDHILC 151
            W   T A + N G R+D+   
Sbjct: 205 WWSYRTRARERNVGWRLDYFFV 226
>pdb|3G91|A Chain A, 1.2 Angstrom Structure Of The 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|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|2O3C|A Chain A, Crystal Structure Of Zebrafish Ape Length = 282 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|2O3H|A Chain A, Crystal Structure Of The Human C65a Ape Length = 285 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|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|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 ?
Query519
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 6e-27
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 5e-23
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 9e-23
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 5e-22
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 2e-21
1ako_A268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 4e-19
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 7e-19
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 3e-17
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 3e-16
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 2e-06
>2j63_A AP-endonuclease; base excision repair, lyase; 2.48A {Leishmania major} Length = 467 Back     alignment and structure
 Score =  112 bits (281), Expect = 6e-27
 Identities = 44/235 (18%), Positives = 67/235 (28%), Gaps = 71/235 (30%)

Query: 14  KIDSEGRCVIT----------DHGHFILFNVYGPRADSEDTVRIQFKLQFF--------- 54
             D EGR + T                L N Y   +      R+ +++Q F         
Sbjct: 265 AGDEEGRVLTTFLSPDPDSASSSSRIALVNTYVANSGMGL-TRLPYRVQSFDPSMREYLH 323

Query: 55  ----------HVLQKRWEFLLCQGRRIFVVGDLNIAPAAIDRCDAGP--DFAKN-----E 97
                      V                  GDLN+A    DR  AG      +      E
Sbjct: 324 RLDTWATENAAVPSAAAMGSGSSPHGFIWAGDLNVAERDYDRYYAGTFKSMQECSGFAPE 383

Query: 98  FRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILCAGPCLH 157
            R+ FR  +  +     D+FR  +P+    Y+ W         N G R+D+ +       
Sbjct: 384 ERMSFRETMQRTN--SVDIFRQLYPQAGPVYSFWSQRINGRPRNLGWRLDYFVV------ 435

Query: 158 QKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCL 212
                 S    + +V +C  +                       GSDH P  M +
Sbjct: 436 ------SSRLAS-YVVDCFPMPTVM-------------------GSDHCPFQMWM 464
>2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis} Length = 259 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
>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
>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
>1ako_A Exonuclease III; AP-endonuclease, DNA repair; 1.70A {Escherichia coli} SCOP: d.151.1.1 Length = 268 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
>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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query519
3g91_A265 MTH0212, exodeoxyribonuclease; double-strand speci 100.0
2j63_A467 AP-endonuclease; base excision repair, lyase; 2.48 99.97
2voa_A257 AF_EXO, XTHA, exodeoxyribonuclease III; EXOIII, AP 99.95
2jc5_A259 Exodeoxyribonuclease; hydrolase, repair phosphodie 99.94
1hd7_A318 DNA-(apurinic or apyrimidinic site) lyase; DNA rep 99.94
2jc4_A256 Exodeoxyribonuclease III; hydrolase, repair phosph 99.94
2o3h_A285 DNA-(apurinic or apyrimidinic site) lyase; APE, en 99.94
1ako_A268 Exonuclease III; AP-endonuclease, DNA repair; 1.70 99.93
1vyb_A238 ORF2 contains A reverse transcriptase domain; endo 99.9
2ei9_A240 Non-LTR retrotransposon R1BMKS ORF2 protein; four 99.86
1wdu_A245 TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA 99.78
4gew_A362 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.7
3teb_A266 Endonuclease/exonuclease/phosphatase; PSI-biology, 99.69
4fva_A256 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosy 99.68
3l1w_A257 Uncharacterized protein; APC29019.2, conserved pro 99.63
3g6s_A267 Putative endonuclease/exonuclease/phosphatase fami 99.62
4gz1_A256 Tyrosyl-DNA phosphodiesterase 2; protein-DNA compl 99.57
1zwx_A301 SMCL, sphingomyelinase-C; dnase1-like fold, beta-h 99.57
2ddr_A306 Sphingomyelin phosphodiesterase; DNAse I like fold 99.54
3mpr_A298 Putative endonuclease/exonuclease/phosphatase FAM 99.53
4f1h_A250 Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA com 99.52
3i41_A317 Beta-hemolysin; beta toxin, sphingomyelinase, toxi 99.4
4b8c_D727 Glucose-repressible alcohol dehydrogenase transcr 98.87
3ngq_A398 CCR4-NOT transcription complex subunit 6-like; alp 98.64
1sr4_B261 CDT B, cytolethal distending toxin protein B; bact 98.6
2f1n_A262 CDT B, cytolethal distending toxin subunit B; E.co 98.54
2a40_B260 Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse 98.33
2imq_X282 Salivary nitrophorin; ferrous heme, beta-sandwich, 98.09
1i9z_A347 Synaptojanin, phosphatidylinositol phosphate phosp 97.87
2xsw_A357 72 kDa inositol polyphosphate 5-phosphatase; inosi 97.7
3mtc_A313 Type II inositol-1,4,5-trisphosphate 5-phosphatas; 95.49
4a9c_A316 Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; 94.34
>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=6.1e-32  Score=264.32  Aligned_cols=176  Identities=29%  Similarity=0.506  Sum_probs=153.1

Q ss_pred             CceEEEecCcccc---------ccCCCCEEEEEECCEEEEEEEeCCCCCCChhhHHHHHHHHHHHHHHHHHHHhcCCcEE
Q 010035            2 EGLEDFSKDELLK---------IDSEGRCVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIF   72 (519)
Q Consensus         2 ~Gvailsr~~l~~---------lD~EGR~Ii~~~~~~vLiNVY~P~~~~~~~eR~~fKl~F~~~L~~ri~~ll~~g~~VI   72 (519)
                      .|||||+|.++..         .|.+||+|.++++.|+|+|||+|+... ..+|+.+|+.|++.|..++..+...+.++|
T Consensus        69 ~Gvail~k~~~~~~~~~~~~~~~d~~gr~i~~~~~~~~i~~vy~p~~~~-~~~~~~~r~~~~~~l~~~~~~~~~~~~~~i  147 (265)
T 3g91_A           69 SGVAMYTKVPPSSLREGFGVERFDTEGRIQIADFDDFLLYNIYFPNGAM-SEERLKYKLEFYDAFLEDVNRERDSGRNVI  147 (265)
T ss_dssp             CCEEEEESSCCSEEECCCSCHHHHSBSCEEEEECSSCEEEEEECCCCTT-CHHHHHHHHHHHHHHHHHHHHHHHTTCCEE
T ss_pred             CEEEEEEecChHHhccCCCCcccCCcCCEEEEEeCCEEEEEEEecCCCC-CchhHHHHHHHHHHHHHHHHHHHcCCCCEE
Confidence            4999999997543         368999999999999999999999986 578999999999999999998876689999


Q ss_pred             EeCCCCCCCCcccccCCC-----CCCCchHHHHHHHHHHHHcCCCeEeeecccCCCCCCCCCcCCCCCCCccCCccceee
Q 010035           73 VVGDLNIAPAAIDRCDAG-----PDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRID  147 (519)
Q Consensus        73 I~GDfN~~~~~iD~~d~~-----~~f~~~e~R~~l~~lL~~~g~~LvD~~R~~hP~~~~~yT~ws~~~~ar~~N~GsRID  147 (519)
                      |+||||+++.++|..++.     .+|.+.+ |.+|+.++ +.  +|+|+||.+||.. +.||||+++.+++..|.|+|||
T Consensus       148 i~GDfN~~~~~~d~~~~~~~~~~~~~~~~~-~~~~~~l~-~~--gl~D~~r~~~p~~-~~yT~~~~~~~~~~~~~~~rID  222 (265)
T 3g91_A          148 ICGDFNTAHREIDLARPKENSNVSGFLPVE-RAWIDKFI-EN--GYVDTFRMFNSDP-GQYTWWSYRTRARERNVGWRLD  222 (265)
T ss_dssp             EEEECCCCCSGGGBSCTGGGTTSTTSCHHH-HHHHHHHH-HT--TEEETHHHHCCCS-CCCSBCCSSTTTTTTTCCBCCE
T ss_pred             EECccccCCchhhccCHhhcCCCCccCHHH-HHHHHHHH-hc--CcEEeeHhhCCCC-CCCCCcCCCCCccccCceEEEE
Confidence            999999999999987642     4566655 88999988 44  5999999999996 5899999999999999999999


Q ss_pred             EEEEcCCccccccccccccccccceeeEEEeccccccCCCCCCCCCCCCCCCCCCCCccceEEEEecc
Q 010035          148 HILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLGEV  215 (519)
Q Consensus       148 yILvS~~ll~~~~~l~~~~~~~~~V~~~~I~~~~r~~~~~~~~~w~~~~~~~~~gSDH~PV~~~L~~~  215 (519)
                      |||+++.++             ..|.++.|+..                   ..+|||+||+++|...
T Consensus       223 ~il~s~~~~-------------~~~~~~~i~~~-------------------~~~SDH~Pv~~~~~~~  258 (265)
T 3g91_A          223 YFFVNEEFK-------------GKVKRSWILSD-------------------VMGSDHCPIGLEIELL  258 (265)
T ss_dssp             EEEEEGGGG-------------GGEEEEEECTT-------------------CCSSSBCCEEEEEECC
T ss_pred             EEEECHHHH-------------hhhcEEEEeCC-------------------CCCCCcceEEEEhhhh
Confidence            999999874             37899999864                   4789999999999754
>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
>2jc5_A Exodeoxyribonuclease; hydrolase, repair phosphodiesterase, DNA repair, exonuclease, endonuclease; HET: BCN DIO GOL; 1.50A {Neisseria meningitidis} 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
>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
>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
>4gew_A 5'-tyrosyl-DNA phosphodiesterase; 5'-phosphotyrosyl-DNA diesterase, hydrolase; 2.35A {Caenorhabditis elegans} PDB: 4f1i_A 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
>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
>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
>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
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin, hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3 Back     alignment and structure
>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken structural genomics/proteomics initiative, RSGI, structural genomics, hydrolase; 1.40A {Bacillus cereus} SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X Back     alignment and structure
>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
>4f1h_A Tyrosyl-DNA phosphodiesterase 2; hydrolase-DNA complex; HET: DNA; 1.66A {Danio rerio} PDB: 4fpv_A* 4f1h_B* 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
>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
>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
>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
>2a40_B Deoxyribonuclease-1; WAVE, WH2, WAsp, actin, DNAse I, ARP2/3, structural protein; HET: HIC NAG ATP; 1.80A {Bos taurus} SCOP: d.151.1.1 PDB: 1dnk_A* 2a3z_B* 2a41_B* 2a42_B* 2d1k_B* 2dnj_A* 3cjc_D* 3dni_A* 1atn_D* Back     alignment and structure
>2imq_X Salivary nitrophorin; ferrous heme, beta-sandwich, transport protein; HET: HEM; 1.30A {Cimex lectularius} SCOP: d.151.1.2 PDB: 1ntf_A* 1y21_A* 1yjh_A* 1si6_X* Back     alignment and structure
>1i9z_A Synaptojanin, phosphatidylinositol phosphate phosphatase; spsynaptojanin, IPP5C, IP3, IP2,, hydrolase; HET: 2IP; 1.80A {Schizosaccharomyces pombe} SCOP: d.151.1.2 PDB: 1i9y_A* Back     alignment and structure
>2xsw_A 72 kDa inositol polyphosphate 5-phosphatase; inositol signalling, SGC stockholm, structural genomics CONS hydrolase; 1.90A {Homo sapiens} Back     alignment and structure
>3mtc_A Type II inositol-1,4,5-trisphosphate 5-phosphatas; INPP5BA,phosphoinositide 5-phosphatase, inositol signalling, phosphatase, magnesium; HET: PIF; 2.40A {Homo sapiens} PDB: 3n9v_A Back     alignment and structure
>4a9c_A Phosphatidylinositol-3,4,5-trisphosphate 5-phosph; SGC, signalling, structural genomics consortium stockholm, magnesium binding, hydrolase; HET: B5F; 2.10A {Homo sapiens} PDB: 3nr8_B* Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 519
d1akoa_268 d.151.1.1 (A:) DNA-repair enzyme exonuclease III { 1e-09
d1hd7a_275 d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human 2e-07
d2imqx1280 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug ( 3e-06
d2f1na1250 d.151.1.1 (A:1-250) Cytolethal distending toxin su 0.002
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} Length = 268 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 enzyme exonuclease III
species: Escherichia coli [TaxId: 562]

 Score = 56.7 bits (135), Expect = 1e-09
 Identities = 35/200 (17%), Positives = 67/200 (33%), Gaps = 41/200 (20%)

Query: 21  CVITDHGHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRIFVVGDLNIA 80
                    ++   +      +  ++   K QF+  LQ   E  L +   + ++GD+NI+
Sbjct: 96  IPSLLGNVTVINGYFPQGESRDHPIKFPAKAQFYQNLQNYLETELKRDNPVLIMGDMNIS 155

Query: 81  PAAIDRCDAGPDFAK----------NEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTC 130
           P  +D      +  +           E R W   ++        D FR  +P+  + ++ 
Sbjct: 156 PTDLDIGIGEENRKRWLRTGKCSFLPEEREWMDRLM---SWGLVDTFRHANPQTADRFSW 212

Query: 131 WPSNTGAEQFNYGTRIDHILCAGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAP 190
           +   +     N G RID +L + P                   E  I  + +  +     
Sbjct: 213 FDYRSKGFDDNRGLRIDLLLASQPLAE-------------CCVETGIDYEIRSME----- 254

Query: 191 RWKGGMSTRLEGSDHAPVYM 210
                     + SDHAPV+ 
Sbjct: 255 ----------KPSDHAPVWA 264
>d1hd7a_ d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human (Homo sapiens) [TaxId: 9606]} Length = 275 Back     information, alignment and structure
>d2imqx1 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug (Cimex lectularius) [TaxId: 79782]} Length = 280 Back     information, alignment and structure
>d2f1na1 d.151.1.1 (A:1-250) Cytolethal distending toxin subunit B {Escherichia coli [TaxId: 562]} Length = 250 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query519
d1vyba_236 Endonuclease domain of LINE-1 reverse transcriptas 99.84
d1hd7a_275 DNA repair endonuclease Hap1 {Human (Homo sapiens) 99.83
d1akoa_268 DNA-repair enzyme exonuclease III {Escherichia col 99.68
d1wdua_228 Endonuclease domain of TRAS1 retrotransposon (ORF2 99.62
d2imqx1280 Salivary nitrophorin {Bedbug (Cimex lectularius) [ 99.49
d2f1na1250 Cytolethal distending toxin subunit B {Escherichia 99.49
d1zwxa1293 Sphingomyelin phosphodiesterase C {Listeria ivanov 99.41
d2ddra1299 Sphingomyelin phosphodiesterase C {Bacillus cereus 99.37
d1sr4b_261 Cytolethal distending toxin subunit B {Haemophilus 99.29
d1i9za_345 Synaptojanin, IPP5C domain {Fission yeast (Schizos 99.1
d2a40b1260 Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913 98.92
>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=99.84  E-value=6.1e-21  Score=178.26  Aligned_cols=157  Identities=22%  Similarity=0.410  Sum_probs=114.0

Q ss_pred             CceEEEecCccc------cccCCCCEEEEEE----CCEEEEEEEeCCCCCCChhhHHHHHHHHHHHHHHHHHHHhcCCcE
Q 010035            2 EGLEDFSKDELL------KIDSEGRCVITDH----GHFILFNVYGPRADSEDTVRIQFKLQFFHVLQKRWEFLLCQGRRI   71 (519)
Q Consensus         2 ~Gvailsr~~l~------~lD~EGR~Ii~~~----~~~vLiNVY~P~~~~~~~eR~~fKl~F~~~L~~ri~~ll~~g~~V   71 (519)
                      .|++||++.++.      ..+.+|+++.++.    ..+.|+|+|+|+...   ++      |+..+...+..  ..++++
T Consensus        70 ~g~~i~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~~~~~---~~------~~~~~~~~~~~--~~~~~~  138 (236)
T d1vyba_          70 AGVAILVSDKTDFKPTKIKRDKEGHYIMVKGSIQQEELTILNIYAPNTGA---PR------FIKQVLSDLQR--DLDSHT  138 (236)
T ss_dssp             CCEEEEECTTCCCEEEEEEECTTSSEEEEEEEETTEEEEEEEEECCSSSH---HH------HHHHHHHHTTT--TCCTTE
T ss_pred             cceeeEeecccccccccccccccccceeeeeeeccCcceeEEeccccccc---HH------HHHhhhhhhcc--ccccee
Confidence            489999998753      2478999887665    379999999998643   22      33333333332  247899


Q ss_pred             EEeCCCCCCCCcccccCCCCCCCchHHHHHHHHHHHHcCCCeEeeecccCCCCCCCCCcCCCCCCCccCCccceeeEEEE
Q 010035           72 FVVGDLNIAPAAIDRCDAGPDFAKNEFRIWFRSMLVESGGSFFDVFRSKHPERREAYTCWPSNTGAEQFNYGTRIDHILC  151 (519)
Q Consensus        72 II~GDfN~~~~~iD~~d~~~~f~~~e~R~~l~~lL~~~g~~LvD~~R~~hP~~~~~yT~ws~~~~ar~~N~GsRIDyILv  151 (519)
                      ||+||||.++...|...... . ..+ +.++...+...  +|+|+||.+++.. ..||||....     +.++||||||+
T Consensus       139 Il~GDfN~~~~~~d~~~~~~-~-~~~-~~~~~~~~~~~--~~~d~~r~~~~~~-~~~~~~~~~~-----~~~~RiD~il~  207 (236)
T d1vyba_         139 LIMGDFNTPLSTLDRSTRQK-V-NKD-TQELNSALHQA--DLIDIYRTLHPKS-TEYTFFSAPH-----HTYSKIDHIVG  207 (236)
T ss_dssp             EEEEECSSCSSGGGBTTCCC-C-CHH-HHHHHHHHHHT--TEEEHHHHHCTTC-CCCSEEETTT-----TEEECCEEEEE
T ss_pred             EEeeccccccchhhhccccc-c-hhh-HHHHHHHHHhh--hcccccceeccCC-ccccccCCCC-----CCCceeEEEEE
Confidence            99999999888877755332 1 222 45556666554  5999999999885 6799987654     45689999999


Q ss_pred             cCCccccccccccccccccceeeEEEeccccccCCCCCCCCCCCCCCCCCCCCccceEEEEe
Q 010035          152 AGPCLHQKHDLQSHNFVTCHVNECDILIDYKRWKPGNAPRWKGGMSTRLEGSDHAPVYMCLG  213 (519)
Q Consensus       152 S~~ll~~~~~l~~~~~~~~~V~~~~I~~~~r~~~~~~~~~w~~~~~~~~~gSDH~PV~~~L~  213 (519)
                      ++.+.             .++..+.|+..                    .+|||+||+++|+
T Consensus       208 s~~~~-------------~~~~~~~i~~~--------------------~~SDH~pv~~~lk  236 (236)
T d1vyba_         208 SKALL-------------SKCKRTEIITN--------------------YLSDHSAIKLELR  236 (236)
T ss_dssp             EGGGG-------------GGEEEEEEECC--------------------SSSSSCEEEEEEC
T ss_pred             ChHHH-------------hhceEEEECCC--------------------CCCCcccEEEEeC
Confidence            98864             36788888763                    6799999999984
>d1hd7a_ d.151.1.1 (A:) DNA repair endonuclease Hap1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1akoa_ d.151.1.1 (A:) DNA-repair enzyme exonuclease III {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1wdua_ d.151.1.1 (A:) Endonuclease domain of TRAS1 retrotransposon (ORF2) {Silkworm (Bombyx mori) [TaxId: 7091]} Back     information, alignment and structure
>d2imqx1 d.151.1.2 (X:3-282) Salivary nitrophorin {Bedbug (Cimex lectularius) [TaxId: 79782]} 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
>d1zwxa1 d.151.1.3 (A:41-333) Sphingomyelin phosphodiesterase C {Listeria ivanovii [TaxId: 1638]} Back     information, alignment and structure
>d2ddra1 d.151.1.3 (A:7-305) Sphingomyelin phosphodiesterase C {Bacillus cereus [TaxId: 1396]} Back     information, alignment and structure
>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
>d2a40b1 d.151.1.1 (B:1-260) Deoxyribonuclease I {Cow (Bos taurus) [TaxId: 9913]} Back     information, alignment and structure