Citrus Sinensis ID: 014528

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---

MGILLLLFYQTTWWTLIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAFQDS

cccEEEEEEccccHHHHHHcHHcccccEEEEccccccccccccccEEEEEEcccEEEEEEcccccccccccccccEEEEccccccccccccccccHHHHHHHHHHcccccccccccccccccccccccccccccccccEEEEEcccccccccccHHHHHHHHHHHHHcccccccccccEEEEEcccccccHHHHHHHHHHHccccccccccccccccEEEccccHHHHcccccccccccccccccccHHHHHHHHHHHHccccccccccccccEEEEEcccccccEEEEEcccccHHHHccccccccEEEEEEEEEEEEEccccccccccccccccccccccccccccHHHHHHccEEEccccccccccccccEEEccccccccccccccccccEEEcccccccccccccccccccccccccc

ccEEEEEEEccccHHHHHHHHHcccccEEEEEccccccccccccEEEEEEcccccEEEEEcccccHHHHcccccEEEEccccccccccccccccHHHHHHHHHHHcccccHHHHHccccccccHHHHHHHccccccEEEEEEcccccccccccccccHHHHHHHHHHcccccccccccEEEEEEcHccccHHHHHHHHHHHHcccccccccccccccEEEEccHHHHHHccccccccccccccccHHHHHHHHHHHHHccccccccccccccEEEEEccccccccEEEEEcHHHcHHHHHHHcccccEEEEEEEEEEEEEccHHccccccccccccccccccccccccccccccccEEEEcccccccccccccEEEccccccccccccccccccEEEEccccccccccccccccEEEEEcccc

MGILLLLFYQTTWWTLigccqrnkpanwilhkpplpisfgthhsKAMLLIYPRGVRIIVHTANLIHvdwnnksqglwmqdfplkdqnnlseecgfeNDLIDYLstlkwpefsanlpahgnfkinpsffkkfnfSSAAVRLIAsvpgyhtgsslkkwgHMKLRTVLQEctfekgfkksplvyqfsslgslDEKWMAELSSsmssgfsedktplgigeplivwptvedvrcslegyaagnaipspqknvdKDFLKKYWAKWKAshtgrsramphiKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLilpsakrhgcgfsctsnivpseiksgstetSQIQKTKLVTltwhgssdagassevvylpvpyelppqryssedvpwswdkrytkkdvygqvwprhfqlyafqds

MGILLLLFYQTTWWTLIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGIGEPLIVWPTVEDVRCSLEGyaagnaipspqknvDKDFLKKYWAKWKashtgrsrampHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVpseiksgstetSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELppqryssedvpwswdkrytkkDVYGQVWPRHFQLYAFQDS

MGILLLLFYQTTWWTLIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGnfkinpsffkkfnfssAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELsssmssgfsEDKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSevvylpvpyelppQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAFQDS

**ILLLLFYQTTWWTLIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKW******************LGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVP***************TKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAF***

*GILLLLFYQTTWWTLIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLW*********************LIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECT**KGFKKSPLVYQFSSLGSLDEKWMAELSS****************EPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGF*****************************************EVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLY*****

MGILLLLFYQTTWWTLIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAEL**********DKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEI**********QKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAFQDS

MGILLLLFYQTTWWTLIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDFPLKD*****EECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWKASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCT********************TKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAF***

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SSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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
Query		423	2.2.26 [Sep-21-2011]
Q9NUW8		608	Tyrosyl-DNA phosphodieste	yes	no	0.815	0.567	0.416	4e-68
Q8BJ37		609	Tyrosyl-DNA phosphodieste	yes	no	0.817	0.568	0.4	1e-65
Q4G056		609	Tyrosyl-DNA phosphodieste	yes	no	0.817	0.568	0.402	2e-65
Q9VQM4		580	Probable tyrosyl-DNA phos	yes	no	0.728	0.531	0.347	3e-39
Q9TXV7		451	Probable tyrosyl-DNA phos	yes	no	0.735	0.689	0.313	1e-38
Q9USG9		536	Probable tyrosyl-DNA phos	yes	no	0.855	0.675	0.272	7e-28

>sp\|Q9NUW8\|TYDP1_HUMAN Tyrosyl-DNA phosphodiesterase 1 OS=Homo sapiens GN=TDP1 PE=1 SV=2	Back alignment and function desciption

 Score =  259 bits (661), Expect = 4e-68,   Method: Compositional matrix adjust.
 Identities = 166/399 (41%), Positives = 224/399 (56%), Gaps = 54/399 (13%)

Query: 27  NWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQD-FP-LK 84
           N  L +  L I+FGTHH+K MLL+Y  G+R+++HT+NLIH DW+ K+QG+W+   +P + 
Sbjct: 247 NISLCQAKLDIAFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIA 306

Query: 85  DQNNLSEE--CGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIA 142
           D  + S E    F+ DLI YL     P     +              K + S   V LI 
Sbjct: 307 DGTHKSGESPTHFKADLISYLMAYNAPSLKEWI----------DVIHKHDLSETNVYLIG 356

Query: 143 SVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKS-PLVYQFSSLGSL---DEKWM-AEL 197
           S PG   GS    WGH +L+ +L++        +S P+V QFSS+GSL   + KW+ +E 
Sbjct: 357 STPGRFQGSQKDNWGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKWLCSEF 416

Query: 198 SSSMSSGFSEDKTPLGIGEPL-IVWPTVEDVRCSLEGYAAGNAIP-SPQKNVDKDFLKKY 255
             SM +   E KTP     PL +++P+VE+VR SLEGY AG ++P S Q    +++L  Y
Sbjct: 417 KESMLTLGKESKTPGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQNWLHSY 476

Query: 256 WAKWKASHTGRSRAMPHIKTFARYNGQ--KLAWFLLTSANLSKAAWGALQKNNSQLMIRS 313
           + KW A  +GRS AMPHIKT+ R +    K+AWFL+TSANLSKAAWGAL+KN +QLMIRS
Sbjct: 477 FHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNGTQLMIRS 536

Query: 314 YELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSE 373
           YELGVL LPSA      F   S  V  +  +GS E                         
Sbjct: 537 YELGVLFLPSA------FGLDSFKVKQKFFAGSQEP------------------------ 566

Query: 374 VVYLPVPYELPPQRYSSEDVPWSWDKRYTKK-DVYGQVW 411
           +   PVPY+LPP+ Y S+D PW W+  Y K  D +G +W
Sbjct: 567 MATFPVPYDLPPELYGSKDRPWIWNIPYVKAPDTHGNMW 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
Query		423
302144065		678	unnamed protein product [Vitis vinifera]	0.952	0.594	0.794	0.0
359483320		621	PREDICTED: tyrosyl-DNA phosphodiesterase	0.952	0.648	0.794	0.0
255554997		665	tyrosyl-DNA phosphodiesterase, putative	0.947	0.603	0.774	0.0
224078752		599	predicted protein [Populus trichocarpa]	0.924	0.652	0.771	1e-180
449479663		959	PREDICTED: tyrosyl-DNA phosphodiesterase	0.931	0.410	0.735	1e-176
297811655		612	hypothetical protein ARALYDRAFT_488358 [	0.919	0.635	0.744	1e-174
449434370		613	PREDICTED: tyrosyl-DNA phosphodiesterase	0.931	0.642	0.726	1e-173
356507524		610	PREDICTED: tyrosyl-DNA phosphodiesterase	0.929	0.644	0.774	1e-172
356507526		599	PREDICTED: tyrosyl-DNA phosphodiesterase	0.929	0.656	0.774	1e-172
22326821		605	tyrosyl-DNA phosphodiesterase 1 [Arabido	0.919	0.642	0.732	1e-172

>gi\|302144065\|emb\|CBI23170.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score =  679 bits (1751), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 320/403 (79%), Positives = 357/403 (88%)

Query: 21  QRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQD 80
           ++NKP NWILHKPPLPISFGTHHSKAMLL+YPRGVR+IVHTANLI+VDWNNKSQGLWMQD
Sbjct: 276 KKNKPPNWILHKPPLPISFGTHHSKAMLLVYPRGVRVIVHTANLIYVDWNNKSQGLWMQD 335

Query: 81  FPLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRL 140
           FP K Q  LS+ C FENDLIDYLS LKWPEF+ANLPA G+F IN SFFKKF++S+A VRL
Sbjct: 336 FPWKVQKELSKGCAFENDLIDYLSVLKWPEFTANLPALGSFNINSSFFKKFDYSNAVVRL 395

Query: 141 IASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSS 200
           IASVPGYHTGS+LKKWGHMKL +VLQEC F+K F+KSPL YQFSSLGSLDEKWM EL+SS
Sbjct: 396 IASVPGYHTGSNLKKWGHMKLCSVLQECIFDKEFQKSPLAYQFSSLGSLDEKWMTELASS 455

Query: 201 MSSGFSEDKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKWK 260
           MSSG  +DKTPLG+G+PLI+WPTVEDVRCSLEGYAAGNAIPSPQKNV+K+FLKKYWAKWK
Sbjct: 456 MSSGSCDDKTPLGLGKPLIIWPTVEDVRCSLEGYAAGNAIPSPQKNVEKEFLKKYWAKWK 515

Query: 261 ASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLI 320
           A+HTGR RAMPHIKT+ RYNGQ LAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVL 
Sbjct: 516 ATHTGRCRAMPHIKTYTRYNGQNLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLF 575

Query: 321 LPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVP 380
           LPS    G GFSCT N  PS+ K G +E ++ Q+TKLVTLTW G+  + +SSEV+ LPVP
Sbjct: 576 LPSPINRGQGFSCTDNGSPSKNKCGLSENTKSQRTKLVTLTWEGNRSSDSSSEVIPLPVP 635

Query: 381 YELPPQRYSSEDVPWSWDKRYTKKDVYGQVWPRHFQLYAFQDS 423
           YELPP++YSSEDVPWSWD+RY KKDV GQVWPRH QLY+  DS
Sbjct: 636 YELPPKQYSSEDVPWSWDRRYYKKDVCGQVWPRHVQLYSSPDS 678

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|359483320\|ref\|XP_002265078.2\| PREDICTED: tyrosyl-DNA phosphodiesterase 1-like [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\|224078752\|ref\|XP_002305614.1\| predicted protein [Populus trichocarpa] gi\|222848578\|gb\|EEE86125.1\| predicted protein [Populus trichocarpa]	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\|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\|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\|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
Query		423
TAIR\|locus:2150931		605	TDP1 "tyrosyl-DNA phosphodiest	0.917	0.641	0.677	2.8e-146
UNIPROTKB\|Q9NUW8		608	TDP1 "Tyrosyl-DNA phosphodiest	0.687	0.478	0.447	1.3e-63
UNIPROTKB\|E2REL5		609	TDP1 "Uncharacterized protein"	0.728	0.505	0.435	1.6e-63
ZFIN\|ZDB-GENE-090909-1		615	tdp1 "tyrosyl-DNA phosphodiest	0.697	0.479	0.428	2.3e-62
MGI\|MGI:1920036		609	Tdp1 "tyrosyl-DNA phosphodiest	0.685	0.476	0.449	6.1e-62
UNIPROTKB\|F1NSQ5		602	TDP1 "Uncharacterized protein"	0.716	0.503	0.418	6.1e-62
RGD\|1309618		609	Tdp1 "tyrosyl-DNA phosphodiest	0.685	0.476	0.449	7.8e-62
UNIPROTKB\|F1MST1		612	TDP1 "Uncharacterized protein"	0.728	0.503	0.421	1.4e-60
UNIPROTKB\|F1SDA7		607	LOC100625067 "Uncharacterized	0.721	0.502	0.428	1.8e-60
UNIPROTKB\|G3V2F4		578	TDP1 "Tyrosyl-DNA phosphodiest	0.702	0.513	0.447	5.7e-59

TAIR\|locus:2150931 TDP1 "tyrosyl-DNA phosphodiesterase 1" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 1429 (508.1 bits), Expect = 2.8e-146, P = 2.8e-146
 Identities = 269/397 (67%), Positives = 303/397 (76%)

Query:    21 QRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQD 80
             QR KPANWILHKP LPISFGTHHSKA+ L+YPRGVR++VHTANLIHVDWNNKSQGLWMQD
Sbjct:   214 QRKKPANWILHKPRLPISFGTHHSKAIFLVYPRGVRVVVHTANLIHVDWNNKSQGLWMQD 273

Query:    81 FPLKDQN-NLSEECGFENDLIDYLSTLKWPEFSANLPAHGXXXXXXXXXXXXXXXXAAVR 139
             FP KD + +  + CGFE DLIDYL+ LKWPEF+ANLP  G                A VR
Sbjct:   274 FPWKDDDKDPPKGCGFEGDLIDYLNVLKWPEFTANLPGRGNVKINAAFFKKFDYSDATVR 333

Query:   140 LIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELXX 199
             LIASVPGYHTG +L KWGHMKLRT+LQEC F++ F++SPL+YQFSSLGSLDEKW+AE   
Sbjct:   334 LIASVPGYHTGFNLNKWGHMKLRTILQECIFDREFRRSPLIYQFSSLGSLDEKWLAEFGN 393

Query:   200 XXXXXXXEDKTPLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVDKDFLKKYWAKW 259
                    EDKTPLG G+ LI+WPTVEDVRCSLEGYAAGNAIPSP KNV+K FLKKYWA+W
Sbjct:   394 SLSSGITEDKTPLGPGDSLIIWPTVEDVRCSLEGYAAGNAIPSPLKNVEKPFLKKYWARW 453

Query:   260 KASHTGRSRAMPHIKTFARYNGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVL 319
             KA H+ R RAMPHIKTF RYN QK+AWFLLTS+NLSKAAWGALQKNNSQLMIRSYELGVL
Sbjct:   454 KADHSARGRAMPHIKTFTRYNDQKIAWFLLTSSNLSKAAWGALQKNNSQLMIRSYELGVL 513

Query:   320 ILPSA-KRHGCGFSCT-SNIVPSEIKSGSTETSQIQK-TKLVTLTWHGSSDAGASSXXXX 376
              LPS  K  GC FSCT SN  PS +K+      +++K +KLVT+TW G  D         
Sbjct:   514 FLPSPIKTQGCVFSCTESN--PSVMKAKQETKDEVEKRSKLVTMTWQGDRDL---PEIIS 568

Query:   377 XXXXXXXXXQRYSSEDVPWSWDKRYTKKDVYGQVWPR 413
                      + YS EDVPWSWD+ Y+KKDVYGQVWPR
Sbjct:   569 LPVPYQLPPKPYSPEDVPWSWDRGYSKKDVYGQVWPR 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

ZFIN\|ZDB-GENE-090909-1 tdp1 "tyrosyl-DNA phosphodiesterase 1" [Danio rerio (taxid:7955)]	Back alignment and assigned GO terms

MGI\|MGI:1920036 Tdp1 "tyrosyl-DNA phosphodiesterase 1" [Mus musculus (taxid:10090)]	Back alignment and assigned GO terms

UNIPROTKB\|F1NSQ5 TDP1 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

RGD\|1309618 Tdp1 "tyrosyl-DNA phosphodiesterase 1" [Rattus norvegicus (taxid:10116)]	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

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

Your Input:
	GSVIVG00006918001	SubName- Full=Chromosome chr10 scaffold_179, whole genome shotgun sequence; (584 aa)
		(Vitis vinifera)
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
Query		423
pfam06087		433	pfam06087, Tyr-DNA_phospho, Tyrosyl-DNA phosphodie	1e-90
cd09195		191	cd09195, PLDc_mTdp1_2, Catalytic domain, repeat 2,	9e-74
cd09123		182	cd09123, PLDc_Tdp1_2, Catalytic domain, repeat 2,	9e-60
cd09122		145	cd09122, PLDc_Tdp1_1, Catalytic domain, repeat 1,	1e-35
cd09196		200	cd09196, PLDc_yTdp1_2, Catalytic domain, repeat 2,	4e-19
cd09193		169	cd09193, PLDc_mTdp1_1, Catalytic domain, repeat 1,	6e-19
cd09194		166	cd09194, PLDc_yTdp1_1, Catalytic domain, repeat 1,	3e-18

>gnl\|CDD\|218888 pfam06087, Tyr-DNA_phospho, Tyrosyl-DNA phosphodiesterase	Back alignment and domain information

 Score =  280 bits (719), Expect = 1e-90
 Identities = 134/400 (33%), Positives = 197/400 (49%), Gaps = 66/400 (16%)

Query: 16  LIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRG-VRIIVHTANLIHVDWNNKSQ 74
                +     N  + K  +P  FGTHH+K M+L Y  G  R+++ TANL   DW N +Q
Sbjct: 74  KREIIEDCGYPNVTVIKAKMPGPFGTHHTKMMILFYEDGSCRVVIPTANLTPGDWGNMTQ 133

Query: 75  GLWMQDFPLKDQNNLSEE-CGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNF 133
           GLW+       ++ L E    F+ DL++YLS          L             +K++F
Sbjct: 134 GLWISPLLKIGKSELEESSTRFKRDLLEYLSEYGAKTLLEPLID---------RLRKYDF 184

Query: 134 SSAAVRLIASVPGYHTGSSLKKWGHMKLRTVLQE---CTFEKGFKKSPLVYQFSSLGSLD 190
           SS  V L+ASVPG HTG+   KWG  +L +VL+     T ++  ++  +V Q SS+GSL 
Sbjct: 185 SSVNVELVASVPGKHTGNK-DKWGLPRLGSVLRANPLLTKDEKDEQVHVVCQSSSIGSLG 243

Query: 191 --EKW------MAELSSSMSSGFSEDKTPLGIGE----PLIVWPTVEDVRCSLEGYAAGN 238
              K       +  L  +  S   ++ +     E    P I++PTV++VR SL+GY +G 
Sbjct: 244 VTPKDWLKSNFLGSLYPASFSSEGQESSINQQKERKPKPRIIYPTVDEVRTSLDGYDSGG 303

Query: 239 AIP----SPQKNVDKDFLKKYWAKWKASH--TGRSRAMPHIKTFARYNGQK---LAWFLL 289
           ++     S      +++L+ Y  KWK+S+   GR+RA PHIKT+ R+N +    L W L+
Sbjct: 304 SLHFKKQSYATKFPQEWLRPYLHKWKSSNADKGRTRAPPHIKTYIRFNDEDFKDLDWALV 363

Query: 290 TSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTET 349
           TSANLSKAAWGAL KN +QL IRSYELGVL  P++                        T
Sbjct: 364 TSANLSKAAWGALVKNETQLRIRSYELGVLYWPTSA-----------------------T 400

Query: 350 SQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYS 389
                +               S + + +P+P++LPP  Y 
Sbjct: 401 PLDVFSLKD-------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\|197292 cd09196, PLDc_yTdp1_2, Catalytic domain, repeat 2, of yeast 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		423
KOG2031		519	consensus Tyrosyl-DNA phosphodiesterase [Replicati	100.0
PF06087		443	Tyr-DNA_phospho: Tyrosyl-DNA phosphodiesterase; In	100.0
PF13091		126	PLDc_2: PLD-like domain; PDB: 2ZE4_A 2ZE9_A 1BYS_A	95.58
smart00155		28	PLDc Phospholipase D. Active site motifs. Phosphat	91.01
PRK13912		177	nuclease NucT; Provisional	90.78
PF00614		28	PLDc: Phospholipase D Active site motif; InterPro:	89.75
PF09565		296	RE_NgoFVII: NgoFVII restriction endonuclease; Inte	87.39
smart00155		28	PLDc Phospholipase D. Active site motifs. Phosphat	86.79
cd00138		176	PLDc Phospholipase D. Active site motifs; The PLD	85.26
cd00138		176	PLDc Phospholipase D. Active site motifs; The PLD	83.22
COG1502		438	Cls Phosphatidylserine/phosphatidylglycerophosphat	80.2

>KOG2031 consensus Tyrosyl-DNA phosphodiesterase [Replication, recombination and repair]	Back alignment and domain information

Probab=100.00  E-value=2e-96  Score=739.80  Aligned_cols=371  Identities=43%  Similarity=0.713  Sum_probs=318.4

Q ss_pred             ceEEEEEecCc-hhhhhhhhccCCCcEEEEcCCCCCCCCccccceeeeeeCCceEEEEeCCCCCccccccccceEEeecc
Q 014528            3 ILLLLFYQTTW-WTLIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQDF   81 (423)
Q Consensus         3 ~~~~~~~~~~~-~~~~~~~~~~~~~n~~~~~p~mp~~fG~hHSKmmll~y~d~lRVVI~SANL~~~DW~~~tQ~vW~qdf   81 (423)
                      +++++.||+.+ +++.+..+  .+.|+++|.+.||++|||||+|||+|+|++|+||||+||||++.||++++|++|++|+
T Consensus       138 ~~i~l~~G~~d~~~~~~~~K--~~~l~~~~~~~LpipF~thHtKm~~l~y~~G~rvvv~taNl~~~Dw~~ktQ~~w~sp~  215 (519)
T KOG2031|consen  138 KPITLVHGEPDEARLLAQTK--APILVTVKLASLPIPFGTHHTKMIILFYEEGCRVVVHTANLIHDDWNNKTQGFWCSPL  215 (519)
T ss_pred             CceEEEecCCchHHHHhhhh--ccceeeeecccccccccccccceEEEeccCccEEEEecCCcceecccccccceeecCC
Confidence            46888999988 45443333  3779999999999999999999999999999999999999999999999999999998


Q ss_pred             CCCCCCCCCCCCCcHHHHHHHHHhCCCCccccCCCCCCCccccccccccccccccceeEEEccCCCCCCCccchhcHHHH
Q 014528           82 PLKDQNNLSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKKWGHMKL  161 (423)
Q Consensus        82 P~~~~~~~~~~~~F~~dL~~yL~ay~~~~~~~~~~~l~~~~i~~~~L~~yDFS~~~v~LV~SVPG~h~g~~~~~~G~~~L  161 (423)
                      +.+.+.....++.|++||++||++|+++...          .++++|+++|||.++|+||+||||++.|.....|||.||
T Consensus       216 ~~~~~~~g~~~~~Fk~DLi~YL~~Y~~~~l~----------~~i~~lkk~DfS~i~v~fIgStPG~f~gs~~~~WGh~kL  285 (519)
T KOG2031|consen  216 LKIGDKKGVSPTGFKQDLIEYLNSYRLPQLK----------EWIASLKKVDFSAINVRFIGSTPGKFQGSGLLSWGHNKL  285 (519)
T ss_pred             cccccCCCCCCCchHHHHHHHHHHhccchhH----------HHHHHHHhcchhhceEEEEeecCCcccCcccccccHHHH
Confidence            8877667788999999999999999987543          347899999999999999999999888877767999999


Q ss_pred             HHHHhhcCccCCCcccCeEEEecCCCCCchHHHHHHHHhccCCCCCCCCCCCC--CCCeEEccChhhhhcCcccCcCCcc
Q 014528          162 RTVLQECTFEKGFKKSPLVYQFSSLGSLDEKWMAELSSSMSSGFSEDKTPLGI--GEPLIVWPTVEDVRCSLEGYAAGNA  239 (423)
Q Consensus       162 ~~~L~~~~~~~~~~~~~i~~Q~SSiGsl~~~wl~~~~~sl~~~~~~~~~~~~~--~~~~iifPT~~~V~~S~~G~~~gg~  239 (423)
                      +++|+.+......++.+++||+||+|+++..|...|...+.....++.++.+.  ++++|||||+||||+|.+||.+|||
T Consensus       286 ~kiL~~~~~~~~~~r~~~v~q~sS~gsl~~~~~~~~~~~f~~~l~kdt~~~gk~~~~~yiIfPTveeVrtS~~G~~~Ggs  365 (519)
T KOG2031|consen  286 KKILKEHAASPYLERTPVVGQSSSIGSLGSLWSAWFIGDFVESLAKDTTPPGKLRPPFYIIFPTVEEVRTSLLGYAGGGS  365 (519)
T ss_pred             HHHHHhhccCcccccCceeeeeeccccccchhhhhhhhhhccchhhccCCCCCCCCCeeEEcccHHHhhccccccccCce
Confidence            99999987655567899999999999999888777766665555555554443  4589999999999999999999999


Q ss_pred             ccCCCccch-hHHHHHHHhhhcCCCCCCCCCCCcceeeeeec--CCceeEEEEeccccchhhhhccccCCc---eeeeee
Q 014528          240 IPSPQKNVD-KDFLKKYWAKWKASHTGRSRAMPHIKTFARYN--GQKLAWFLLTSANLSKAAWGALQKNNS---QLMIRS  313 (423)
Q Consensus       240 i~~~~~~~~-~~~l~~~~~kw~~~~~~R~~~~PH~K~y~r~~--~~~~~W~lltSaNLS~aAWG~~~k~~~---ql~irn  313 (423)
                      |||..++.+ +.|+++|||||.+.+++|+|||||||||||++  ++.+.|||||||||||||||.++++++   ||+|||
T Consensus       366 ipy~~~~~~kq~~lk~y~~kW~A~~s~R~ramPHiKtYmr~~~d~q~l~W~LlTSANLSKaAWG~l~kn~sk~~~LmIRs  445 (519)
T KOG2031|consen  366 LPYGKNTNEKQPWLKKYLCKWKAMDSRRSRAMPHIKTYMRFNLDDQKLAWFLLTSANLSKAAWGTLSKNKSKQPQLMIRS  445 (519)
T ss_pred             ecccchhhhhhHHHHHHHHhhhhhhhhccccCCcceeeeeecCCCCEEEEEEEeccccchhhhhhhccCCCCCchheeee
Confidence            999876665 58999999999999999999999999999998  689999999999999999999999876   999999


Q ss_pred             eeeeeEEcCCcccCC--CccccccCCCCccccCCCccchhhhcceeeeeecCCCCCCCCCCcccccccccCCCCCCCCCC
Q 014528          314 YELGVLILPSAKRHG--CGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQRYSSE  391 (423)
Q Consensus       314 yElGVl~~P~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vPy~lP~~~Y~~~  391 (423)
                      ||+||||+|..+.+.  .+..|..                          +..+..   ....+.||||||||++||++.
T Consensus       446 YEaGVLf~p~~~~~~kt~k~~~~t--------------------------f~~~~~---~~~v~~vpvpydlPp~pY~~~  496 (519)
T KOG2031|consen  446 YEAGVLFLPRFFANLKTFKVVEDT--------------------------FPRDNN---GDGVIAVPVPYDLPPVPYSPK  496 (519)
T ss_pred             cccceEecchhhhcccccccccee--------------------------cccccC---CCCcceeccccCCCCcCCCcc
Confidence            999999999976542  2222221                          212211   123478999999999999999


Q ss_pred             CCCceecCCCCCccCCCCCCccc
Q 014528          392 DVPWSWDKRYTKKDVYGQVWPRH  414 (423)
Q Consensus       392 D~Pw~~~~~y~~~D~~G~~w~~~  414 (423)
                      |+||+++..+..+|++|.+|++.
T Consensus       497 d~~~~~~~~~~~~d~lG~vW~p~  519 (519)
T KOG2031|consen  497 DEPFFTDIYRQGPDWLGCVWTPN  519 (519)
T ss_pred             CCceeecccccCCcceeeccCCC
Confidence            99999997777999999999863

>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

>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

>smart00155 PLDc Phospholipase D	Back alignment and domain information

>PRK13912 nuclease NucT; Provisional	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

>PF09565 RE_NgoFVII: NgoFVII restriction endonuclease; InterPro: IPR019065 There are four classes of restriction endonucleases: types I, II,III and IV	Back alignment and domain information

>smart00155 PLDc Phospholipase D	Back alignment and domain information

>cd00138 PLDc Phospholipase D	Back alignment and domain information

>cd00138 PLDc Phospholipase D	Back alignment and domain information

>COG1502 Cls Phosphatidylserine/phosphatidylglycerophosphate/cardiolipin synthases and related enzymes [Lipid metabolism]	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
Query		423
1qzq_A		483	Human Tyrosyl Dna Phosphodiesterase Length = 483		9e-60
1mu7_A		485	Crystal Structure Of A Human Tyrosyl-dna Phosphodie		8e-59
1jy1_A		464	Crystal Structure Of Human Tyrosyl-Dna Phosphodiest		1e-54

>pdb|1QZQ|A Chain A, Human Tyrosyl Dna Phosphodiesterase Length = 483

Back alignment and structure

Iteration: 1

Score = 227 bits (579), Expect = 9e-60, Method: Compositional matrix adjust. Identities = 154/391 (39%), Positives = 208/391 (53%), Gaps = 54/391 (13%) Query: 35 LPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQD-FP-LKDQNNLSEE 92 L I+FGTHH+K MLL+Y G+R+++HT+NLIH DW+ K+QG+W+ +P + D + S E Sbjct: 130 LDIAFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIADGTHKSGE 189 Query: 93 --CGFENDLIDYLSTLKWPEFSANLPAHGXXXXXXXXXXXXXXXXAAVRLIASVPGYHTG 150 F+ DLI YL P + V LI S PG G Sbjct: 190 SPTHFKADLISYLMAYNAPSLKEWIDV----------IHKHDLSETNVYLIGSTPGRFQG 239 Query: 151 SSLKKWGHMKLRTVLQECTFEKGFKKS-PLVYQFSSLGSL---DEKWM-AELXXXXXXXX 205 S WGH +L+ +L++ +S P+V QFSS+GSL + KW+ +E Sbjct: 240 SQKDNWGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKWLCSEFKESMLTLG 299 Query: 206 XEDKTPLGIGEPL-IVWPTVEDVRCSLEGYAAGNAIP-SPQKNVDKDFLKKYWAKWKASH 263 E KTP PL +++P+VE+VR SLEGY AG ++P S Q +++L Y+ KW A Sbjct: 300 KESKTPGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQNWLHSYFHKWSAET 359 Query: 264 TGRSRAMPHIKTFARY--NGQKLAWFLLTSANLSKAAWGALQKNNSQLMIRSYELGVLIL 321 +GRS AMPHIKT+ R + K+AWFL+TSANLSKAAWGAL+KN +QLMIRSYELGVL L Sbjct: 360 SGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNGTQLMIRSYELGVLFL 419 Query: 322 PSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSXXXXXXXXX 381 PSA F S V + +GS E + T Sbjct: 420 PSA------FGLDSFKVKQKFFAGSQEP-------MATFP-----------------VPY 449 Query: 382 XXXXQRYSSEDVPWSWDKRYTKK-DVYGQVW 411 + Y S+D PW W+ Y K D +G +W Sbjct: 450 DLPPELYGSKDRPWIWNIPYVKAPDTHGNMW 480

PyMOL of 1qzq

>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
Query		423
1jy1_A		464	TDP1, tyrosyl-DNA phosphodiesterase; PLD superfami	1e-110
3sq7_A		470	Tyrosyl-DNA phosphodiesterase 1; DNA binding, nucl	2e-76
1q32_A		544	TDP1P;, tyrosyl-DNA phosphodiesterase; DNA repair,	4e-75

>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 =  331 bits (850), Expect = e-110
 Identities = 157/406 (38%), Positives = 218/406 (53%), Gaps = 54/406 (13%)

Query: 21  QRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQD 80
           Q     N  L +  L I+FGTHH+K MLL+Y  G+R+++HT+NLIH DW+ K+QG+W+  
Sbjct: 97  QAKPYENISLCQAKLDIAFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSP 156

Query: 81  FPLKDQNNLSEE----CGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSA 136
              +  +   +       F+ +LI YL+    P     +              K + S  
Sbjct: 157 LYPRIADGTHKSGESPTHFKANLISYLTAYNAPSLKEWI----------DVIHKHDLSET 206

Query: 137 AVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGF-KKSPLVYQFSSLGSL---DEK 192
            V LI S PG   GS    WGH +L+ +L++        +  P+V QFSS+GSL   + K
Sbjct: 207 NVYLIGSTPGRFQGSQKDNWGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSLGADESK 266

Query: 193 WM-AELSSSMSSGFSEDKTPLGIGEPL-IVWPTVEDVRCSLEGYAAGNAIPSPQKNVDK- 249
           W+ +E   SM +   E KTP     PL +++P+VE+VR SLEGY AG ++P   +  +K 
Sbjct: 267 WLCSEFKESMLTLGKESKTPGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQ 326

Query: 250 DFLKKYWAKWKASHTGRSRAMPHIKTFARYNG--QKLAWFLLTSANLSKAAWGALQKNNS 307
           ++L  Y+ KW A  +GRS AMPHIKT+ R +    K+AWFL+TSANLSKAAWGAL+KN +
Sbjct: 327 NWLHSYFHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNGT 386

Query: 308 QLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSD 367
           QLMIRSYELGVL LPSA                                L +        
Sbjct: 387 QLMIRSYELGVLFLPSAL------------------------------GLDSFKVKQKFF 416

Query: 368 AGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTKK-DVYGQVWP 412
           AG+   +   PVPY+LPP+ Y S+D PW W+  Y K  D +G +W 
Sbjct: 417 AGSQEPMATFPVPYDLPPELYGSKDRPWIWNIPYVKAPDTHGNMWV 462

PyMOL of 1jy1

>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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		423
1jy1_A		464	TDP1, tyrosyl-DNA phosphodiesterase; PLD superfami	100.0
3sq7_A		470	Tyrosyl-DNA phosphodiesterase 1; DNA binding, nucl	100.0
1q32_A		544	TDP1P;, tyrosyl-DNA phosphodiesterase; DNA repair,	100.0
1byr_A		155	Protein (endonuclease); phosphodiesterase,; 2.00A	88.35
4ggj_A		196	Mitochondrial cardiolipin hydrolase; piRNA pathway	85.38
1byr_A		155	Protein (endonuclease); phosphodiesterase,; 2.00A	84.58
3hsi_A		458	Phosphatidylserine synthase; CDP- diacylglycerol--	83.98

>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=6.8e-101  Score=798.93  Aligned_cols=370  Identities=42%  Similarity=0.759  Sum_probs=306.1

Q ss_pred             ceEEEEEecCch---hhhhhhhccCCCcEEEEcCCCCCCCCccccceeeeeeCCceEEEEeCCCCCccccccccceEEee
Q 014528            3 ILLLLFYQTTWW---TLIGCCQRNKPANWILHKPPLPISFGTHHSKAMLLIYPRGVRIIVHTANLIHVDWNNKSQGLWMQ   79 (423)
Q Consensus         3 ~~~~~~~~~~~~---~~~~~~~~~~~~n~~~~~p~mp~~fG~hHSKmmll~y~d~lRVVI~SANL~~~DW~~~tQ~vW~q   79 (423)
                      ..++|++|++..   ++.+..+  ..+||++|+|+||.+|||||||||||+|+||||||||||||++.||+++||+||+|
T Consensus        78 ~~v~iv~g~~~~~~~~l~~~~~--~~~nv~~~~p~mp~~fGthHsKmmiL~y~~glRVVI~TANL~~~DW~~~tQ~vW~s  155 (464)
T 1jy1_A           78 KPILLVHGDKREAKAHLHAQAK--PYENISLCQAKLDIAFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLS  155 (464)
T ss_dssp             SCEEEEECCCHHHHHHHHHHHT--TCTTEEEEECCCCSTTCCBCCCEEEEEESSCEEEEEECCCBSGGGGTSSBCEEEEC
T ss_pred             CcEEEEeCCCcccchhhHHhhc--cCCCeEEEeCCCCCcccccchhhheeecCCceEEEEeCCCCChhHhccccceEEec
Confidence            368899998663   3443333  47799999999999999999999999999999999999999999999999999999


Q ss_pred             c-cCCCCCCC---CCCCCCcHHHHHHHHHhCCCCccccCCCCCCCccccccccccccccccceeEEEccCCCCCCCccch
Q 014528           80 D-FPLKDQNN---LSEECGFENDLIDYLSTLKWPEFSANLPAHGNFKINPSFFKKFNFSSAAVRLIASVPGYHTGSSLKK  155 (423)
Q Consensus        80 d-fP~~~~~~---~~~~~~F~~dL~~yL~ay~~~~~~~~~~~l~~~~i~~~~L~~yDFS~~~v~LV~SVPG~h~g~~~~~  155 (423)
                      | ||++...+   .+++++|++||++||++|+.+....          ++++|++||||.++|+||+||||+|.|.+..+
T Consensus       156 d~lP~~~~~~~~~~~~~~~Fk~dL~~yL~ay~~~~~~~----------~i~~L~~~DFS~~~v~LVaSvPG~h~~~~~~~  225 (464)
T 1jy1_A          156 PLYPRIADGTHKSGESPTHFKANLISYLTAYNAPSLKE----------WIDVIHKHDLSETNVYLIGSTPGRFQGSQKDN  225 (464)
T ss_dssp             CCBCBCCTTCCCCCCCTTCHHHHHHHHHHTTCCGGGHH----------HHHHHHTBCCTTCCSEEEEECSEEEEGGGGGG
T ss_pred             ccCcCCCccccccCCCCCchHHHHHHHHHHhCCchhHH----------HHHHHHhcCCcccCcEEEEeCCcCCcCCcchh
Confidence            9 78765433   3678999999999999999764332          25889999999999999999999999999999


Q ss_pred             hcHHHHHHHHhhcCccC-CCcccCeEEEecCCCCCc---hHHH-HHHHHhccCCCCCCCCC-CCCCCCeEEccChhhhhc
Q 014528          156 WGHMKLRTVLQECTFEK-GFKKSPLVYQFSSLGSLD---EKWM-AELSSSMSSGFSEDKTP-LGIGEPLIVWPTVEDVRC  229 (423)
Q Consensus       156 ~G~~~L~~~L~~~~~~~-~~~~~~i~~Q~SSiGsl~---~~wl-~~~~~sl~~~~~~~~~~-~~~~~~~iifPT~~~V~~  229 (423)
                      |||++|+++|++++... ..+..+|+||+||||+++   .+|| ++|..+|.+...+.+.+ ...++++|||||+||||+
T Consensus       226 ~G~~~L~~~L~~~~~~~~~~~~~~i~~Q~SSIGslg~~~~~Wl~~~f~~sl~~~~~~~~~~~~~~~~~~iifPT~e~Vr~  305 (464)
T 1jy1_A          226 WGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKWLCSEFKESMLTLGKESKTPGKSSVPLYLIYPSVENVRT  305 (464)
T ss_dssp             SHHHHHHHHHHHHC-----CCSCCEEEECSCBCCCCSSTTTTTTTTHHHHHTCCC---------CCCEEEECCBHHHHHT
T ss_pred             hhHHHHHHHHHHhccCCCccCCCcEEEEeecccccCcchhHHHHHHHHHHhhhhcccccccccCCCceEEEcCCHHHHHh
Confidence            99999999999987542 225789999999999997   5899 68999987643221111 234679999999999999


Q ss_pred             CcccCcCCccccCCCccch-hHHHHHHHhhhcCCCCCCCCCCCcceeeeeecC--CceeEEEEeccccchhhhhccccCC
Q 014528          230 SLEGYAAGNAIPSPQKNVD-KDFLKKYWAKWKASHTGRSRAMPHIKTFARYNG--QKLAWFLLTSANLSKAAWGALQKNN  306 (423)
Q Consensus       230 S~~G~~~gg~i~~~~~~~~-~~~l~~~~~kw~~~~~~R~~~~PH~K~y~r~~~--~~~~W~lltSaNLS~aAWG~~~k~~  306 (423)
                      |.+|+.+|||||++.+.++ +.|++++||+|+++.++|++++||||+|+|+++  ..++|+|+||||||+||||++++++
T Consensus       306 S~~G~~~ggsi~~~~~~~~~~~~l~~~l~~w~~~~~~R~~a~pHiKty~r~~~~~~~~~W~lltSaNLSkaAWG~~~k~~  385 (464)
T 1jy1_A          306 SLEGYPAGGSLPYSIQTAEKQNWLHSYFHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNG  385 (464)
T ss_dssp             SSSCGGGGGGSCCCHHHHTTCGGGGGGEECCCCGGGTCTTSCBCCEEEEEECTTSSEEEEEEEESCCBSHHHHCEEETTT
T ss_pred             cccccCCcceeeccchhhhhhhhhHHHHHHhccCccCCCCcCCceeeEEecCCCCCeecEEEEccccCCHHHhCccccCC
Confidence            9999999999999865544 569999999999999999999999999999985  4799999999999999999999999


Q ss_pred             ceeeeeeeeeeeEEcCCcccCCCccccccCCCCccccCCCccchhhhcceeeeeecCCCCCCCCCCcccccccccCCCCC
Q 014528          307 SQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDAGASSEVVYLPVPYELPPQ  386 (423)
Q Consensus       307 ~ql~irnyElGVl~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vPy~lP~~  386 (423)
                      +||+||||||||||+|....+. .+.+...                    .    .  +.   .....+.+||||++|++
T Consensus       386 ~~l~I~nyElGVl~~P~~~~~~-~~~~~~~--------------------~----~--~~---~~~~~~~~~vPy~lP~~  435 (464)
T 1jy1_A          386 TQLMIRSYELGVLFLPSALGLD-SFKVKQK--------------------F----F--AG---SQEPMATFPVPYDLPPE  435 (464)
T ss_dssp             TEEEECSBEEEEEECGGGGTCS-CEEEC----------------------------------------CEECCSSCSSCC
T ss_pred             CceeEeeeeeeEEEeccccccc-ccccCcc--------------------c----c--cc---ccCcccceeecCCCCCc
Confidence            9999999999999999875322 1211000                    0    0  00   01224689999999999


Q ss_pred             CCCCCCCCceecCCCCCc-cCCCCCCccc
Q 014528          387 RYSSEDVPWSWDKRYTKK-DVYGQVWPRH  414 (423)
Q Consensus       387 ~Y~~~D~Pw~~~~~y~~~-D~~G~~w~~~  414 (423)
                      ||+++|+||+++++|.+| |++|++|++.
T Consensus       436 ~Y~~~D~Pw~~~~~~~~~~D~~G~~w~p~  464 (464)
T 1jy1_A          436 LYGSKDRPWIWNIPYVKAPDTHGNMWVPS  464 (464)
T ss_dssp             BCCTTCCBCCTTSCBCSSCCTTSCCBCCC
T ss_pred             CCCCCCCCeeCCCCCCCcccCCcCcCCCC
Confidence            999999999999999997 9999999873

PyMOL of 1jy1

>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

>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

>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

>1byr_A Protein (endonuclease); phosphodiesterase,; 2.00A {Salmonella typhimurium} SCOP: d.136.1.1 PDB: 1bys_A	Back alignment and structure

>3hsi_A Phosphatidylserine synthase; CDP- diacylglycerol--serine O-phosphatidyltransferase, structura genomics, PSI-2; HET: MSE; 2.20A {Haemophilus influenzae}	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		423
d1jy1a2		258	d.136.1.3 (A:351-608) Tyrosyl-DNA phosphodiesteras	4e-87
d1q32a1		215	d.136.1.3 (A:79-293) Tyrosyl-DNA phosphodiesterase	6e-43
d1q32a2		237	d.136.1.3 (A:302-538) Tyrosyl-DNA phosphodiesteras	9e-41
d1jy1a1		206	d.136.1.3 (A:145-350) Tyrosyl-DNA phosphodiesteras	3e-28

>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 =  263 bits (674), Expect = 4e-87
 Identities = 120/285 (42%), Positives = 160/285 (56%), Gaps = 40/285 (14%)

Query: 138 VRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEKGF-KKSPLVYQFSSLGSL---DEKW 193
           V LI S PG   GS    WGH +L+ +L++        +  P+V QFSS+GSL   + KW
Sbjct: 2   VYLIGSTPGRFQGSQKDNWGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSLGADESKW 61

Query: 194 M-AELSSSMSSGFSEDKTPLGIGEPL-IVWPTVEDVRCSLEGYAAGNAIPSPQKNVDK-D 250
           + +E   SM +   E KTP     PL +++P+VE+VR SLEGY AG ++P   +  +K +
Sbjct: 62  LCSEFKESMLTLGKESKTPGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTAEKQN 121

Query: 251 FLKKYWAKWKASHTGRSRAMPHIKTFARYN--GQKLAWFLLTSANLSKAAWGALQKNNSQ 308
           +L  Y+ KW A  +GRS AMPHIKT+ R +    K+AWFL+TSANLSKAAWGAL+KN +Q
Sbjct: 122 WLHSYFHKWSAETSGRSNAMPHIKTYMRPSPDFSKIAWFLVTSANLSKAAWGALEKNGTQ 181

Query: 309 LMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSDA 368
           LMIRSYELGVL LPSA                                L +        A
Sbjct: 182 LMIRSYELGVLFLPSA------------------------------LGLDSFKVKQKFFA 211

Query: 369 GASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTK-KDVYGQVWP 412
           G+   +   PVPY+LPP+ Y S+D PW W+  Y K  D +G +W 
Sbjct: 212 GSQEPMATFPVPYDLPPELYGSKDRPWIWNIPYVKAPDTHGNMWV 256

PyMOL of d1jy1a2

>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

>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

>d1jy1a1 d.136.1.3 (A:145-350) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 206	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
Query		423
d1jy1a2		258	Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sa	100.0
d1q32a2		237	Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast	100.0
d1q32a1		215	Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast	100.0
d1jy1a1		206	Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sa	100.0
d1byra_		152	Nuclease Nuc {Salmonella typhimurium [TaxId: 90371	93.13
d1v0wa2		246	Phospholipase D {Streptomyces sp. [TaxId: 1931]}	84.79

>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=8.6e-72  Score=537.17  Aligned_cols=247  Identities=47%  Similarity=0.825  Sum_probs=201.0

Q ss_pred             ceeEEEccCCCCCCCccchhcHHHHHHHHhhcCccC-CCcccCeEEEecCCCCCc---hHHH-HHHHHhccCCCCCCCC-
Q 014528          137 AVRLIASVPGYHTGSSLKKWGHMKLRTVLQECTFEK-GFKKSPLVYQFSSLGSLD---EKWM-AELSSSMSSGFSEDKT-  210 (423)
Q Consensus       137 ~v~LV~SVPG~h~g~~~~~~G~~~L~~~L~~~~~~~-~~~~~~i~~Q~SSiGsl~---~~wl-~~~~~sl~~~~~~~~~-  210 (423)
                      ||+||+||||+|.|.++.+|||+||+++|++++... ..++.+|+||+||||||+   .+|| .+|..++.+...+..+ 
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            689999999999999999999999999999987643 335678999999999997   4788 6898888765433322 


Q ss_pred             CCCCCCCeEEccChhhhhcCcccCcCCccccCCCccch-hHHHHHHHhhhcCCCCCCCCCCCcceeeeeecC--CceeEE
Q 014528          211 PLGIGEPLIVWPTVEDVRCSLEGYAAGNAIPSPQKNVD-KDFLKKYWAKWKASHTGRSRAMPHIKTFARYNG--QKLAWF  287 (423)
Q Consensus       211 ~~~~~~~~iifPT~~~V~~S~~G~~~gg~i~~~~~~~~-~~~l~~~~~kw~~~~~~R~~~~PH~K~y~r~~~--~~~~W~  287 (423)
                      .....+++|||||+||||+|.+|+.+|||||++.++.+ +.|++++||+|.++.++|++++||||||+|+++  +.++|+
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            22345789999999999999999999999999976665 479999999999999999999999999999986  579999


Q ss_pred             EEeccccchhhhhccccCCceeeeeeeeeeeEEcCCcccCCCccccccCCCCccccCCCccchhhhcceeeeeecCCCCC
Q 014528          288 LLTSANLSKAAWGALQKNNSQLMIRSYELGVLILPSAKRHGCGFSCTSNIVPSEIKSGSTETSQIQKTKLVTLTWHGSSD  367 (423)
Q Consensus       288 lltSaNLS~aAWG~~~k~~~ql~irnyElGVl~~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  367 (423)
                      ||||||||+||||+++++++||+||||||||||+|...... .|.....                             ..
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            99999999999999999999999999999999998854322 1211100                             00


Q ss_pred             CCCCCcccccccccCCCCCCCCCCCCCceecCCCCC-ccCCCCCCcc
Q 014528          368 AGASSEVVYLPVPYELPPQRYSSEDVPWSWDKRYTK-KDVYGQVWPR  413 (423)
Q Consensus       368 ~~~~~~~~~~~vPy~lP~~~Y~~~D~Pw~~~~~y~~-~D~~G~~w~~  413 (423)
                      .......+.|||||+||++||+++|+|||+|++|.+ ||++|++|++
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            001123467999999999999999999999999975 9999999987

PyMOL of d1jy1a2

>d1q32a2 d.136.1.3 (A:302-538) Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

>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

>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