Citrus Sinensis ID: 006675

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-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630------
MSATKIGYLVPLDNNLREDNSLPKLPLSQGPNVIGRTNIPVSDKRLSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSNEHVSIADGDIIELIPGHHFFKYVTLSRSQKRVSNDGATNGELSSKKMRQQDEQDNENGKNSEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQGDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAFQDS
cccccEEEEEEccccccccccccccccccccccccccccccccccccccccccccccccccEEEEcccccEEEEccccccccccccccccccccccccccccccccHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEEEccccccccccccccHHHHHHHHHHHHHHHHHccHHHHHHHccccccccEEEEEEccccHHHHHHHHccccccEEccccccccccccEEEEEEEEEccccEEEEEcccccHHHHcccccEEEEEEcccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccEEEEEccccccccccccHHHHHHHHHHHHHcccccccccccEEEEEcccccccHHHHHHHHHHHccccccccccccccccEEEccccHHHHccccccccccccccccccHHHHHHHHHHHHHccccccccccccccEEEEccccccEEEEEEEcccccHHHHccccccccEEEEEEEEEEEEEccccccccccccccccccccccccccccccHHccccEEEccccccccccccccEEEccccccccccccccccccEEEcccccccccccccccccccccccccc
ccccEEEEEEEccccccccccccccEccccccEEcccccEccccEccccEEEEEEcccccEEEEEEccccEEEEccccEEEEccccEEEEEcccEHEEccccEEEEEEEEccccccccccccccccccHHHcccHHccccccccccHHHHcccccccccccccEEEEEEccccccccccHHHHHHHHcccHHHHHHHHHHHcHHHHHHHccHHccccEEEEEEccccHHHHHHHHcccccEEEEEccccccccccccEEEEEEEccccEEEEEcccccHHHHcccccEEEEccccccccccccccccHHHHHHHHHHHcccccHHHHHcccccccHHHHHHHHccccccEEEEEEcccccccccccccccHHHHHHHHHHcccccccccccEEEEEEcHccccHHHHHHHHHHHHcccccccccccccccEEEEccHHHHHHcccccccccccccHHHHHHHHHHHHHHHHccccccccccccccEEEEEcccccccEEEEEEcHHHHHHHHHHHcccccEEEEEEEEEEEEEccHHccccccccccccccccccccccccccccccccEEEEcccccccccccccEEEEcccccccccccccccccEEEEccccccccccccccccEEEEccccc
msatkigylvpldnnlrednslpklplsqgpnvigrtnipvsdkrlsrkhitltasadgsaslvvdgtnpvvvksgdqrkklssnehvsiadgdiielipghhffKYVTLSrsqkrvsndgatngelssKKMRQQDeqdnengknsEEALCNFhvsrdklpSTFRLLRvqglpawantscvsiRDVIQGDIIVAILSNYMVDidwllpacpvlakiphvlvihgesdgtlehmkrnkpanwilhkpplpisfgthhsKAMLLIYPRGVRIIVHTANLIHvdwnnksqglwmqdfplkdqnnlseecgfeNDLIDYLstlkwpefsanlpahgnfkinpsffkkfnfSSAAVRLIAsvpgyhtgsslkkwgHMKLRTVLQEctfekgfkksplvyqfsslgslDEKWMAELSSsmssgfsedktplgigeplivwptvedvrcslegyaagnaipspqknvdKDFLKKYWAKWKAshtgrsramphiKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLilpsakrhgcgfsctsnivpseiksgstetSQIQKTKLVTltwhgssdagassevvylpvpyelppqryssedvpwswdkrytkkdvygqvwprhfqlyafqds
MSATKIGYLVPLDNNLREDNSlpklplsqgpnvigrtnipvsdkrlsRKHITLtasadgsaslvvdgTNPVVVksgdqrkklssnehvsiadgdiieliPGHHFFKYVTLsrsqkrvsndgatngelsskkmrqQDEQDNENGKNSEEALCNFHVSRDKLPSTFRLLRVQGLpawantscvsiRDVIQGDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGIGEPLIVWPTVEDVRCSLEGyaagnaipspqknvDKDFLKKYWAKWKashtgrsrampHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVpseiksgstetSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELppqryssedvpwswdkrytkkDVYGQVWPRHFQLYAFQDS
MSATKIGYLVPLDNNLREDNSLPKLPLSQGPNVIGRTNIPVSDKRLSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSNEHVSIADGDIIELIPGHHFFKYVTLSRSQKRVSNDGATNGELSSKKMRQQDEQDNENGKNSEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQGDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGnfkinpsffkkfnfssAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELsssmssgfsEDKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSevvylpvpyelppQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAFQDS
*******YLV*****************************************************************************VSIADGDIIELIPGHHFFKYVTL***************************************LCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQGDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKW******************LGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVP***************TKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAF***
****KIG*************************V*****************************************************************************************************************************KLPSTFRLLRVQGLPAWANTSCVSIRDVIQGDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTL*HMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWM********************LIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVL**********KSPLVYQFSSLGSLDEKWMAELSS*****************PLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCG******************************************EVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLY*****
MSATKIGYLVPLDNNLREDNSLPKLPLSQGPNVIGRTNIPVSDKRLSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSNEHVSIADGDIIELIPGHHFFKYVTLSR*********************************SEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQGDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAEL**********DKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEI**********QKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAFQDS
**ATKIGYLVPLDNNL*EDNSLPKLPLSQGPNVIGRTNIPVSDKRLSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSNEHVSIADGDIIELIPGHHFFKYVTLSR*******************************************SRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQGDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLK******EECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIK**********KTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAF***
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MSATKIGYLVPLDNNLREDNSLPKLPLSQGPNVIGRTNIPVSDKRLSRKHITLTASADGSASLVVDGTNPVVVKSGDQRKKLSSNEHVSIADGDIIELIPGHHFFKYVTLSRSQKRVSNDGATNGELSSKKMRQQDEQDNENGKNSEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQGDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAFQDS
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 ?
Query636 2.2.26 [Sep-21-2011]
Q9NUW8608 Tyrosyl-DNA phosphodieste yes no 0.790 0.827 0.353 7e-79
Q8BJ37609 Tyrosyl-DNA phosphodieste yes no 0.663 0.692 0.383 2e-76
Q4G056609 Tyrosyl-DNA phosphodieste yes no 0.665 0.694 0.380 1e-75
Q9VQM4580 Probable tyrosyl-DNA phos yes no 0.533 0.584 0.350 9e-43
Q9TXV7451 Probable tyrosyl-DNA phos yes no 0.586 0.827 0.301 5e-41
Q9USG9536 Probable tyrosyl-DNA phos yes no 0.698 0.828 0.261 6e-31
>sp|Q9NUW8|TYDP1_HUMAN Tyrosyl-DNA phosphodiesterase 1 OS=Homo sapiens GN=TDP1 PE=1 SV=2 Back     alignment and function desciption
 Score =  295 bits (755), Expect = 7e-79,   Method: Compositional matrix adjust.
 Identities = 203/575 (35%), Positives = 301/575 (52%), Gaps = 72/575 (12%)

Query: 78  QRKKLSSNEHV----SIADGDIIELIPGHHFFKYVTLSRSQKRVSNDGAT-----NGELS 128
           +R+K  S E +    S +D ++   +P     K V          NDG       +G  +
Sbjct: 75  KRQKSGSQEDLGWCLSSSDDELQPEMPQKQAEKVVIKKEKDISAPNDGTAQRTENHGAPA 134

Query: 129 SKKMRQQDEQDNENGKNSEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQ 188
             ++++++++   +G+  +     + +     P  F L RV G+    N+  + I+D++ 
Sbjct: 135 CHRLKEEEDEYETSGEGQD----IWDMLDKGNPFQFYLTRVSGVKPKYNSGALHIKDILS 190

Query: 189 ---GDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTLEHM-KRNKP-ANWIL 243
              G ++ +   NY  D+DWL+   P   +   +L++HG+      H+  + KP  N  L
Sbjct: 191 PLFGTLVSSAQFNYCFDVDWLVKQYPPEFRKKPILLVHGDKREAKAHLHAQAKPYENISL 250

Query: 244 HKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQD-FP-LKDQNN 301
            +  L I+FGTHH+K MLL+Y  G+R+++HT+NLIH DW+ K+QG+W+   +P + D  +
Sbjct: 251 CQAKLDIAFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIADGTH 310

Query: 302 LSEE--CGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPG 359
            S E    F+ DLI YL     P     +              K + S   V LI S PG
Sbjct: 311 KSGESPTHFKADLISYLMAYNAPSLKEWI----------DVIHKHDLSETNVYLIGSTPG 360

Query: 360 YHTGSSLKKWGHMKLRTVLQECTFEKGFKKS-PLVYQFSSLGSL---DEKWM-AELSSSM 414
              GS    WGH +L+ +L++        +S P+V QFSS+GSL   + KW+ +E   SM
Sbjct: 361 RFQGSQKDNWGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKWLCSEFKESM 420

Query: 415 SSGFSEDKTPLGIGEPL-IVWPTVEDVRCSLEGYAAGNAIP-SPQKNVDKDFLKKYWAKW 472
            +   E KTP     PL +++P+VE+VR SLEGY AG ++P S Q    +++L  Y+ KW
Sbjct: 421 LTLGKESKTPGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQNWLHSYFHKW 480

Query: 473 KASHTGRSRAMPHIKTFARY--NGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELG 530
            A  +GRS AMPHIKT+ R   +  K+AWFL+TSANLSKAAWGAL+KN +QLMIRSYELG
Sbjct: 481 SAETSGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNGTQLMIRSYELG 540

Query: 531 VLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYL 590
           VL LPSA      F   S  V  +  +GS E                         +   
Sbjct: 541 VLFLPSA------FGLDSFKVKQKFFAGSQEP------------------------MATF 570

Query: 591 PVPYELPPQRYSSEDVPWSWDKRYTKK-DVYGQVW 624
           PVPY+LPP+ Y S+D PW W+  Y K  D +G +W
Sbjct: 571 PVPYDLPPELYGSKDRPWIWNIPYVKAPDTHGNMW 605
DNA repair enzyme that can remove a variety of covalent adducts from DNA through hydrolysis of a 3'-phosphodiester bond, giving rise to DNA with a free 3' phosphate. Catalyzes the hydrolysis of dead-end complexes between DNA and the topoisomerase I active site tyrosine residue. Hydrolyzes 3'-phosphoglycolates on protruding 3' ends on DNA double-strand breaks due to DNA damage by radiation and free radicals. Acts on blunt-ended double-strand DNA breaks and on single-stranded DNA. Has low 3'exonuclease activity and can remove a single nucleoside from the 3'end of DNA and RNA molecules with 3'hydroxyl groups. Has no exonuclease activity towards DNA or RNA with a 3'phosphate.
Homo sapiens (taxid: 9606)
EC: 3EC: .EC: 1EC: .EC: 4EC: .EC: -
>sp|Q8BJ37|TYDP1_MOUSE Tyrosyl-DNA phosphodiesterase 1 OS=Mus musculus GN=Tdp1 PE=2 SV=2 Back     alignment and function description
>sp|Q4G056|TYDP1_RAT Tyrosyl-DNA phosphodiesterase 1 OS=Rattus norvegicus GN=Tdp1 PE=2 SV=1 Back     alignment and function description
>sp|Q9VQM4|TYDP1_DROME Probable tyrosyl-DNA phosphodiesterase OS=Drosophila melanogaster GN=gkt PE=2 SV=1 Back     alignment and function description
>sp|Q9TXV7|TYDP1_CAEEL Probable tyrosyl-DNA phosphodiesterase OS=Caenorhabditis elegans GN=F52C12.1 PE=3 SV=1 Back     alignment and function description
>sp|Q9USG9|TYDP1_SCHPO Probable tyrosyl-DNA phosphodiesterase OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=SPCP31B10.05 PE=3 SV=1 Back     alignment and function description

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

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query636
359483320621 PREDICTED: tyrosyl-DNA phosphodiesterase 0.976 1.0 0.731 0.0
302144065678 unnamed protein product [Vitis vinifera] 1.0 0.938 0.697 0.0
255554997665 tyrosyl-DNA phosphodiesterase, putative 0.948 0.906 0.723 0.0
449479663 959 PREDICTED: tyrosyl-DNA phosphodiesterase 0.979 0.649 0.687 0.0
449434370613 PREDICTED: tyrosyl-DNA phosphodiesterase 0.963 1.0 0.684 0.0
356507524610 PREDICTED: tyrosyl-DNA phosphodiesterase 0.946 0.986 0.716 0.0
356507526599 PREDICTED: tyrosyl-DNA phosphodiesterase 0.929 0.986 0.714 0.0
224078752599 predicted protein [Populus trichocarpa] 0.938 0.996 0.694 0.0
297811655612 hypothetical protein ARALYDRAFT_488358 [ 0.954 0.991 0.670 0.0
22326821605 tyrosyl-DNA phosphodiesterase 1 [Arabido 0.943 0.991 0.662 0.0
>gi|359483320|ref|XP_002265078.2| PREDICTED: tyrosyl-DNA phosphodiesterase 1-like [Vitis vinifera] Back     alignment and taxonomy information
 Score =  965 bits (2495), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 465/636 (73%), Positives = 531/636 (83%), Gaps = 15/636 (2%)

Query: 1   MSATKIGYLVPLDNNLREDNSLPKLPLSQGPNVIGRTNIPVSDKRLSRKHITLTASADGS 60
           MS ++IG+LVPL+ NL ED S PKLP+  G NVIGR +I VSDKRLSRKH+TL AS +GS
Sbjct: 1   MSLSQIGFLVPLNRNLEEDTSTPKLPIPTGANVIGRNSISVSDKRLSRKHLTLIASGNGS 60

Query: 61  ASLVVDGTNPVVVKSGDQRKKLSSNEHVSIADGDIIELIPGHHFFKYVTLSRSQKRVSND 120
              VV+GTNPVVV SG+QRKKL + E   I + DIIELIPGH+FFKYVT++         
Sbjct: 61  VDAVVEGTNPVVVASGNQRKKLRTGEKAVITNDDIIELIPGHYFFKYVTVA--------- 111

Query: 121 GATNGELSSKKMRQQDEQDNENGKNSEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSC 180
               GE   KK    D Q+ E+  N  +A+ +F + +D LP T+RLLRV+ LPAWANTS 
Sbjct: 112 ----GEKCEKKGNSMDAQNMES--NEVKAIRHFSIPKDNLPLTYRLLRVKDLPAWANTSS 165

Query: 181 VSIRDVIQGDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDGTLEHMKRNKPAN 240
           VSIRDVIQGD+++A+LSNYMVDIDWLL +CP LAKIPHVLVIHGE DGTL+HMK+NKP N
Sbjct: 166 VSIRDVIQGDVLIAVLSNYMVDIDWLLSSCPTLAKIPHVLVIHGEGDGTLDHMKKNKPPN 225

Query: 241 WILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQN 300
           WILHKPPLPISFGTHHSKAMLL+YPRGVR+IVHTANLI+VDWNNKSQGLWMQDFP K Q 
Sbjct: 226 WILHKPPLPISFGTHHSKAMLLVYPRGVRVIVHTANLIYVDWNNKSQGLWMQDFPWKVQK 285

Query: 301 NLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGY 360
            LS+ C FENDLIDYLS LKWPEF+ANLPA G+F IN SFFKKF++S+A VRLIASVPGY
Sbjct: 286 ELSKGCAFENDLIDYLSVLKWPEFTANLPALGSFNINSSFFKKFDYSNAVVRLIASVPGY 345

Query: 361 HTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSE 420
           HTGS+LKKWGHMKL +VLQEC F+K F+KSPL YQFSSLGSLDEKWM EL+SSMSSG  +
Sbjct: 346 HTGSNLKKWGHMKLCSVLQECIFDKEFQKSPLAYQFSSLGSLDEKWMTELASSMSSGSCD 405

Query: 421 DKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRS 480
           DKTPLG+G+PLI+WPTVEDVRCSLEGYAAGNAIPSPQKNV+K+FLKKYWAKWKA+HTGR 
Sbjct: 406 DKTPLGLGKPLIIWPTVEDVRCSLEGYAAGNAIPSPQKNVEKEFLKKYWAKWKATHTGRC 465

Query: 481 RAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRH 540
           RAMPHIKT+ RYNGQ LAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVL LPS    
Sbjct: 466 RAMPHIKTYTRYNGQNLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLFLPSPINR 525

Query: 541 GCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQR 600
           G GFSCT N  PS+ K G +E ++ Q+TKLVTLTW G+  + +SSEV+ LPVPYELPP++
Sbjct: 526 GQGFSCTDNGSPSKNKCGLSENTKSQRTKLVTLTWEGNRSSDSSSEVIPLPVPYELPPKQ 585

Query: 601 YSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAFQDS 636
           YSSEDVPWSWD+RY KKDV GQVWPRH QLY+  DS
Sbjct: 586 YSSEDVPWSWDRRYYKKDVCGQVWPRHVQLYSSPDS 621

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|302144065|emb|CBI23170.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
>gi|255554997|ref|XP_002518536.1| tyrosyl-DNA phosphodiesterase, putative [Ricinus communis] gi|223542381|gb|EEF43923.1| tyrosyl-DNA phosphodiesterase, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449479663|ref|XP_004155668.1| PREDICTED: tyrosyl-DNA phosphodiesterase 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|449434370|ref|XP_004134969.1| PREDICTED: tyrosyl-DNA phosphodiesterase 1-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356507524|ref|XP_003522514.1| PREDICTED: tyrosyl-DNA phosphodiesterase 1-like isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|356507526|ref|XP_003522515.1| PREDICTED: tyrosyl-DNA phosphodiesterase 1-like isoform 2 [Glycine max] Back     alignment and taxonomy information
>gi|224078752|ref|XP_002305614.1| predicted protein [Populus trichocarpa] gi|222848578|gb|EEE86125.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|297811655|ref|XP_002873711.1| hypothetical protein ARALYDRAFT_488358 [Arabidopsis lyrata subsp. lyrata] gi|297319548|gb|EFH49970.1| hypothetical protein ARALYDRAFT_488358 [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|22326821|ref|NP_197021.2| tyrosyl-DNA phosphodiesterase 1 [Arabidopsis thaliana] gi|23297734|gb|AAN13014.1| unknown protein [Arabidopsis thaliana] gi|226511716|gb|ACO60340.1| tyrosyl-DNA phosphodiesterase I [Arabidopsis thaliana] gi|332004741|gb|AED92124.1| tyrosyl-DNA phosphodiesterase 1 [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 ?
Query636
TAIR|locus:2150931605 TDP1 "tyrosyl-DNA phosphodiest 0.745 0.783 0.674 6.3e-214
UNIPROTKB|Q9NUW8608 TDP1 "Tyrosyl-DNA phosphodiest 0.699 0.731 0.364 9.7e-74
UNIPROTKB|E2REL5609 TDP1 "Uncharacterized protein" 0.603 0.630 0.402 5.3e-73
MGI|MGI:1920036609 Tdp1 "tyrosyl-DNA phosphodiest 0.575 0.600 0.411 3.3e-71
RGD|1309618609 Tdp1 "tyrosyl-DNA phosphodiest 0.619 0.646 0.387 8.6e-71
UNIPROTKB|F1NSQ5602 TDP1 "Uncharacterized protein" 0.654 0.691 0.371 8.6e-71
UNIPROTKB|F1MST1612 TDP1 "Uncharacterized protein" 0.603 0.627 0.396 2.3e-70
UNIPROTKB|F1SDA7607 LOC100625067 "Uncharacterized 0.599 0.627 0.401 2.9e-70
ZFIN|ZDB-GENE-090909-1615 tdp1 "tyrosyl-DNA phosphodiest 0.595 0.616 0.388 1.6e-69
UNIPROTKB|G3V2F4578 TDP1 "Tyrosyl-DNA phosphodiest 0.709 0.780 0.365 3.8e-69
TAIR|locus:2150931 TDP1 "tyrosyl-DNA phosphodiesterase 1" [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1733 (615.1 bits), Expect = 6.3e-214, Sum P(2) = 6.3e-214
 Identities = 326/483 (67%), Positives = 370/483 (76%)

Query:   148 EALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQGDIIVAILSNYMVDIDWLL 207
             EA+  F    +KLPSTFRLL V  LP WANTSCVSI DVI+GD++ AILSNYMVDIDWL+
Sbjct:   128 EAIRRFCPPNEKLPSTFRLLSVDALPDWANTSCVSINDVIEGDVVAAILSNYMVDIDWLM 187

Query:   208 PACPVLAKIPHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRG 267
              ACP LA IP V+VIHGE DG  E+++R KPANWILHKP LPISFGTHHSKA+ L+YPRG
Sbjct:   188 SACPKLANIPQVMVIHGEGDGRQEYIQRKKPANWILHKPRLPISFGTHHSKAIFLVYPRG 247

Query:   268 VRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQN-NLSEECGFENDLIDYLSTLKWPEFSA 326
             VR++VHTANLIHVDWNNKSQGLWMQDFP KD + +  + CGFE DLIDYL+ LKWPEF+A
Sbjct:   248 VRVVVHTANLIHVDWNNKSQGLWMQDFPWKDDDKDPPKGCGFEGDLIDYLNVLKWPEFTA 307

Query:   327 NLPAHGXXXXXXXXXXXXXXXXAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKG 386
             NLP  G                A VRLIASVPGYHTG +L KWGHMKLRT+LQEC F++ 
Sbjct:   308 NLPGRGNVKINAAFFKKFDYSDATVRLIASVPGYHTGFNLNKWGHMKLRTILQECIFDRE 367

Query:   387 FKKSPLVYQFSSLGSLDEKWMAELXXXXXXXXXEDKTPLGIGEPLIVWPTVEDVRCSLEG 446
             F++SPL+YQFSSLGSLDEKW+AE          EDKTPLG G+ LI+WPTVEDVRCSLEG
Sbjct:   368 FRRSPLIYQFSSLGSLDEKWLAEFGNSLSSGITEDKTPLGPGDSLIIWPTVEDVRCSLEG 427

Query:   447 YAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSAN 506
             YAAGNAIPSP KNV+K FLKKYWA+WKA H+ R RAMPHIKTF RYN QK+AWFLLTS+N
Sbjct:   428 YAAGNAIPSPLKNVEKPFLKKYWARWKADHSARGRAMPHIKTFTRYNDQKIAWFLLTSSN 487

Query:   507 LSKAAWGALQKNNSQLMIRSYELGVLILPSA-KRHGCGFSCT-SNIVPSEIKSGSTETSQ 564
             LSKAAWGALQKNNSQLMIRSYELGVL LPS  K  GC FSCT SN  PS +K+      +
Sbjct:   488 LSKAAWGALQKNNSQLMIRSYELGVLFLPSPIKTQGCVFSCTESN--PSVMKAKQETKDE 545

Query:   565 IQK-TKLVTLTWHGSSDAGASSXXXXXXXXXXXXXQRYSSEDVPWSWDKRYTKKDVYGQV 623
             ++K +KLVT+TW G  D                  + YS EDVPWSWD+ Y+KKDVYGQV
Sbjct:   546 VEKRSKLVTMTWQGDRDL---PEIISLPVPYQLPPKPYSPEDVPWSWDRGYSKKDVYGQV 602

Query:   624 WPR 626
             WPR
Sbjct:   603 WPR 605
GO:0005634 "nucleus" evidence=IEA
GO:0006281 "DNA repair" evidence=IEA
GO:0008081 "phosphoric diester hydrolase activity" evidence=IEA
GO:0017005 "3'-tyrosyl-DNA phosphodiesterase activity" evidence=IDA
GO:0009616 "virus induced gene silencing" evidence=RCA
GO:0010050 "vegetative phase change" evidence=RCA
UNIPROTKB|Q9NUW8 TDP1 "Tyrosyl-DNA phosphodiesterase 1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E2REL5 TDP1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
MGI|MGI:1920036 Tdp1 "tyrosyl-DNA phosphodiesterase 1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
RGD|1309618 Tdp1 "tyrosyl-DNA phosphodiesterase 1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1NSQ5 TDP1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
UNIPROTKB|F1MST1 TDP1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|F1SDA7 LOC100625067 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-090909-1 tdp1 "tyrosyl-DNA phosphodiesterase 1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|G3V2F4 TDP1 "Tyrosyl-DNA phosphodiesterase 1" [Homo sapiens (taxid:9606)] 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 ?

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Fail to connect to STRING server

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 ?
Query636
pfam06087433 pfam06087, Tyr-DNA_phospho, Tyrosyl-DNA phosphodie 2e-99
cd09195191 cd09195, PLDc_mTdp1_2, Catalytic domain, repeat 2, 8e-74
cd09123182 cd09123, PLDc_Tdp1_2, Catalytic domain, repeat 2, 1e-59
cd09122145 cd09122, PLDc_Tdp1_1, Catalytic domain, repeat 1, 1e-52
cd09193169 cd09193, PLDc_mTdp1_1, Catalytic domain, repeat 1, 5e-31
cd09194166 cd09194, PLDc_yTdp1_1, Catalytic domain, repeat 1, 2e-26
cd09196200 cd09196, PLDc_yTdp1_2, Catalytic domain, repeat 2, 1e-19
cd00060102 cd00060, FHA, Forkhead associated domain (FHA); fo 2e-07
pfam0049867 pfam00498, FHA, FHA domain 0.002
>gnl|CDD|218888 pfam06087, Tyr-DNA_phospho, Tyrosyl-DNA phosphodiesterase Back     alignment and domain information 
 Score =  310 bits (795), Expect = 2e-99
 Identities = 145/455 (31%), Positives = 224/455 (49%), Gaps = 69/455 (15%)

Query: 177 NTSCVSIRDVIQ-GDIIVAILSNYMVDIDWLLPACPVLAKIPHVLVIHGESDG--TLEHM 233
           N   +++ D++   D+  +   N+M D+D+LL       +   + ++ G  +     E +
Sbjct: 19  NPDTITLEDILGDPDLEESWQFNFMFDLDFLLDQFDPSGRENKITIVTGTDNLLEKREII 78

Query: 234 KRNKPANWILHKPPLPISFGTHHSKAMLLIYPRG-VRIIVHTANLIHVDWNNKSQGLWMQ 292
           +     N  + K  +P  FGTHH+K M+L Y  G  R+++ TANL   DW N +QGLW+ 
Sbjct: 79  EDCGYPNVTVIKAKMPGPFGTHHTKMMILFYEDGSCRVVIPTANLTPGDWGNMTQGLWIS 138

Query: 293 DFPLKDQNNLSEE-CGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAV 351
                 ++ L E    F+ DL++YLS          L             +K++FSS  V
Sbjct: 139 PLLKIGKSELEESSTRFKRDLLEYLSEYGAKTLLEPLID---------RLRKYDFSSVNV 189

Query: 352 RLIASVPGYHTGSSLKKWGHMKLRTVLQE---CTFEKGFKKSPLVYQFSSLGSLD--EKW 406
            L+ASVPG HTG+   KWG  +L +VL+     T ++  ++  +V Q SS+GSL    K 
Sbjct: 190 ELVASVPGKHTGNK-DKWGLPRLGSVLRANPLLTKDEKDEQVHVVCQSSSIGSLGVTPKD 248

Query: 407 ------MAELSSSMSSGFSEDKTPLGIGE----PLIVWPTVEDVRCSLEGYAAGNAIP-- 454
                 +  L  +  S   ++ +     E    P I++PTV++VR SL+GY +G ++   
Sbjct: 249 WLKSNFLGSLYPASFSSEGQESSINQQKERKPKPRIIYPTVDEVRTSLDGYDSGGSLHFK 308

Query: 455 --SPQKNVDKDFLKKYWAKWKASH--TGRSRAMPHIKTFARYNGQK---LAWFLLTSANL 507
             S      +++L+ Y  KWK+S+   GR+RA PHIKT+ R+N +    L W L+TSANL
Sbjct: 309 KQSYATKFPQEWLRPYLHKWKSSNADKGRTRAPPHIKTYIRFNDEDFKDLDWALVTSANL 368

Query: 508 SKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQK 567
           SKAAWGAL KN +QL IRSYELGVL  P++                        T     
Sbjct: 369 SKAAWGALVKNETQLRIRSYELGVLYWPTSA-----------------------TPLDVF 405

Query: 568 TKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYS 602
           +               S + + +P+P++LPP  Y 
Sbjct: 406 SLKD-------VIYRQSKQTIGVPMPFDLPPTPYG 433

Covalent intermediates between topoisomerase I and DNA can become dead-end complexes that lead to cell death. Tyrosyl-DNA phosphodiesterase can hydrolyse the bond between topoisomerase I and DNA. Length = 433
>gnl|CDD|197291 cd09195, PLDc_mTdp1_2, Catalytic domain, repeat 2, of metazoan tyrosyl-DNA phosphodiesterase Back     alignment and domain information
>gnl|CDD|197222 cd09123, PLDc_Tdp1_2, Catalytic domain, repeat 2, of tyrosyl-DNA phosphodiesterase Back     alignment and domain information
>gnl|CDD|197221 cd09122, PLDc_Tdp1_1, Catalytic domain, repeat 1, of Tyrosyl-DNA phosphodiesterase Back     alignment and domain information
>gnl|CDD|197289 cd09193, PLDc_mTdp1_1, Catalytic domain, repeat 1, of metazoan tyrosyl-DNA phosphodiesterase Back     alignment and domain information
>gnl|CDD|197290 cd09194, PLDc_yTdp1_1, Catalytic domain, repeat 1, of yeast tyrosyl-DNA phosphodiesterase Back     alignment and domain information
>gnl|CDD|197292 cd09196, PLDc_yTdp1_2, Catalytic domain, repeat 2, of yeast tyrosyl-DNA phosphodiesterase Back     alignment and domain information
>gnl|CDD|238017 cd00060, FHA, Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins Back     alignment and domain information
>gnl|CDD|215951 pfam00498, FHA, FHA domain Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 636
KOG2031519 consensus Tyrosyl-DNA phosphodiesterase [Replicati 100.0
PF06087443 Tyr-DNA_phospho: Tyrosyl-DNA phosphodiesterase; In 100.0
cd00060102 FHA Forkhead associated domain (FHA); found in euk 97.59
TIGR01663526 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase 97.05
PF0049868 FHA: FHA domain; InterPro: IPR000253 The forkhead- 97.02
PF13091126 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 94.64
TIGR03354396 VI_FHA type VI secretion system FHA domain protein 91.22
PLN02927668 antheraxanthin epoxidase/zeaxanthin epoxidase 90.64
smart0024052 FHA Forkhead associated domain. Found in eukaryoti 89.02
PRK13912177 nuclease NucT; Provisional 87.67
smart0015528 PLDc Phospholipase D. Active site motifs. Phosphat 85.75
COG1716191 FOG: FHA domain [Signal transduction mechanisms] 84.18
PF0061428 PLDc: Phospholipase D Active site motif; InterPro: 83.73
COG1502438 Cls Phosphatidylserine/phosphatidylglycerophosphat 80.48
smart0015528 PLDc Phospholipase D. Active site motifs. Phosphat 80.34
>KOG2031 consensus Tyrosyl-DNA phosphodiesterase [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=5e-107  Score=862.87  Aligned_cols=504  Identities=38%  Similarity=0.626  Sum_probs=404.2

Q ss_pred             EEEeecCCcEEEee--CCcccccccccccccccCCccccCCCCccceeeeeccccccccCCCCCcccchhhhhhhccccc
Q 006675           62 SLVVDGTNPVVVKS--GDQRKKLSSNEHVSIADGDIIELIPGHHFFKYVTLSRSQKRVSNDGATNGELSSKKMRQQDEQD  139 (636)
Q Consensus        62 ~~~~~~~~~~~~~~--~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  139 (636)
                      ++++.++++..++|  ..++.+.-...+....+++.++.+++++..+.+.+       .++.              .+.+
T Consensus         2 s~ss~~~~~~p~~s~~~~~~s~~~~~~~isa~~~~~~~~~~n~~~~~~~~l-------~g~~--------------~~~~   60 (519)
T KOG2031|consen    2 SLSSNFNGLKPERSDVAEEKSQRKKSSRISAENDNAAPVTENHHKDDCVIL-------KGSR--------------DIKL   60 (519)
T ss_pred             ccccCCCCcccccccccchhcccccCccccccCcccccccccccchhhhhc-------CCCc--------------cccc
Confidence            35667778888888  45566666778888899999999999999875543       1111              1122


Q ss_pred             CCCCCCccccccccccCCCCCCCceEEEEecCCCCCCCCCceeecccc---cccHHHhhhhhcccCHHhhhccCCCCCCC
Q 006675          140 NENGKNSEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVI---QGDIIVAILSNYMVDIDWLLPACPVLAKI  216 (636)
Q Consensus       140 ~~~~~~~~~~~~~~~~~~~~~~~~FrLtrv~g~~~~~N~~~Itl~DIL---~gdl~~ail~nF~~Dl~WLl~~~p~~~~~  216 (636)
                      +...+...|+....+.+......+++..-+.+++.   ...+++.+|+   .|++..++|||||+|++||+.+||...+.
T Consensus        61 t~~e~~~~~~~~~~~~p~~~~ft~v~~~s~~~~~s---~~s~sl~~il~~i~g~~v~silfsfmvdid~Lv~~y~~~~~~  137 (519)
T KOG2031|consen   61 TNQEKDDSERILTNDNPKGAVFTTVKGDSVPRYDS---MGSVSLMEILADIFGTPVNSILFSFMVDIDWLVGQYPPSVRI  137 (519)
T ss_pred             CccccccHHHHhccCCcccccccccccccccccCc---ccchHHHHHHHHhhCCchhheEEEEEeEHHHHHhhCcchhcc
Confidence            23333344555555544433333333333333333   3555555554   47899999999999999999999865556


Q ss_pred             CeEEEEeCCCCchhhhhhhcCCCceEEecCCCCCCCCCccceeEEEEeCCccEEEEeCCCCCccccccccceEEeecccC
Q 006675          217 PHVLVIHGESDGTLEHMKRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPL  296 (636)
Q Consensus       217 ~~i~Vv~ge~~~~~~~~~~~~p~n~~l~~p~mp~~fGtHHSKmmLL~y~dglRVVI~TANLi~~DW~~~tQ~vW~qDfP~  296 (636)
                      +.|+++||+.++.........+.+++++.+.||++|||||+|||+|+|++|+|||||||||++.||+++||++|++++++
T Consensus       138 ~~i~l~~G~~d~~~~~~~~K~~~l~~~~~~~LpipF~thHtKm~~l~y~~G~rvvv~taNl~~~Dw~~ktQ~~w~sp~~~  217 (519)
T KOG2031|consen  138 KPITLVHGEPDEARLLAQTKAPILVTVKLASLPIPFGTHHTKMIILFYEEGCRVVVHTANLIHDDWNNKTQGFWCSPLLK  217 (519)
T ss_pred             CceEEEecCCchHHHHhhhhccceeeeecccccccccccccceEEEeccCccEEEEecCCcceecccccccceeecCCcc
Confidence            67889999987443333334567999999999999999999999999999999999999999999999999999999888


Q ss_pred             CCCCCCCCCCCcHHHHHHHHHhcCCCcccccCCCCCCccccccccccccccccceEEEEccCCCCCCCccccccHHHHHH
Q 006675          297 KDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRT  376 (636)
Q Consensus       297 ~~~~s~~~~t~Fk~DLi~YL~ay~~~~~~~~~p~lg~~~I~~~~L~~yDFS~a~v~LVaSVPG~H~g~~~~~~G~~~L~~  376 (636)
                      +.......++.|+.||++||++|++|.+.          .|++.|++||||.++|+||+||||++.|.....|||+||++
T Consensus       218 ~~~~~g~~~~~Fk~DLi~YL~~Y~~~~l~----------~~i~~lkk~DfS~i~v~fIgStPG~f~gs~~~~WGh~kL~k  287 (519)
T KOG2031|consen  218 IGDKKGVSPTGFKQDLIEYLNSYRLPQLK----------EWIASLKKVDFSAINVRFIGSTPGKFQGSGLLSWGHNKLKK  287 (519)
T ss_pred             cccCCCCCCCchHHHHHHHHHHhccchhH----------HHHHHHHhcchhhceEEEEeecCCcccCcccccccHHHHHH
Confidence            76667788999999999999999987543          34689999999999999999999998887777799999999


Q ss_pred             HHhhccccCCCcccCeEEEecCCCcCChHHHHHHHhcccCCCCCCCCCCCC--CCceEEccCchhhhcCcccccCCcccc
Q 006675          377 VLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGI--GEPLIVWPTVEDVRCSLEGYAAGNAIP  454 (636)
Q Consensus       377 ~L~~~~~~~~~~~~~i~~Q~SSIGsl~~~wL~~f~~sl~~g~~~~~~~~~~--~~~~IIfPT~e~Vr~S~~G~~~Ggsi~  454 (636)
                      +|+++......++++++||+||+|+++..|...|...+.....++.++.+.  ++++|||||+||||+|.+||++|||||
T Consensus       288 iL~~~~~~~~~~r~~~v~q~sS~gsl~~~~~~~~~~~f~~~l~kdt~~~gk~~~~~yiIfPTveeVrtS~~G~~~Ggsip  367 (519)
T KOG2031|consen  288 ILKEHAASPYLERTPVVGQSSSIGSLGSLWSAWFIGDFVESLAKDTTPPGKLRPPFYIIFPTVEEVRTSLLGYAGGGSLP  367 (519)
T ss_pred             HHHhhccCcccccCceeeeeeccccccchhhhhhhhhhccchhhccCCCCCCCCCeeEEcccHHHhhccccccccCceec
Confidence            999987656668899999999999999887776666665555555555443  468999999999999999999999999


Q ss_pred             CCCccch-hHhHHHHHhhhcCCCCCCCCCCCcceeEEeec--CCceeEEEEeccccchhhhhccccCCc---eeeeeeee
Q 006675          455 SPQKNVD-KDFLKKYWAKWKASHTGRSRAMPHIKTFARYN--GQKLAWFLLTSANLSKAAWGALQKNNS---QLMIRSYE  528 (636)
Q Consensus       455 ~~~~~~~-~~~l~~~~~kw~~~~s~R~~a~PHiKty~r~~--~~~i~W~lltSaNLSkaAWG~l~k~~s---ql~IrNyE  528 (636)
                      |..++.+ +.|+++|||||.+.+++|+|||||||||||++  ++.+.|||||||||||||||+++++++   ||||||||
T Consensus       368 y~~~~~~kq~~lk~y~~kW~A~~s~R~ramPHiKtYmr~~~d~q~l~W~LlTSANLSKaAWG~l~kn~sk~~~LmIRsYE  447 (519)
T KOG2031|consen  368 YGKNTNEKQPWLKKYLCKWKAMDSRRSRAMPHIKTYMRFNLDDQKLAWFLLTSANLSKAAWGTLSKNKSKQPQLMIRSYE  447 (519)
T ss_pred             ccchhhhhhHHHHHHHHhhhhhhhhccccCCcceeeeeecCCCCEEEEEEEeccccchhhhhhhccCCCCCchheeeecc
Confidence            9877666 47999999999999999999999999999998  789999999999999999999999875   89999999


Q ss_pred             eeeEEcCCcccCCCccccccCCCCccccCCCccchhcccceeeeeecCCCCCCCCCCcceeeccccCCCCCCCCCCCCCc
Q 006675          529 LGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPW  608 (636)
Q Consensus       529 lGVL~~P~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~pvPy~LP~~~Y~~~D~PW  608 (636)
                      +||||+|.++.+..++                        |++..+|..+..   ....+.|||||||||+||++.|+||
T Consensus       448 aGVLf~p~~~~~~kt~------------------------k~~~~tf~~~~~---~~~v~~vpvpydlPp~pY~~~d~~~  500 (519)
T KOG2031|consen  448 AGVLFLPRFFANLKTF------------------------KVVEDTFPRDNN---GDGVIAVPVPYDLPPVPYSPKDEPF  500 (519)
T ss_pred             cceEecchhhhccccc------------------------cccceecccccC---CCCcceeccccCCCCcCCCccCCce
Confidence            9999999976532122                        122223434332   2335789999999999999999999


Q ss_pred             eecCCCCCcccCCCCccc
Q 006675          609 SWDKRYTKKDVYGQVWPR  626 (636)
Q Consensus       609 ~~~~~y~~pD~~G~~w~~  626 (636)
                      ++++.+.++||+|.+|++
T Consensus       501 ~~~~~~~~~d~lG~vW~p  518 (519)
T KOG2031|consen  501 FTDIYRQGPDWLGCVWTP  518 (519)
T ss_pred             eecccccCCcceeeccCC
Confidence            999777789999999986

>PF06087 Tyr-DNA_phospho: Tyrosyl-DNA phosphodiesterase; InterPro: IPR010347 Covalent intermediates between topoisomerase I and DNA can become dead-end complexes that lead to cell death Back     alignment and domain information
>cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins Back     alignment and domain information
>TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase Back     alignment and domain information
>PF00498 FHA: FHA domain; InterPro: IPR000253 The forkhead-associated (FHA) domain [] is a phosphopeptide recognition domain found in many regulatory proteins Back     alignment and domain information
>PF13091 PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A 1BYR_A 1V0T_A 1V0U_A 1V0V_A 1V0S_A 1V0R_A 1V0W_A Back     alignment and domain information
>TIGR03354 VI_FHA type VI secretion system FHA domain protein Back     alignment and domain information
>PLN02927 antheraxanthin epoxidase/zeaxanthin epoxidase Back     alignment and domain information
>smart00240 FHA Forkhead associated domain Back     alignment and domain information
>PRK13912 nuclease NucT; Provisional Back     alignment and domain information
>smart00155 PLDc Phospholipase D Back     alignment and domain information
>COG1716 FOG: FHA domain [Signal transduction mechanisms] Back     alignment and domain information
>PF00614 PLDc: Phospholipase D Active site motif; InterPro: IPR001736 Phosphatidylcholine-hydrolysing phospholipase D (PLD) isoforms are activated by ADP-ribosylation factors (ARFs) Back     alignment and domain information
>COG1502 Cls Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthases and related enzymes [Lipid metabolism] Back     alignment and domain information
>smart00155 PLDc Phospholipase D 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 ?
Query636
1qzq_A483 Human Tyrosyl Dna Phosphodiesterase Length = 483 8e-70
1mu7_A485 Crystal Structure Of A Human Tyrosyl-dna Phosphodie 9e-69
1jy1_A464 Crystal Structure Of Human Tyrosyl-Dna Phosphodiest 9e-65
>pdb|1QZQ|A Chain A, Human Tyrosyl Dna Phosphodiesterase Length = 483 Back     alignment and structure 
Iteration: 1

 Score =  261 bits (667), Expect = 8e-70,   Method: Compositional matrix adjust.
 Identities = 178/483 (36%), Positives = 252/483 (52%), Gaps = 59/483 (12%)
Query: 161 PSTFRLLRVQGLPAWANTSCVSIRDVIQ---GDIIVAILSNYMVDIDWLLPACPVLAKIP 217
           P  F L RV G+    N+  + I+D++    G ++ +   NY  D+DWL+   P   +  
Sbjct: 38  PFQFYLTRVSGVKPKYNSGALHIKDILSPLFGTLVSSAQFNYCFDVDWLVKQYPPEFRKK 97
Query: 218 HVLVIHGESDGTLEHM-KRNKP-ANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTA 275
            +L++HG+      H+  + KP  N  L +  L I+FGTHH+K MLL+Y  G+R+++HT+
Sbjct: 98  PILLVHGDKREAKAHLHAQAKPYENISLCQAKLDIAFGTHHTKMMLLLYEEGLRVVIHTS 157
Query: 276 NLIHVDWNNKSQGLWMQD-FP-LKDQNNLSEE--CGFENDLIDYLSTLKWPEFSANLPAH 331
           NLIH DW+ K+QG+W+   +P + D  + S E    F+ DLI YL     P     +   
Sbjct: 158 NLIHADWHQKTQGIWLSPLYPRIADGTHKSGESPTHFKADLISYLMAYNAPSLKEWI--- 214
Query: 332 GXXXXXXXXXXXXXXXXAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKS- 390
                              V LI S PG   GS    WGH +L+ +L++        +S 
Sbjct: 215 -------DVIHKHDLSETNVYLIGSTPGRFQGSQKDNWGHFRLKKLLKDHASSMPNAESW 267
Query: 391 PLVYQFSSLGSL---DEKWM-AELXXXXXXXXXEDKTPLGIGEPL-IVWPTVEDVRCSLE 445
           P+V QFSS+GSL   + KW+ +E          E KTP     PL +++P+VE+VR SLE
Sbjct: 268 PVVGQFSSVGSLGADESKWLCSEFKESMLTLGKESKTPGKSSVPLYLIYPSVENVRTSLE 327
Query: 446 GYAAGNAIPSPQKNVDK-DFLKKYWAKWKASHTGRSRAMPHIKTFARY--NGQKLAWFLL 502
           GY AG ++P   +  +K ++L  Y+ KW A  +GRS AMPHIKT+ R   +  K+AWFL+
Sbjct: 328 GYPAGGSLPYSIQTAEKQNWLHSYFHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWFLV 387
Query: 503 TSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTET 562
           TSANLSKAAWGAL+KN +QLMIRSYELGVL LPSA      F   S  V  +  +GS E 
Sbjct: 388 TSANLSKAAWGALEKNGTQLMIRSYELGVLFLPSA------FGLDSFKVKQKFFAGSQEP 441
Query: 563 SQIQKTKLVTLTWHGSSDAGASSXXXXXXXXXXXXXQRYSSEDVPWSWDKRYTKK-DVYG 621
                  + T                          + Y S+D PW W+  Y K  D +G
Sbjct: 442 -------MATFP-----------------VPYDLPPELYGSKDRPWIWNIPYVKAPDTHG 477
Query: 622 QVW 624
            +W
Sbjct: 478 NMW 480
>pdb|1MU7|A Chain A, Crystal Structure Of A Human Tyrosyl-dna Phosphodiesterase (tdp1)- Tungstate Complex Length = 485 Back     alignment and structure
>pdb|1JY1|A Chain A, Crystal Structure Of Human Tyrosyl-Dna Phosphodiesterase (Tdp1) Length = 464 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 ?
Query636
1jy1_A464 TDP1, tyrosyl-DNA phosphodiesterase; PLD superfami 1e-138
3sq7_A470 Tyrosyl-DNA phosphodiesterase 1; DNA binding, nucl 2e-96
1q32_A544 TDP1P;, tyrosyl-DNA phosphodiesterase; DNA repair, 7e-93
3kt9_A102 Aprataxin; FHA domain, beta sandwich, beta sheet, 2e-15
1yj5_C143 5' polynucleotide kinase-3' phosphatase FHA domai; 4e-14
2brf_A110 Bifunctional polynucleotide phosphatase/kinase; hy 7e-14
1ujx_A119 Polynucleotide kinase 3'-phosphatase; DNA repair, 1e-13
3va4_A132 Mediator of DNA damage checkpoint protein 1; cell 7e-08
1r21_A128 Antigen KI-67; beta sandwich, cell cycle; NMR {Hom 2e-05
1g6g_A127 Protein kinase RAD53; beta-sandwich, phosphopeptid 4e-05
1mzk_A139 Kinase associated protein phosphatase; beta sandwi 5e-05
3oun_A157 Putative uncharacterized protein TB39.8; peptidogl 9e-05
1g3g_A164 Protien kinase SPK1; FHA domain, RAD53, phosphopep 2e-04
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 4e-04
1dmz_A158 Protein (protein kinase SPK1); beta-sandwich, anti 5e-04
>1jy1_A TDP1, tyrosyl-DNA phosphodiesterase; PLD superfamily, hydrolase; 1.69A {Homo sapiens} SCOP: d.136.1.3 d.136.1.3 PDB: 1rff_A* 1mu9_A 1nop_A 1mu7_A* 1rfi_A* 1rg1_A* 1rg2_A* 1rgt_A* 1rgu_A* 1rh0_A* 1qzq_A Length = 464 Back     alignment and structure
 Score =  411 bits (1058), Expect = e-138
 Identities = 178/501 (35%), Positives = 260/501 (51%), Gaps = 59/501 (11%)

Query: 144 KNSEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQ---GDIIVAILSNYM 200
           ++  E    + +     P  F L RV G+    N+  + I+D++    G ++ +   NY 
Sbjct: 2   EDPGEGQDIWDMLDKGNPFQFYLTRVSGVKPKYNSGALHIKDILSPLFGTLVSSAQFNYC 61

Query: 201 VDIDWLLPACPVLAKIPHVLVIHGESDGTLEHMKRNKPA--NWILHKPPLPISFGTHHSK 258
            D+DWL+   P   +   +L++HG+      H+        N  L +  L I+FGTHH+K
Sbjct: 62  FDVDWLVKQYPPEFRKKPILLVHGDKREAKAHLHAQAKPYENISLCQAKLDIAFGTHHTK 121

Query: 259 AMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEE----CGFENDLID 314
            MLL+Y  G+R+++HT+NLIH DW+ K+QG+W+     +  +   +       F+ +LI 
Sbjct: 122 MMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIADGTHKSGESPTHFKANLIS 181

Query: 315 YLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKL 374
           YL+    P     +              K + S   V LI S PG   GS    WGH +L
Sbjct: 182 YLTAYNAPSLKEWI----------DVIHKHDLSETNVYLIGSTPGRFQGSQKDNWGHFRL 231

Query: 375 RTVLQECTFEKGF-KKSPLVYQFSSLGSL---DEKWM-AELSSSMSSGFSEDKTPLGIGE 429
           + +L++        +  P+V QFSS+GSL   + KW+ +E   SM +   E KTP     
Sbjct: 232 KKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKWLCSEFKESMLTLGKESKTPGKSSV 291

Query: 430 PL-IVWPTVEDVRCSLEGYAAGNAIPSPQKNVDK-DFLKKYWAKWKASHTGRSRAMPHIK 487
           PL +++P+VE+VR SLEGY AG ++P   +  +K ++L  Y+ KW A  +GRS AMPHIK
Sbjct: 292 PLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQNWLHSYFHKWSAETSGRSNAMPHIK 351

Query: 488 TFARYNG--QKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFS 545
           T+ R +    K+AWFL+TSANLSKAAWGAL+KN +QLMIRSYELGVL LPSA        
Sbjct: 352 TYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNGTQLMIRSYELGVLFLPSAL------- 404

Query: 546 CTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSED 605
                                   L +        AG+   +   PVPY+LPP+ Y S+D
Sbjct: 405 -----------------------GLDSFKVKQKFFAGSQEPMATFPVPYDLPPELYGSKD 441

Query: 606 VPWSWDKRYTKK-DVYGQVWP 625
            PW W+  Y K  D +G +W 
Sbjct: 442 RPWIWNIPYVKAPDTHGNMWV 462
>3sq7_A Tyrosyl-DNA phosphodiesterase 1; DNA binding, nuclear, hydrolase; 2.00A {Saccharomyces cerevisiae} PDB: 3sq5_A 3sq8_A* 3sq3_A Length = 470 Back     alignment and structure
>1q32_A TDP1P;, tyrosyl-DNA phosphodiesterase; DNA repair, replication, transcription, hydrolase, replication,transcription, hydrolase; 2.03A {Saccharomyces cerevisiae} SCOP: d.136.1.3 d.136.1.3 Length = 544 Back     alignment and structure
>3kt9_A Aprataxin; FHA domain, beta sandwich, beta sheet, AMP hydrolase, alternative splicing, disease mutation, DNA damage, DNA repair, DNA-binding; 1.65A {Homo sapiens} Length = 102 Back     alignment and structure
>1yj5_C 5' polynucleotide kinase-3' phosphatase FHA domai; beta sandwich, P-loop, transferase; 2.80A {Mus musculus} SCOP: b.26.1.2 Length = 143 Back     alignment and structure
>2brf_A Bifunctional polynucleotide phosphatase/kinase; hydrolase/transferase, FHA, forkhead-associated, PNKP, PNK, polynucleotide kinase 3' phosphatase; 1.40A {Homo sapiens} SCOP: b.26.1.2 PDB: 2w3o_A* 1yjm_A* Length = 110 Back     alignment and structure
>1ujx_A Polynucleotide kinase 3'-phosphatase; DNA repair, FHA domain, beta-sandwich, antiparallel beta-sheets, phosphopeptide binding motif; NMR {Mus musculus} SCOP: b.26.1.2 Length = 119 Back     alignment and structure
>3va4_A Mediator of DNA damage checkpoint protein 1; cell cycle, FHA domain, DNA-damage, CHK2 and MDC1 dimerizati; HET: TPO; 1.54A {Mus musculus} PDB: 3va1_A* 3umz_A 3unm_A 3unn_A* 3uot_A* 3un0_B Length = 132 Back     alignment and structure
>1r21_A Antigen KI-67; beta sandwich, cell cycle; NMR {Homo sapiens} SCOP: b.26.1.2 PDB: 2aff_A* Length = 128 Back     alignment and structure
>1g6g_A Protein kinase RAD53; beta-sandwich, phosphopeptide complex, cell cycle; HET: TPO; 1.60A {Saccharomyces cerevisiae} SCOP: b.26.1.2 Length = 127 Back     alignment and structure
>3oun_A Putative uncharacterized protein TB39.8; peptidoglycan, Ser/Thr kinase, pseudokinase, FHA domain, REG phosphorylation; HET: TPO; 2.71A {Mycobacterium tuberculosis} Length = 157 Back     alignment and structure
>1g3g_A Protien kinase SPK1; FHA domain, RAD53, phosphopeptide, phosphoprotein, transferase; NMR {Saccharomyces cerevisiae} SCOP: b.26.1.2 PDB: 1j4o_A 1j4p_A* 1j4q_A* 1k3j_A 1k3n_A* 1k3q_A* 2a0t_A* 2jqi_A* Length = 164 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
>1dmz_A Protein (protein kinase SPK1); beta-sandwich, antiparallel beta-sheets, transferase; NMR {Saccharomyces cerevisiae} SCOP: b.26.1.2 PDB: 1fhq_A 1fhr_A* 1j4k_A* 1j4l_A* 1k2m_A* 1k2n_A* Length = 158 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query636
1jy1_A464 TDP1, tyrosyl-DNA phosphodiesterase; PLD superfami 100.0
1q32_A544 TDP1P;, tyrosyl-DNA phosphodiesterase; DNA repair, 100.0
3sq7_A470 Tyrosyl-DNA phosphodiesterase 1; DNA binding, nucl 100.0
2brf_A110 Bifunctional polynucleotide phosphatase/kinase; hy 99.6
1ujx_A119 Polynucleotide kinase 3'-phosphatase; DNA repair, 99.55
1yj5_C143 5' polynucleotide kinase-3' phosphatase FHA domai; 99.54
3kt9_A102 Aprataxin; FHA domain, beta sandwich, beta sheet, 99.36
1lgp_A116 Cell cycle checkpoint protein CHFR; FHA, tungstate 97.8
1g6g_A127 Protein kinase RAD53; beta-sandwich, phosphopeptid 97.13
1gxc_A149 CHK2, CDS1, serine/threonine-protein kinase CHK2; 96.99
3va4_A132 Mediator of DNA damage checkpoint protein 1; cell 96.83
2jqj_A151 DNA damage response protein kinase DUN1; protein/p 96.63
1wln_A120 Afadin; beta sandwich, FHA domain, structural geno 96.24
1dmz_A158 Protein (protein kinase SPK1); beta-sandwich, anti 96.23
3fm8_A124 Kinesin-like protein KIF13B; kinesin, GAP, GTPase 96.19
2jpe_A140 Nuclear inhibitor of protein phosphatase 1; FHA do 96.15
2pie_A138 E3 ubiquitin-protein ligase RNF8; FHA domain, comp 95.99
1uht_A118 Expressed protein; FHA domain, beta-sandwich, anti 95.95
2xt9_B115 Putative signal transduction protein GARA; lyase-s 95.9
3po8_A100 RV0020C protein, putative uncharacterized protein 95.71
2csw_A145 Ubiquitin ligase protein RNF8; 11-stranded beta sa 95.69
1r21_A128 Antigen KI-67; beta sandwich, cell cycle; NMR {Hom 95.66
1g3g_A164 Protien kinase SPK1; FHA domain, RAD53, phosphopep 95.52
2kb3_A143 Oxoglutarate dehydrogenase inhibitor; forkhead-ass 95.49
3oun_A157 Putative uncharacterized protein TB39.8; peptidogl 95.49
4ejq_A154 Kinesin-like protein KIF1A; homodimer, FHA domain, 95.4
1qu5_A182 Protein kinase SPK1; FHA, RAD53, transferase; NMR 95.36
3gqs_A106 Adenylate cyclase-like protein; FHA domain, struct 95.33
1mzk_A139 Kinase associated protein phosphatase; beta sandwi 94.87
2kfu_A162 RV1827 PThr 22; FHA domain, phosphorylation, intra 94.86
3hx1_A131 SLR1951 protein; P74513_SYNY3, adenylate cyclase-l 94.81
3els_A158 PRE-mRNA leakage protein 1; intrinsically unstruct 93.39
2ff4_A388 Probable regulatory protein EMBR; winged-helix, te 93.03
3i6u_A419 CDS1, serine/threonine-protein kinase CHK2; Ser/Th 92.84
4h87_A130 Kanadaptin; FHA domain of PF00498, mRNA processing 92.47
4egx_A184 Kinesin-like protein KIF1A; FHA domain, transport 90.61
3elv_A205 PRE-mRNA leakage protein 1; intrinsically unstruct 90.47
1byr_A155 Protein (endonuclease); phosphodiesterase,; 2.00A 85.02
4ggj_A196 Mitochondrial cardiolipin hydrolase; piRNA pathway 82.0
>1jy1_A TDP1, tyrosyl-DNA phosphodiesterase; PLD superfamily, hydrolase; 1.69A {Homo sapiens} SCOP: d.136.1.3 d.136.1.3 PDB: 1rff_A* 1mu9_A 1nop_A 1mu7_A* 1rfi_A* 1rg1_A* 1rg2_A* 1rgt_A* 1rgu_A* 1rh0_A* 1qzq_A Back     alignment and structure
Probab=100.00  E-value=1.3e-112  Score=937.24  Aligned_cols=441  Identities=40%  Similarity=0.746  Sum_probs=369.6

Q ss_pred             CccccccccccCCCCCCCceEEEEecCCCCCCCCCceeecccccc---cHHHhhhhhcccCHHhhhccCCC-CCCCCeEE
Q 006675          145 NSEEALCNFHVSRDKLPSTFRLLRVQGLPAWANTSCVSIRDVIQG---DIIVAILSNYMVDIDWLLPACPV-LAKIPHVL  220 (636)
Q Consensus       145 ~~~~~~~~~~~~~~~~~~~FrLtrv~g~~~~~N~~~Itl~DIL~g---dl~~ail~nF~~Dl~WLl~~~p~-~~~~~~i~  220 (636)
                      ..+|.+++|+......|.+|+||+|.|++..+|.++|||+|||+.   +|++|++||||+|++|||++|+. .+++| |+
T Consensus         3 ~~~~~~~~~~~~~~~~p~~~~l~~i~~~~~~~n~~~itl~diL~~~~g~l~~a~~~nf~~D~~WLl~~~~~~~~~~~-v~   81 (464)
T 1jy1_A            3 DPGEGQDIWDMLDKGNPFQFYLTRVSGVKPKYNSGALHIKDILSPLFGTLVSSAQFNYCFDVDWLVKQYPPEFRKKP-IL   81 (464)
T ss_dssp             CTTTTCCGGGTSCTTCSSCEEEBCCTTSCGGGGTTCBCHHHHTSGGGCCEEEEEEECSCBCHHHHHHHSCGGGTTSC-EE
T ss_pred             CcccccchhhhhcccCCceEEEEeecCCCcccCCCceeHHHHhCCccccHHHHHhHHhHHhHHHHHhhCcccccCCc-EE
Confidence            456778999988888889999999999998899999999999974   68899999999999999999984 46665 88


Q ss_pred             EEeCCCCchhhhh--hhcCCCceEEecCCCCCCCCCccceeEEEEeCCccEEEEeCCCCCccccccccceEEeec-ccCC
Q 006675          221 VIHGESDGTLEHM--KRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQD-FPLK  297 (636)
Q Consensus       221 Vv~ge~~~~~~~~--~~~~p~n~~l~~p~mp~~fGtHHSKmmLL~y~dglRVVI~TANLi~~DW~~~tQ~vW~qD-fP~~  297 (636)
                      ||||++++....+  .....+|+++|+|+||++|||||||||||+|++|||||||||||+++||+++||+||+|| ||++
T Consensus        82 iv~g~~~~~~~~l~~~~~~~~nv~~~~p~mp~~fGthHsKmmiL~y~~glRVVI~TANL~~~DW~~~tQ~vW~sd~lP~~  161 (464)
T 1jy1_A           82 LVHGDKREAKAHLHAQAKPYENISLCQAKLDIAFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRI  161 (464)
T ss_dssp             EEECCCHHHHHHHHHHHTTCTTEEEEECCCCSTTCCBCCCEEEEEESSCEEEEEECCCBSGGGGTSSBCEEEECCCBCBC
T ss_pred             EEeCCCcccchhhHHhhccCCCeEEEeCCCCCcccccchhhheeecCCceEEEEeCCCCChhHhccccceEEecccCcCC
Confidence            8899865432222  223567999999999999999999999999999999999999999999999999999999 7987


Q ss_pred             CCCC---CCCCCCcHHHHHHHHHhcCCCcccccCCCCCCccccccccccccccccceEEEEccCCCCCCCccccccHHHH
Q 006675          298 DQNN---LSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKL  374 (636)
Q Consensus       298 ~~~s---~~~~t~Fk~DLi~YL~ay~~~~~~~~~p~lg~~~I~~~~L~~yDFS~a~v~LVaSVPG~H~g~~~~~~G~~~L  374 (636)
                      +..+   .+++++|++||++||++|+.+....          ++++|++||||.++|+||+||||+|.|.+..+|||++|
T Consensus       162 ~~~~~~~~~~~~~Fk~dL~~yL~ay~~~~~~~----------~i~~L~~~DFS~~~v~LVaSvPG~h~~~~~~~~G~~~L  231 (464)
T 1jy1_A          162 ADGTHKSGESPTHFKANLISYLTAYNAPSLKE----------WIDVIHKHDLSETNVYLIGSTPGRFQGSQKDNWGHFRL  231 (464)
T ss_dssp             CTTCCCCCCCTTCHHHHHHHHHHTTCCGGGHH----------HHHHHHTBCCTTCCSEEEEECSEEEEGGGGGGSHHHHH
T ss_pred             CccccccCCCCCchHHHHHHHHHHhCCchhHH----------HHHHHHhcCCcccCcEEEEeCCcCCcCCcchhhhHHHH
Confidence            5433   3678999999999999998764321          25889999999999999999999999999999999999


Q ss_pred             HHHHhhccccC-CCcccCeEEEecCCCcCC---hHHH-HHHHhcccCCCCCCCCC-CCCCCceEEccCchhhhcCccccc
Q 006675          375 RTVLQECTFEK-GFKKSPLVYQFSSLGSLD---EKWM-AELSSSMSSGFSEDKTP-LGIGEPLIVWPTVEDVRCSLEGYA  448 (636)
Q Consensus       375 ~~~L~~~~~~~-~~~~~~i~~Q~SSIGsl~---~~wL-~~f~~sl~~g~~~~~~~-~~~~~~~IIfPT~e~Vr~S~~G~~  448 (636)
                      +++|+++.... ..+.++|+||+||||+++   .+|| ++|..+|.+...+.+.+ ...++++|||||+||||+|.+||.
T Consensus       232 ~~~L~~~~~~~~~~~~~~i~~Q~SSIGslg~~~~~Wl~~~f~~sl~~~~~~~~~~~~~~~~~~iifPT~e~Vr~S~~G~~  311 (464)
T 1jy1_A          232 KKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKWLCSEFKESMLTLGKESKTPGKSSVPLYLIYPSVENVRTSLEGYP  311 (464)
T ss_dssp             HHHHHHHC-----CCSCCEEEECSCBCCCCSSTTTTTTTTHHHHHTCCC---------CCCEEEECCBHHHHHTSSSCGG
T ss_pred             HHHHHHhccCCCccCCCcEEEEeecccccCcchhHHHHHHHHHHhhhhcccccccccCCCceEEEcCCHHHHHhcccccC
Confidence            99999987643 225789999999999997   5899 68999987753222111 234679999999999999999999


Q ss_pred             CCccccCCCccch-hHhHHHHHhhhcCCCCCCCCCCCcceeEEeecC--CceeEEEEeccccchhhhhccccCCceeeee
Q 006675          449 AGNAIPSPQKNVD-KDFLKKYWAKWKASHTGRSRAMPHIKTFARYNG--QKLAWFLLTSANLSKAAWGALQKNNSQLMIR  525 (636)
Q Consensus       449 ~Ggsi~~~~~~~~-~~~l~~~~~kw~~~~s~R~~a~PHiKty~r~~~--~~i~W~lltSaNLSkaAWG~l~k~~sql~Ir  525 (636)
                      +|||||++.++++ +.|+++|||+|+++.++|+++|||||+|+|++.  ..++|+||||||||+||||+++++++||+||
T Consensus       312 ~ggsi~~~~~~~~~~~~l~~~l~~w~~~~~~R~~a~pHiKty~r~~~~~~~~~W~lltSaNLSkaAWG~~~k~~~~l~I~  391 (464)
T 1jy1_A          312 AGGSLPYSIQTAEKQNWLHSYFHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNGTQLMIR  391 (464)
T ss_dssp             GGGGSCCCHHHHTTCGGGGGGEECCCCGGGTCTTSCBCCEEEEEECTTSSEEEEEEEESCCBSHHHHCEEETTTTEEEEC
T ss_pred             CcceeeccchhhhhhhhhHHHHHHhccCccCCCCcCCceeeEEecCCCCCeecEEEEccccCCHHHhCccccCCCceeEe
Confidence            9999999866554 469999999999999999999999999999985  4799999999999999999999999999999


Q ss_pred             eeeeeeEEcCCcccCCCccccccCCCCccccCCCccchhcccceeeeeecCCCCCCCCCCcceeeccccCCCCCCCCCCC
Q 006675          526 SYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSED  605 (636)
Q Consensus       526 NyElGVL~~P~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~pvPy~LP~~~Y~~~D  605 (636)
                      ||||||||+|..+.+. .|++..                    +.++    .     .....+.|||||++|++||+++|
T Consensus       392 nyElGVl~~P~~~~~~-~~~~~~--------------------~~~~----~-----~~~~~~~~~vPy~lP~~~Y~~~D  441 (464)
T 1jy1_A          392 SYELGVLFLPSALGLD-SFKVKQ--------------------KFFA----G-----SQEPMATFPVPYDLPPELYGSKD  441 (464)
T ss_dssp             SBEEEEEECGGGGTCS-CEEEC----------------------------------------CEECCSSCSSCCBCCTTC
T ss_pred             eeeeeEEEeccccccc-ccccCc--------------------cccc----c-----ccCcccceeecCCCCCcCCCCCC
Confidence            9999999999875432 122110                    0000    0     01224689999999999999999


Q ss_pred             CCceecCCCCCc-ccCCCCccc
Q 006675          606 VPWSWDKRYTKK-DVYGQVWPR  626 (636)
Q Consensus       606 ~PW~~~~~y~~p-D~~G~~w~~  626 (636)
                      +||+++++|.+| |++|++|++
T Consensus       442 ~Pw~~~~~~~~~~D~~G~~w~p  463 (464)
T 1jy1_A          442 RPWIWNIPYVKAPDTHGNMWVP  463 (464)
T ss_dssp             CBCCTTSCBCSSCCTTSCCBCC
T ss_pred             CCeeCCCCCCCcccCCcCcCCC
Confidence            999999999997 999999986
>1q32_A TDP1P;, tyrosyl-DNA phosphodiesterase; DNA repair, replication, transcription, hydrolase, replication,transcription, hydrolase; 2.03A {Saccharomyces cerevisiae} SCOP: d.136.1.3 d.136.1.3 Back     alignment and structure
>3sq7_A Tyrosyl-DNA phosphodiesterase 1; DNA binding, nuclear, hydrolase; 2.00A {Saccharomyces cerevisiae} PDB: 3sq5_A 3sq8_A* 3sq3_A Back     alignment and structure
>2brf_A Bifunctional polynucleotide phosphatase/kinase; hydrolase/transferase, FHA, forkhead-associated, PNKP, PNK, polynucleotide kinase 3' phosphatase; 1.40A {Homo sapiens} SCOP: b.26.1.2 PDB: 2w3o_A* 1yjm_A* Back     alignment and structure
>1ujx_A Polynucleotide kinase 3'-phosphatase; DNA repair, FHA domain, beta-sandwich, antiparallel beta-sheets, phosphopeptide binding motif; NMR {Mus musculus} SCOP: b.26.1.2 Back     alignment and structure
>1yj5_C 5' polynucleotide kinase-3' phosphatase FHA domai; beta sandwich, P-loop, transferase; 2.80A {Mus musculus} SCOP: b.26.1.2 Back     alignment and structure
>3kt9_A Aprataxin; FHA domain, beta sandwich, beta sheet, AMP hydrolase, alternative splicing, disease mutation, DNA damage, DNA repair, DNA-binding; 1.65A {Homo sapiens} SCOP: b.26.1.0 Back     alignment and structure
>1lgp_A Cell cycle checkpoint protein CHFR; FHA, tungstate, domain swapping; 2.00A {Homo sapiens} SCOP: b.26.1.2 PDB: 1lgq_A Back     alignment and structure
>1g6g_A Protein kinase RAD53; beta-sandwich, phosphopeptide complex, cell cycle; HET: TPO; 1.60A {Saccharomyces cerevisiae} SCOP: b.26.1.2 Back     alignment and structure
>1gxc_A CHK2, CDS1, serine/threonine-protein kinase CHK2; phosphoprotein-binding domain, checkpoint kinase, transferase; HET: TPO; 2.7A {Homo sapiens} SCOP: b.26.1.2 Back     alignment and structure
>3va4_A Mediator of DNA damage checkpoint protein 1; cell cycle, FHA domain, DNA-damage, CHK2 and MDC1 dimerizati; HET: TPO; 1.54A {Mus musculus} PDB: 3va1_A* 3umz_A 3unm_A 3unn_A* 3uot_A* 3un0_B Back     alignment and structure
>2jqj_A DNA damage response protein kinase DUN1; protein/phosphopeptide, cell cycle; HET: DNA; NMR {Saccharomyces cerevisiae} PDB: 2jql_A* Back     alignment and structure
>1wln_A Afadin; beta sandwich, FHA domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: b.26.1.2 Back     alignment and structure
>1dmz_A Protein (protein kinase SPK1); beta-sandwich, antiparallel beta-sheets, transferase; NMR {Saccharomyces cerevisiae} SCOP: b.26.1.2 PDB: 1fhq_A 1fhr_A* 1j4k_A* 1j4l_A* 1k2m_A* 1k2n_A* Back     alignment and structure
>3fm8_A Kinesin-like protein KIF13B; kinesin, GAP, GTPase activation, structural genomics consort ATP-binding, cytoskeleton, microtubule, motor protein, NUCL binding; 2.30A {Homo sapiens} PDB: 3mdb_A* Back     alignment and structure
>2jpe_A Nuclear inhibitor of protein phosphatase 1; FHA domain, NIPP1, mRNA splicing, transcription; NMR {Mus musculus} Back     alignment and structure
>2pie_A E3 ubiquitin-protein ligase RNF8; FHA domain, complex, ligase, signaling protein; HET: TPO; 1.35A {Homo sapiens} SCOP: b.26.1.2 Back     alignment and structure
>1uht_A Expressed protein; FHA domain, beta-sandwich, antiparallel beta-sheets, phosphopeptide binding motif, structural genomics; NMR {Arabidopsis thaliana} SCOP: b.26.1.2 Back     alignment and structure
>2xt9_B Putative signal transduction protein GARA; lyase-signaling protein complex, KDH, KGD; HET: TPP; 2.20A {Mycobacterium smegmatis} Back     alignment and structure
>3po8_A RV0020C protein, putative uncharacterized protein TB39.8; FHA domain, synthetic peptide, peptide binding protein; 1.50A {Mycobacterium tuberculosis} SCOP: b.26.1.0 PDB: 3poa_A* 2lc1_A Back     alignment and structure
>2csw_A Ubiquitin ligase protein RNF8; 11-stranded beta sandwich, ring finger protein 8, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: b.26.1.2 Back     alignment and structure
>1r21_A Antigen KI-67; beta sandwich, cell cycle; NMR {Homo sapiens} SCOP: b.26.1.2 PDB: 2aff_A* Back     alignment and structure
>1g3g_A Protien kinase SPK1; FHA domain, RAD53, phosphopeptide, phosphoprotein, transferase; NMR {Saccharomyces cerevisiae} SCOP: b.26.1.2 PDB: 1j4o_A 1j4p_A* 1j4q_A* 1k3j_A 1k3n_A* 1k3q_A* 2a0t_A* 2jqi_A* Back     alignment and structure
>2kb3_A Oxoglutarate dehydrogenase inhibitor; forkhead-associated domain, kinase substrate, GARA, FHA, cytoplasm, phosphoprotein; HET: TPO; NMR {Corynebacterium glutamicum} PDB: 2kb4_A Back     alignment and structure
>3oun_A Putative uncharacterized protein TB39.8; peptidoglycan, Ser/Thr kinase, pseudokinase, FHA domain, REG phosphorylation; HET: TPO; 2.71A {Mycobacterium tuberculosis} Back     alignment and structure
>4ejq_A Kinesin-like protein KIF1A; homodimer, FHA domain, transport protein; 1.89A {Homo sapiens} PDB: 2eh0_A 2g1l_A Back     alignment and structure
>1qu5_A Protein kinase SPK1; FHA, RAD53, transferase; NMR {Saccharomyces cerevisiae} SCOP: b.26.1.2 Back     alignment and structure
>3gqs_A Adenylate cyclase-like protein; FHA domain, structural genomics, PSI-2, protein structure in midwest center for structural genomics, MCSG; 2.20A {Chlamydia trachomatis} Back     alignment and structure
>2kfu_A RV1827 PThr 22; FHA domain, phosphorylation, intramolecular interaction, glutamate metabolism, phosphoprotein, protein binding; HET: TPO; NMR {Mycobacterium tuberculosis} PDB: 2kkl_A Back     alignment and structure
>3hx1_A SLR1951 protein; P74513_SYNY3, adenylate cyclase-like protein, NESG, structural genomics, PSI-2, protein structure initiative; 2.50A {Synechocystis SP} Back     alignment and structure
>3els_A PRE-mRNA leakage protein 1; intrinsically unstructured domain, forkhead-associated domai domain, PRE-mRNA retention and splicing; 1.80A {Saccharomyces cerevisiae} Back     alignment and structure
>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A* Back     alignment and structure
>3i6u_A CDS1, serine/threonine-protein kinase CHK2; Ser/Thr protein kinase, FHA domain, ATP-binding, cell cycle, mutation, LI-fraumeni syndrome, magnesium; 3.00A {Homo sapiens} PDB: 3i6w_A Back     alignment and structure
>4h87_A Kanadaptin; FHA domain of PF00498, mRNA processing, nucleus, structural joint center for structural genomics, JCSG, protein structu initiative; HET: SO4; 1.55A {Homo sapiens} Back     alignment and structure
>4egx_A Kinesin-like protein KIF1A; FHA domain, transport protein; 2.51A {Homo sapiens} Back     alignment and structure
>3elv_A PRE-mRNA leakage protein 1; intrinsically unstructured domain, forkhead-associated domai domain, PRE-mRNA retention and splicing; 2.40A {Saccharomyces cerevisiae} PDB: 2jkd_A Back     alignment and structure
>1byr_A Protein (endonuclease); phosphodiesterase,; 2.00A {Salmonella typhimurium} SCOP: d.136.1.1 PDB: 1bys_A Back     alignment and structure
>4ggj_A Mitochondrial cardiolipin hydrolase; piRNA pathway, protein-RNA interactions, piRNA RNAI, HKD MOT zinc finger, nuclease, nucleic acid binding; 1.75A {Mus musculus} PDB: 4ggk_A 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 636
d1jy1a2258 d.136.1.3 (A:351-608) Tyrosyl-DNA phosphodiesteras 3e-87
d1q32a1215 d.136.1.3 (A:79-293) Tyrosyl-DNA phosphodiesterase 3e-59
d1jy1a1206 d.136.1.3 (A:145-350) Tyrosyl-DNA phosphodiesteras 2e-53
d1q32a2237 d.136.1.3 (A:302-538) Tyrosyl-DNA phosphodiesteras 3e-41
d2brfa1101 b.26.1.2 (A:8-108) Polynucleotide kinase 3'-phosph 0.001
d2ff4a399 b.26.1.2 (A:284-382) Probable regulatory protein E 0.003
>d1jy1a2 d.136.1.3 (A:351-608) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 258 Back     information, alignment and structure

class: Alpha and beta proteins (a+b)
fold: Phospholipase D/nuclease
superfamily: Phospholipase D/nuclease
family: Tyrosyl-DNA phosphodiesterase TDP1
domain: Tyrosyl-DNA phosphodiesterase TDP1
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  270 bits (692), Expect = 3e-87
 Identities = 120/285 (42%), Positives = 160/285 (56%), Gaps = 40/285 (14%)

Query: 351 VRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGF-KKSPLVYQFSSLGSL---DEKW 406
           V LI S PG   GS    WGH +L+ +L++        +  P+V QFSS+GSL   + KW
Sbjct: 2   VYLIGSTPGRFQGSQKDNWGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKW 61

Query: 407 M-AELSSSMSSGFSEDKTPLGIGEPL-IVWPTVEDVRCSLEGYAAGNAIPSPQKNVDK-D 463
           + +E   SM +   E KTP     PL +++P+VE+VR SLEGY AG ++P   +  +K +
Sbjct: 62  LCSEFKESMLTLGKESKTPGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQN 121

Query: 464 FLKKYWAKWKASHTGRSRAMPHIKTFARYN--GQKLAWFLLTSANLSKAAWGALQKNNSQ 521
           +L  Y+ KW A  +GRS AMPHIKT+ R +    K+AWFL+TSANLSKAAWGAL+KN +Q
Sbjct: 122 WLHSYFHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNGTQ 181

Query: 522 LMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDA 581
           LMIRSYELGVL LPSA                                L +        A
Sbjct: 182 LMIRSYELGVLFLPSA------------------------------LGLDSFKVKQKFFA 211

Query: 582 GASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTK-KDVYGQVWP 625
           G+   +   PVPY+LPP+ Y S+D PW W+  Y K  D +G +W 
Sbjct: 212 GSQEPMATFPVPYDLPPELYGSKDRPWIWNIPYVKAPDTHGNMWV 256
>d1q32a1 d.136.1.3 (A:79-293) Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 215 Back     information, alignment and structure
>d1jy1a1 d.136.1.3 (A:145-350) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 206 Back     information, alignment and structure
>d1q32a2 d.136.1.3 (A:302-538) Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 237 Back     information, alignment and structure
>d2brfa1 b.26.1.2 (A:8-108) Polynucleotide kinase 3'-phosphatase {Human (Homo sapiens) [TaxId: 9606]} Length = 101 Back     information, alignment and structure
>d2ff4a3 b.26.1.2 (A:284-382) Probable regulatory protein EmbR, C-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]} Length = 99 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 ?
Query636
d1jy1a2258 Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sa 100.0
d1q32a1215 Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast 100.0
d1jy1a1206 Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sa 100.0
d1q32a2237 Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast 100.0
d2brfa1101 Polynucleotide kinase 3'-phosphatase {Human (Homo 98.29
d1gxca_116 Chk2 kinase {Human (Homo sapiens) [TaxId: 9606]} 97.42
d2affa198 Antigen ki-67 {Human (Homo sapiens) [TaxId: 9606]} 96.9
d1lgpa_113 Cell cycle checkpoint protein Chfr {Human (Homo sa 96.9
d2ff4a399 Probable regulatory protein EmbR, C-terminal domai 96.9
d1wlna1107 Afadin {Mouse (Mus musculus) [TaxId: 10090]} 96.53
d2piea1127 Ubiquitin ligase protein RNF8 {Human (Homo sapiens 96.36
d1uhta_118 FHA domain containing protein At4G14490 {Thale cre 95.88
d1g6ga_127 Phosphotyrosine binding domain of Rad53 {Baker's y 95.43
d1dmza_158 Phosphotyrosine binding domain of Rad53 {Baker's y 94.78
d1mzka_122 Kinase associated protein phosphatase {Thale cress 94.16
d2g1la1102 Kinesin-like protein kif1c {Human (Homo sapiens) [ 93.2
d1byra_152 Nuclease Nuc {Salmonella typhimurium [TaxId: 90371 91.53
d1v0wa2246 Phospholipase D {Streptomyces sp. [TaxId: 1931]} 83.07
>d1jy1a2 d.136.1.3 (A:351-608) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
class: Alpha and beta proteins (a+b)
fold: Phospholipase D/nuclease
superfamily: Phospholipase D/nuclease
family: Tyrosyl-DNA phosphodiesterase TDP1
domain: Tyrosyl-DNA phosphodiesterase TDP1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.2e-69  Score=550.64  Aligned_cols=247  Identities=48%  Similarity=0.840  Sum_probs=201.9

Q ss_pred             ceEEEEccCCCCCCCccccccHHHHHHHHhhccccC-CCcccCeEEEecCCCcCC---hHHH-HHHHhcccCCCCCCCCC
Q 006675          350 AVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEK-GFKKSPLVYQFSSLGSLD---EKWM-AELSSSMSSGFSEDKTP  424 (636)
Q Consensus       350 ~v~LVaSVPG~H~g~~~~~~G~~~L~~~L~~~~~~~-~~~~~~i~~Q~SSIGsl~---~~wL-~~f~~sl~~g~~~~~~~  424 (636)
                      +|+||+||||+|.|.++.+|||++|+++|+++++.. ..++.+|+||+||||||+   .+|| .+|..+|.....+..++
T Consensus         1 nV~lV~SvPG~h~g~~~~~~G~~~L~~~l~~~~~~~~~~~~~~iv~Q~SSiGSlg~~~~~wl~~~~~~sl~~~~~~~~~~   80 (258)
T d1jy1a2           1 NVYLIGSTPGRFQGSQKDNWGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKWLCSEFKESMLTLGKESKTP   80 (258)
T ss_dssp             CSEEEEECSEEEEGGGGGGSHHHHHHHHHHHHC-----CCSCCEEEECSCBCCCCSSTTTTTTTTHHHHHTCCC------
T ss_pred             CeEEEEeCCccccCCccccccHHHHHHHHHHcCCCCCcCcCCCEEEEeCCcccCCcCHHHHHHHHHHHhhhcccccccCc
Confidence            589999999999999999999999999999987643 345789999999999997   4799 68988887654443322


Q ss_pred             -CCCCCceEEccCchhhhcCcccccCCccccCCCccchh-HhHHHHHhhhcCCCCCCCCCCCcceeEEeecC--CceeEE
Q 006675          425 -LGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDK-DFLKKYWAKWKASHTGRSRAMPHIKTFARYNG--QKLAWF  500 (636)
Q Consensus       425 -~~~~~~~IIfPT~e~Vr~S~~G~~~Ggsi~~~~~~~~~-~~l~~~~~kw~~~~s~R~~a~PHiKty~r~~~--~~i~W~  500 (636)
                       ....+++|||||+||||+|.+||.+|||||++.+++++ .|++++||+|.++.+||+++|||||||+|+++  +.++||
T Consensus        81 ~~~~~~~~iifPT~~~Vr~S~~G~~~ggsi~~~~~~~~~~~~l~~~l~~w~~~~~gR~~a~PHiKty~r~~~d~~~i~W~  160 (258)
T d1jy1a2          81 GKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQNWLHSYFHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWF  160 (258)
T ss_dssp             ---CCCEEEECCBHHHHHTSSSCGGGGGGSCCCHHHHTTCGGGGGGEECCCCGGGTCTTSCBCCEEEEEECTTSSEEEEE
T ss_pred             ccCCCCeEEEcCCHHHHhccccCcCCcceeecCchhhhhhhhHHHHHHhcCCCcCCCCCCCCeeEEEEEECCCCCeeeEE
Confidence             23457899999999999999999999999999777764 69999999999999999999999999999986  579999


Q ss_pred             EEeccccchhhhhccccCCceeeeeeeeeeeEEcCCcccCCCccccccCCCCccccCCCccchhcccceeeeeecCCCCC
Q 006675          501 LLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSD  580 (636)
Q Consensus       501 lltSaNLSkaAWG~l~k~~sql~IrNyElGVL~~P~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~  580 (636)
                      ||||||||+||||+++++++||+||||||||||+|..+... .|.....                             ..
T Consensus       161 lltSaNLSkaAWG~~~~~~~~l~I~nyElGVL~~p~~~~~~-~~~~~~~-----------------------------~~  210 (258)
T d1jy1a2         161 LVTSANLSKAAWGALEKNGTQLMIRSYELGVLFLPSALGLD-SFKVKQK-----------------------------FF  210 (258)
T ss_dssp             EEESCCBSHHHHCEEETTTTEEEECSBEEEEEECGGGGTCS-CEEEC---------------------------------
T ss_pred             EEccccCCHHHhCcccCCCCeEEeecceeEEEEcccccCCC-ccccccc-----------------------------cc
Confidence            99999999999999999999999999999999999864322 2221100                             00


Q ss_pred             CCCCCcceeeccccCCCCCCCCCCCCCceecCCCCC-cccCCCCccc
Q 006675          581 AGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTK-KDVYGQVWPR  626 (636)
Q Consensus       581 ~~~~~~~~~~pvPy~LP~~~Y~~~D~PW~~~~~y~~-pD~~G~~w~~  626 (636)
                      ....+..+.|||||+||++||+++|+|||+|++|.+ ||++|++|++
T Consensus       211 ~~~~~~~~~~~vPy~lP~~~Y~~~D~PW~~~~~~~e~pD~~G~~w~p  257 (258)
T d1jy1a2         211 AGSQEPMATFPVPYDLPPELYGSKDRPWIWNIPYVKAPDTHGNMWVP  257 (258)
T ss_dssp             -------CEECCSSCSSCCBCCTTCCBCCTTSCBCSSCCTTSCCBCC
T ss_pred             cCccCcCCcceecCCCCCcCCCCCCcCeeccCCcccCCCCCCCcCCC
Confidence            001123468999999999999999999999999976 9999999986
>d1q32a1 d.136.1.3 (A:79-293) Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1jy1a1 d.136.1.3 (A:145-350) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1q32a2 d.136.1.3 (A:302-538) Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d2brfa1 b.26.1.2 (A:8-108) Polynucleotide kinase 3'-phosphatase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1gxca_ b.26.1.2 (A:) Chk2 kinase {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2affa1 b.26.1.2 (A:3-100) Antigen ki-67 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1lgpa_ b.26.1.2 (A:) Cell cycle checkpoint protein Chfr {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d2ff4a3 b.26.1.2 (A:284-382) Probable regulatory protein EmbR, C-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]} Back     information, alignment and structure
>d1wlna1 b.26.1.2 (A:8-114) Afadin {Mouse (Mus musculus) [TaxId: 10090]} Back     information, alignment and structure
>d2piea1 b.26.1.2 (A:13-139) Ubiquitin ligase protein RNF8 {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1uhta_ b.26.1.2 (A:) FHA domain containing protein At4G14490 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d1g6ga_ b.26.1.2 (A:) Phosphotyrosine binding domain of Rad53 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1dmza_ b.26.1.2 (A:) Phosphotyrosine binding domain of Rad53 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Back     information, alignment and structure
>d1mzka_ b.26.1.2 (A:) Kinase associated protein phosphatase {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Back     information, alignment and structure
>d2g1la1 b.26.1.2 (A:498-599) Kinesin-like protein kif1c {Human (Homo sapiens) [TaxId: 9606]} Back     information, alignment and structure
>d1byra_ d.136.1.1 (A:) Nuclease Nuc {Salmonella typhimurium [TaxId: 90371]} Back     information, alignment and structure
>d1v0wa2 d.136.1.2 (A:264-514) Phospholipase D {Streptomyces sp. [TaxId: 1931]} Back     information, alignment and structure