Citrus Sinensis ID: 002685
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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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 | 893 | 2.2.26 [Sep-21-2011] | |||||||
| Q9NUW8 | 608 | Tyrosyl-DNA phosphodieste | yes | no | 0.115 | 0.169 | 0.260 | 8e-05 | |
| Q4G056 | 609 | Tyrosyl-DNA phosphodieste | yes | no | 0.115 | 0.169 | 0.234 | 9e-05 |
| >sp|Q9NUW8|TYDP1_HUMAN Tyrosyl-DNA phosphodiesterase 1 OS=Homo sapiens GN=TDP1 PE=1 SV=2 | Back alignment and function desciption |
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Score = 50.1 bits (118), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 54/115 (46%), Gaps = 12/115 (10%)
Query: 523 GIACHHPKLFVLQREDSIRVIVTSANLGAKQWNAVTNTVWWQDFPRRCAPDYLSLFVQTP 582
HH K+ +L E+ +RV++ ++NL W+ T +W +P Y + T
Sbjct: 258 AFGTHHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIW-------LSPLYPRIADGT- 309
Query: 583 VEEINQDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVASVPG 637
+ +S + F A L S++ + + PS WI + K+D + +L+ S PG
Sbjct: 310 --HKSGESPTHFKADLISYL--MAYNAPSLKEWIDVIHKHDLSETNVYLIGSTPG 360
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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|Q4G056|TYDP1_RAT Tyrosyl-DNA phosphodiesterase 1 OS=Rattus norvegicus GN=Tdp1 PE=2 SV=1 | Back alignment and function description |
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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 | 893 | ||||||
| 255539987 | 1148 | tyrosyl-DNA phosphodiesterase, putative | 0.933 | 0.726 | 0.544 | 0.0 | |
| 224119906 | 1131 | predicted protein [Populus trichocarpa] | 0.961 | 0.759 | 0.542 | 0.0 | |
| 359493967 | 1091 | PREDICTED: uncharacterized protein LOC10 | 0.895 | 0.733 | 0.535 | 0.0 | |
| 297806769 | 1083 | predicted protein [Arabidopsis lyrata su | 0.912 | 0.752 | 0.514 | 0.0 | |
| 42567721 | 1084 | forkhead-associated domainand FHA domain | 0.916 | 0.754 | 0.504 | 0.0 | |
| 147770909 | 1423 | hypothetical protein VITISV_012382 [Viti | 0.901 | 0.565 | 0.492 | 0.0 | |
| 302142785 | 1032 | unnamed protein product [Vitis vinifera] | 0.845 | 0.731 | 0.513 | 0.0 | |
| 7576178 | 1075 | hypothetical protein [Arabidopsis thalia | 0.905 | 0.752 | 0.496 | 0.0 | |
| 357520291 | 1064 | Tyrosyl-DNA phosphodiesterase [Medicago | 0.902 | 0.757 | 0.490 | 0.0 | |
| 242072904 | 972 | hypothetical protein SORBIDRAFT_06g01512 | 0.724 | 0.665 | 0.435 | 1e-153 |
| >gi|255539987|ref|XP_002511058.1| tyrosyl-DNA phosphodiesterase, putative [Ricinus communis] gi|223550173|gb|EEF51660.1| tyrosyl-DNA phosphodiesterase, putative [Ricinus communis] | Back alignment and taxonomy information |
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Score = 907 bits (2344), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 492/904 (54%), Positives = 621/904 (68%), Gaps = 70/904 (7%)
Query: 14 NKRSGENYLPSSISSPRGKSIIVSKTAVVRLQILHLPLVSTATGSPVDSLTLEPDRPYSI 73
+K+ LP+S K ++K+A + LQ L +PL+S ATGSP+DS+ LEPDRPY+I
Sbjct: 23 DKKDNNPLLPTSTCK---KPKQINKSAFIHLQSLDVPLISPATGSPLDSICLEPDRPYTI 79
Query: 74 GRASIN--CDFTFDNRLVSRQHCQILFDSSERKIYVLDGTFLLPAFSS--VVNEFRKK-R 128
GR+S + CDF F +R VS+QHCQILFDS RK+Y+LDG LL + SS VV+EFRK+ R
Sbjct: 80 GRSSTDPDCDFVFSDRRVSKQHCQILFDSVNRKVYILDGILLLHSISSIRVVSEFRKRLR 139
Query: 129 DKSLEDEEEDEGFS--RVMVSLNGVFVNGIRLKSGIVRELNAGDEVLFVCRDESLCRLQT 186
+ + EE EGF R+ S+NGVF+NGIR+K GIVREL GDEVLFVC +E LC L
Sbjct: 140 NYDQLEGEEKEGFECLRIRFSMNGVFINGIRVKRGIVRELCTGDEVLFVCGNEGLCNLGV 199
Query: 187 RIGFLILGIIFKEEVV-------LKRPRLVGTMASS-GHSQGSVSSGTRSKRVFALREND 238
RIGFLI G++FKEEVV L RP L+GT + S GHSQGSVSSG+R+KRVFA+R N+
Sbjct: 200 RIGFLIQGVVFKEEVVIGSNEIQLGRPCLLGTSSMSVGHSQGSVSSGSRTKRVFAVRANE 259
Query: 239 VSNPDSVFPKLKRRDIFGRASFLLSQCRNILNSNDPVSCIQQIANSDMGIMSTYGCFSTK 298
V + F +LK I RA FL+SQCR IL+S DP+S QQ + SD +
Sbjct: 260 VMANEYDFLELKLGGIVKRARFLVSQCRQILHSGDPISYFQQCSLSDF-----------R 308
Query: 299 FPGRSSIDGELKVKKIERISQQERKPCDESIYVGQPGSITFEDERV-----VDLEAEGDP 353
R ++ +L R+ R P + V + + + ++L E
Sbjct: 309 METRDVLNSKLDCGACGRVCDNSRIPVVDGSEVNNAALVFRQAAKCCENSHINLNIE--- 365
Query: 354 VDPCVHNDHLHHKDSVGISNKNATPGVKSKLLNSVD-----RQNATHFGSMDKSKSLGSS 408
+N + + V + S++ +D +++A H + K+ +
Sbjct: 366 -----NNKEIGDMECVSFGGNSMCQKDISEVHFEIDFDYSHKKDAPHLAD-SQMKTQENY 419
Query: 409 CSPPGKKFYLNRLEFMDLTSLNY-DVISLPELLYPVESISRMFIATFTSDILWFMSYCEI 467
C PGKKFYLNRL FM+ S ++ +V+SLPELL+P+E+I R+FIATFTSDILWF+SYCEI
Sbjct: 420 CQLPGKKFYLNRLHFMEHGSFSHQNVVSLPELLHPIENIMRIFIATFTSDILWFLSYCEI 479
Query: 468 PSHLPVTIACHNTERCWSTSADKRTSVPYPNFPNLVLVFPPFPESVAFGENCKKQGIACH 527
PSHLPVTIACHNTERCWS++ DKR S+PY NFPNL +VFPPFPE++AFG + ++QGIACH
Sbjct: 480 PSHLPVTIACHNTERCWSSNPDKRISMPYSNFPNLSVVFPPFPEAIAFGNDRRRQGIACH 539
Query: 528 HPKLFVLQREDSIRVIVTSANLGAKQWNAVTNTVWWQDFPRRCAPDYLSLFVQTPVEEIN 587
HPKL VLQRE+SIRVI+TSANL QW+ VTNT+WWQDFPRR PD SLF + EI+
Sbjct: 540 HPKLLVLQRENSIRVIITSANLVPNQWHNVTNTIWWQDFPRRSTPDLSSLFTRVSDGEIS 599
Query: 588 QDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVASVPGIHSYRNPNLS 647
QDSRSDF AQLA F+ASLVIDVPSQAHW+VELTKY+F A G+LVAS+PGIHS P
Sbjct: 600 QDSRSDFAAQLAGFIASLVIDVPSQAHWVVELTKYNFDGALGYLVASIPGIHSRGTPYAC 659
Query: 648 ESTYSKPVDHGAIWSSDGKFLGSVETSVVGLSHLFRTAADSNGTQIKKLAAFLGK-SFSA 706
+ A+ S D KFLGSVE SVVGLSHLF T+ D+NG +KKLAAFLG+ +A
Sbjct: 660 QY---------AMKSIDVKFLGSVEASVVGLSHLFHTSTDTNGALLKKLAAFLGRFPENA 710
Query: 707 HGMLKILLRRNTNVPADANAVSVLVPNPDELSDGDCIQLGFMPRDIAKWVSPLWDIGFIR 766
+GM +I+LRRNTNVPAD NAVS+L+PNPD+ S GDC+QLGF+PR +AKWVSPLWD GF +
Sbjct: 711 YGMSEIILRRNTNVPADVNAVSILIPNPDKFS-GDCVQLGFLPRYVAKWVSPLWDSGFFK 769
Query: 767 FSGFISRDEVLAAALEGISKKVQLILHVSQGPKFSDISKMMQIEHVVALSSLIASIQRCR 826
FSG+I E L AA G + GP F DI KMM +HV+A+ SL+ASIQRC
Sbjct: 770 FSGYIHPKEALEAASGGNDMR---------GPCFPDIMKMMLPQHVIAVCSLVASIQRCT 820
Query: 827 GLWRLQEVLGQYRWPELQESDFSY-GSSSIGSINAQFLAAFAAASGKKSLRFYDSEESDP 885
GLWRLQEVL QY+WPE+++SDF Y SS SINAQFL+AF+AA+GK+SL+ +DSEESDP
Sbjct: 821 GLWRLQEVLDQYKWPEVEQSDFIYGSSSIGSSINAQFLSAFSAAAGKRSLQLFDSEESDP 880
Query: 886 EVKC 889
E C
Sbjct: 881 EWGC 884
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Source: Ricinus communis Species: Ricinus communis Genus: Ricinus Family: Euphorbiaceae Order: Malpighiales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|224119906|ref|XP_002318192.1| predicted protein [Populus trichocarpa] gi|222858865|gb|EEE96412.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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| >gi|359493967|ref|XP_002283806.2| PREDICTED: uncharacterized protein LOC100243589 [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|297806769|ref|XP_002871268.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297317105|gb|EFH47527.1| predicted protein [Arabidopsis lyrata subsp. lyrata] | Back alignment and taxonomy information |
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| >gi|42567721|ref|NP_196357.2| forkhead-associated domainand FHA domain-containing protein [Arabidopsis thaliana] gi|30102672|gb|AAP21254.1| At5g07400 [Arabidopsis thaliana] gi|110743660|dbj|BAE99667.1| hypothetical protein [Arabidopsis thaliana] gi|332003770|gb|AED91153.1| forkhead-associated domainand FHA domain-containing protein [Arabidopsis thaliana] | Back alignment and taxonomy information |
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| >gi|147770909|emb|CAN67540.1| hypothetical protein VITISV_012382 [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|302142785|emb|CBI20080.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|7576178|emb|CAB87929.1| hypothetical protein [Arabidopsis thaliana] | Back alignment and taxonomy information |
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| >gi|357520291|ref|XP_003630434.1| Tyrosyl-DNA phosphodiesterase [Medicago truncatula] gi|355524456|gb|AET04910.1| Tyrosyl-DNA phosphodiesterase [Medicago truncatula] | Back alignment and taxonomy information |
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| >gi|242072904|ref|XP_002446388.1| hypothetical protein SORBIDRAFT_06g015125 [Sorghum bicolor] gi|241937571|gb|EES10716.1| hypothetical protein SORBIDRAFT_06g015125 [Sorghum bicolor] | Back alignment and taxonomy information |
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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 | 893 | ||||||
| TAIR|locus:2183319 | 1084 | AT5G07400 [Arabidopsis thalian | 0.716 | 0.590 | 0.506 | 7.5e-160 | |
| UNIPROTKB|G4N013 | 555 | MGG_06176 "Uncharacterized pro | 0.135 | 0.218 | 0.301 | 2.7e-05 | |
| TAIR|locus:2150931 | 605 | TDP1 "tyrosyl-DNA phosphodiest | 0.124 | 0.183 | 0.303 | 0.00032 |
| TAIR|locus:2183319 AT5G07400 [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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Score = 1557 (553.2 bits), Expect = 7.5e-160, P = 7.5e-160
Identities = 339/669 (50%), Positives = 433/669 (64%)
Query: 227 RSKRVFALRENDVSNPDSVFPKLKRRDIFGRASFLLSQCRNILNSNDPVSCIQQIANSDM 286
RSKRVFA EN++++P S F K + R + L+S CR+IL S+DP+SC++ S
Sbjct: 189 RSKRVFAPMENEINSPVSGFYPPKAVGVVERVNSLVSYCRHILKSDDPLSCLRLSIISHS 248
Query: 287 GIMSTYGCFSTKFPGRSSIDGELK-VKKIERISQQERKPCDESIYVGQPGSITFEDER-- 343
G C S F + I + + VK E + + +P S D R
Sbjct: 249 GKECLSCCTSKMFRSKVGIVADDRGVKSAEINHDMGHGLSGLRLSIERPNSNLHVDRRLG 308
Query: 344 VVDLEAEGDPVDPCVHNDHLHHKDSVGISNKNATPGVKSKLLNSVDRQNATHFGSMDKSK 403
V DL +E + N+ IS+K T L ++ N ++K K
Sbjct: 309 VSDLISE-------IENEFAA---CTFISDKTRT-----MLPFDGEKVNTPDITCINKEK 353
Query: 404 SLGSSCSPPGKKFYLNRLEFMDLTSLNYD-VISLPELLYPVESISRMFIATFTSDILWFM 462
S SS PGK FYLNRL++++ +S V+SLPELL+PVESI ++F+ATFTSDILWF+
Sbjct: 354 SYQSSLQAPGKNFYLNRLQYIEQSSTGCQRVVSLPELLHPVESIQQIFLATFTSDILWFL 413
Query: 463 SYCEIPSHLPVTIACHNTERCWSTSADKRTSVPYXXXXXXXXXXXXXXESVAFGENCKKQ 522
+ C+ P HLPVTIACHN ERCWS++ D RT+VP E +AFG++ +
Sbjct: 414 TCCDTPRHLPVTIACHNAERCWSSNPDARTAVPLPNYPNVTMVYPPFPEEIAFGKDRTNR 473
Query: 523 GIACHHPKLFVLQREDSIRVIVTSANLGAKQWNAVTNTVWWQDFPRRCAPDYLSLFVQTP 582
GIACHHPKLF+LQR+DSIRVI+TSANL A+QWN VTNTVWWQDFPRR PD LSLF
Sbjct: 474 GIACHHPKLFILQRKDSIRVIITSANLVARQWNDVTNTVWWQDFPRRADPDLLSLFGHCQ 533
Query: 583 VEEINQDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVASVPGIHSYR 642
E N + DF AQLA F ASL+ DVPSQAHWI+E TKY+F +AGHLVASVPGIHSY+
Sbjct: 534 -RETNHGLKPDFCAQLAGFAASLLTDVPSQAHWILEFTKYNFEHSAGHLVASVPGIHSYK 592
Query: 643 NPNLSESTYSKPVDHGAIWSSDGKFLGSVETSVVGLSHLFRTAADSNGTQIKKLAAFLGK 702
L+ES S I+S + FLGSVE SVVGLS+LFR+A DS G Q+K+LA+++ +
Sbjct: 593 PSYLTESGCSN-----TIFSEE--FLGSVEASVVGLSYLFRSANDSTGAQLKRLASYIRR 645
Query: 703 SF-SAHGMLKILLRRNTNVPADANAVSVLVPNPDELSDGDCIQLGFMPRDIAKWVSPLWD 761
+ ++ GML+++LRRNTNVPAD NAV VLVPNPD+ S D +QLGF+PR IAKWVSPLWD
Sbjct: 646 TRENSLGMLELVLRRNTNVPADPNAVRVLVPNPDDDSRDDFVQLGFLPRSIAKWVSPLWD 705
Query: 762 IGFIRFSGFISRDEVLAAALEGISKKVQLILHVSQGPKFSDISKMMQIEHVVALSSLIAS 821
IGF +F G++ RDEVL AA ++KVQL+LHV QG SD+SK++Q HVVAL SLIAS
Sbjct: 706 IGFFKFVGYVYRDEVLGAASCRSNEKVQLVLHVLQGVSISDMSKLIQPYHVVALCSLIAS 765
Query: 822 IQRCRGLWRLQEVLGQYRWPELQESDFXXXXXXXX-XXNXXXXXXXXXXSGKKSLRFYDS 880
+QRC G+WRLQEVLG+Y+WPE QESDF +GKK+L+ +DS
Sbjct: 766 LQRCTGIWRLQEVLGRYKWPESQESDFVYSASSIGGSATTGFQADFSSAAGKKALQHFDS 825
Query: 881 EESDPEVKC 889
+ESDPE C
Sbjct: 826 QESDPEWGC 834
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| UNIPROTKB|G4N013 MGG_06176 "Uncharacterized protein" [Magnaporthe oryzae 70-15 (taxid:242507)] | Back alignment and assigned GO terms |
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| TAIR|locus:2150931 TDP1 "tyrosyl-DNA phosphodiesterase 1" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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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 |
| Query | 893 | |||
| cd09122 | 145 | cd09122, PLDc_Tdp1_1, Catalytic domain, repeat 1, | 5e-32 | |
| pfam06087 | 433 | pfam06087, Tyr-DNA_phospho, Tyrosyl-DNA phosphodie | 2e-14 | |
| cd00060 | 102 | cd00060, FHA, Forkhead associated domain (FHA); fo | 5e-14 | |
| pfam08797 | 95 | pfam08797, HIRAN, HIRAN domain | 3e-11 | |
| cd09194 | 166 | cd09194, PLDc_yTdp1_1, Catalytic domain, repeat 1, | 3e-08 | |
| pfam00498 | 67 | pfam00498, FHA, FHA domain | 3e-08 | |
| smart00910 | 90 | smart00910, HIRAN, The HIRAN protein (HIP116, Rad5 | 9e-08 | |
| cd09193 | 169 | cd09193, PLDc_mTdp1_1, Catalytic domain, repeat 1, | 8e-06 | |
| smart00240 | 52 | smart00240, FHA, Forkhead associated domain | 1e-05 |
| >gnl|CDD|197221 cd09122, PLDc_Tdp1_1, Catalytic domain, repeat 1, of Tyrosyl-DNA phosphodiesterase | Back alignment and domain information |
|---|
Score = 121 bits (305), Expect = 5e-32
Identities = 43/168 (25%), Positives = 67/168 (39%), Gaps = 24/168 (14%)
Query: 434 ISLPELLYPVESISRMFIATFTSDILWFMSYCEIPSHLPVTIACHNTERCWSTSADKRTS 493
+SL +LL + + ++++ DI W +S + +PVTI +
Sbjct: 1 LSLKDLLGG-DDLESALLSSYMLDIDWLLSQLPLLKIVPVTIVHGEKKEATKR---ASMI 56
Query: 494 VPYPNFPNLVLVFPPFPESVAFGENCKKQGIACHHPKLFVLQREDSIRVIVTSANLGAKQ 553
PN LV+PP P G HH KL +L+ +RV++ +ANL
Sbjct: 57 AQLNGLPNWTLVYPPLP-----------GGYGTHHSKLILLKYPTGLRVVIPTANLTPYD 105
Query: 554 WNAVTNTVWWQDFPRRCAPDYLSLFVQTPVEEINQDSRSDFTAQLASF 601
W + +W QDFP + S N ++ SDF L F
Sbjct: 106 WGEKSQGIWVQDFPLKNKRSASSG---------NNENPSDFKEDLIRF 144
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Catalytic domain, repeat 1, of Tyrosyl-DNA phosphodiesterase (Tdp1, EC 3.1.4.-), which exists in eukaryotes but not in prokaryotes. Tdp1 acts as an important DNA repair enzyme that removes stalled topoisomerase I-DNA complexes by catalyzing the hydrolysis of a phosphodiester bond between a tyrosine side chain and a DNA 3'-phosphate. It is a monomeric protein that contains two copies of a variant HKD motif (H-x-K-x(4)-D, where x represents any amino acid residue), which consists of the highly conserved histidine and lysine residues, but lacks the aspartate residue that is well conserved in other phospholipase D (PLD, EC 3.1.4.4) enzymes. Thus, this family represents a distinct class within the PLD superfamily. Like other PLD enzymes, Tdp1 may utilize a common two-step general acid/base catalytic mechanism, involving a DNA-enzyme intermediate to cleave phosphodiester bonds. A single active site involved in phosphatidyl group transfer would be formed by the two variant HKD motifs from the N- and C-terminal domains in a pseudodimeric way. Length = 145 |
| >gnl|CDD|218888 pfam06087, Tyr-DNA_phospho, Tyrosyl-DNA phosphodiesterase | Back alignment and domain information |
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| >gnl|CDD|238017 cd00060, FHA, Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins | Back alignment and domain information |
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| >gnl|CDD|220020 pfam08797, HIRAN, HIRAN domain | Back alignment and domain information |
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| >gnl|CDD|197290 cd09194, PLDc_yTdp1_1, Catalytic domain, repeat 1, of yeast tyrosyl-DNA phosphodiesterase | Back alignment and domain information |
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| >gnl|CDD|215951 pfam00498, FHA, FHA domain | Back alignment and domain information |
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| >gnl|CDD|214906 smart00910, HIRAN, The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p | Back alignment and domain information |
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| >gnl|CDD|197289 cd09193, PLDc_mTdp1_1, Catalytic domain, repeat 1, of metazoan tyrosyl-DNA phosphodiesterase | Back alignment and domain information |
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| >gnl|CDD|214578 smart00240, FHA, Forkhead associated 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 | 893 | |||
| PF06087 | 443 | Tyr-DNA_phospho: Tyrosyl-DNA phosphodiesterase; In | 100.0 | |
| KOG2031 | 519 | consensus Tyrosyl-DNA phosphodiesterase [Replicati | 100.0 | |
| PF00498 | 68 | FHA: FHA domain; InterPro: IPR000253 The forkhead- | 99.47 | |
| cd00060 | 102 | FHA Forkhead associated domain (FHA); found in euk | 99.11 | |
| TIGR03354 | 396 | VI_FHA type VI secretion system FHA domain protein | 98.96 | |
| KOG1882 | 293 | consensus Transcriptional regulator SNIP1, contain | 98.95 | |
| COG1716 | 191 | FOG: FHA domain [Signal transduction mechanisms] | 98.94 | |
| PLN02927 | 668 | antheraxanthin epoxidase/zeaxanthin epoxidase | 98.7 | |
| smart00240 | 52 | FHA Forkhead associated domain. Found in eukaryoti | 98.68 | |
| COG3456 | 430 | Predicted component of the type VI protein secreti | 98.38 | |
| KOG1881 | 793 | consensus Anion exchanger adaptor protein Kanadapt | 97.9 | |
| KOG0615 | 475 | consensus Serine/threonine protein kinase Chk2 and | 97.76 | |
| KOG1880 | 337 | consensus Nuclear inhibitor of phosphatase-1 [Gene | 97.17 | |
| TIGR02500 | 410 | type_III_yscD type III secretion apparatus protein | 95.7 | |
| PF06087 | 443 | Tyr-DNA_phospho: Tyrosyl-DNA phosphodiesterase; In | 95.67 | |
| TIGR01663 | 526 | PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase | 91.51 | |
| KOG0245 | 1221 | consensus Kinesin-like protein [Cytoskeleton] | 91.33 | |
| PF08797 | 107 | HIRAN: HIRAN domain; InterPro: IPR014905 The HIRAN | 87.15 | |
| KOG2293 | 547 | consensus Daxx-interacting protein MSP58/p78, cont | 80.22 |
| >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 |
|---|
Probab=100.00 E-value=5.5e-54 Score=483.34 Aligned_cols=321 Identities=24% Similarity=0.383 Sum_probs=209.1
Q ss_pred CcEEEEEeccCCCC-CCCCCccccccccCCchhHhHHHHhhcccchhhhhhhcCCC-C-CCcEEEEEccCccccccCcCC
Q 002685 414 KKFYLNRLEFMDLT-SLNYDVISLPELLYPVESISRMFIATFTSDILWFMSYCEIP-S-HLPVTIACHNTERCWSTSADK 490 (893)
Q Consensus 414 spFyLnrI~~lp~~-~~n~dtISL~DLLgP~~~L~~allfnF~~DidWLLs~f~~~-r-~lpVtIVvh~~~~~wk~e~~~ 490 (893)
.+|++|++.+++.. ..+.++|||+|||++ ++|++||+||||+|++|||++|+.. + .+||+++.+...... ..
T Consensus 2 ~~~~~~~i~~~~~~~~~~~~~itl~dil~~-~~l~~~~~~nf~~D~~wll~~~~~~~~~~~~i~~v~g~~~~~~----~~ 76 (443)
T PF06087_consen 2 FKLYLTTIYDLPPRSNNNPDTITLEDILGD-PDLEEALLFNFMIDLDWLLSQFPPSTRKNIPITIVHGTKDPPD----KR 76 (443)
T ss_dssp CEEEEBTTTTS-GG--GTTTEE-HHHHCSG-TTEEEEEEE-SSEEHHHHHCCS-CCGTTCEEEEEECTSEEHHH----HH
T ss_pred cceEEeeecCCCccccCCCCcEeHHHHcCC-ccHHHHHhhhheeeHHHHHHhCCHhhcccceEEEEeCCCcchh----hh
Confidence 36899999999987 347999999999997 6899999999999999999999842 2 468888644222211 11
Q ss_pred cCCCCCCCCCCeEEEcCCCCccccccccccCCCcccccceEEEEEeCCc-EEEEEeCCCCCHHhhccccCeEEeecC-CC
Q 002685 491 RTSVPYPNFPNLVLVFPPFPESVAFGENCKKQGIACHHPKLFVLQREDS-IRVIVTSANLGAKQWNAVTNTVWWQDF-PR 568 (893)
Q Consensus 491 rl~~~~~~~pNv~li~PpMPe~I~FG~d~~~~g~GtHHSKMmIL~Y~D~-LRVVI~TANLi~~DW~~~TQ~VWiQDF-Pr 568 (893)
.+......++|+++|.|+|| ++|| |||||||||+|+|+ ||||||||||++.||+.+||+||+||| |+
T Consensus 77 ~~~~~~~~~~nv~~~~~~mp--~~~g---------~hHsKm~ll~y~~~~lRVvI~TaNl~~~Dw~~~~q~vw~~d~lP~ 145 (443)
T PF06087_consen 77 EIRQQAAIYPNVKLIFPPMP--IPFG---------THHSKMMLLFYEDGSLRVVIPTANLTPYDWNNKTQGVWIQDFLPR 145 (443)
T ss_dssp HHHHHHCCHTTEEEEEE-----STT-----------B--EEEEEEETTCEEEEEEESS-BSHHHHCSSB-EEEE---E-B
T ss_pred hhhhhcccCCCeEEEccCCC--cccc---------cccceeEEEEeCCccEEEEEECCCCCHHHHCCcceeEEEecccCc
Confidence 11112347899999999999 4788 99999999999988 999999999999999999999999999 99
Q ss_pred CCCCCccccccCCCcccccCCCCCcHHHHHHHHHHHhccCCCchhHHHHhhcccccccccEEEEEecCCcccCCCCCCcC
Q 002685 569 RCAPDYLSLFVQTPVEEINQDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVASVPGIHSYRNPNLSE 648 (893)
Q Consensus 569 l~~~~~~~~~~~~~~~e~~~~s~sdFk~dL~~YL~sy~~~~Ps~~~~i~~L~kyDFSsakv~LVaSVPG~H~g~~~~~~~ 648 (893)
++..... ....+++|+.+|++||.+|+. +....|++.|++||||+++|+||+||||+|. .+.
T Consensus 146 ~~~~~~~-----------~~~~~~~F~~dL~~yL~~y~~--~~~~~~~~~l~~yDFS~~~v~lV~SvPG~h~-~~~---- 207 (443)
T PF06087_consen 146 LPSSKSS-----------SEESGSRFKKDLVAYLNSYGK--SPLDKLIERLRKYDFSSARVHLVASVPGKHK-EDK---- 207 (443)
T ss_dssp -ECTS-S-------------SSTTHHHHHHHHHHHTT----HHHHHCHHHHHTEE-CCGTSEEEEE-SECCC-GGG----
T ss_pred ccccccc-----------cCCCCCchHHHHHHHHHHhCC--cchhHHHHHHHhcCCccCceEEEeccCcccc-CCC----
Confidence 9752111 135789999999999999974 3366899999999999999999999999999 222
Q ss_pred CcccCCCCCCcccccccccccceeccc----cCcceeEEeecccccchhhhhH-HHhhhhh-hccchhhh--hh-----c
Q 002685 649 STYSKPVDHGAIWSSDGKFLGSVETSV----VGLSHLFRTAADSNGTQIKKLA-AFLGKSF-SAHGMLKI--LL-----R 715 (893)
Q Consensus 649 ~~~G~~rl~n~~~~~~~s~LgSv~~s~----~gls~l~~q~~DSs~asLg~~~-~~L~k~~-~~~~~~E~--v~-----~ 715 (893)
..||+++| .+.|....... ....+++.|+ ||+++++... +||...+ ..+..... .. .
T Consensus 208 ~~~G~~~L--------~~~L~~~~~~~~~~~~~~~~~~~Q~--SSIGs~~~~~~~Wl~~~f~~sl~~~~~~~~~~~~~~~ 277 (443)
T PF06087_consen 208 DKWGHMRL--------RKVLKRLGLPSNKDKDKESDIVCQF--SSIGSLGSSPKDWLTSEFLTSLYPASFSSPSTPSSKS 277 (443)
T ss_dssp GGSHHHHH--------HHHHHHCCTT---TTCCCCEEEEE---SBB---SSSTTTTTTTHHHHHCCHHCCT------HHH
T ss_pred cchhHHHH--------HHHHHhccccccCCcCCCCeEEEEc--ccccccCcchhhhHHHHHHHHHhhccccccccccccc
Confidence 26997655 44444433332 1246788888 8898887555 3765433 22221100 00 0
Q ss_pred cCCCCCCCCCCeEEEecCCCccc-------CCce-----------eeccCcchhcccccCCCCCcccceeecccchHHHH
Q 002685 716 RNTNVPADANAVSVLVPNPDELS-------DGDC-----------IQLGFMPRDIAKWVSPLWDIGFIRFSGFISRDEVL 777 (893)
Q Consensus 716 sn~n~P~~~~~~~IIfPT~deVr-------sg~s-----------kQL~fL~~~l~kW~s~~~D~~~~~f~g~~~p~~~l 777 (893)
.....+...++++|||||.++|+ +|++ .+..||+++||+|.++..
T Consensus 278 ~~~~~~~~~~~~~IvfPT~e~Vr~S~~G~~~ggsi~~~~~~~~~~~~~~~l~~~~~~w~~~~~----------------- 340 (443)
T PF06087_consen 278 SSSQQENNRPPLKIVFPTVEEVRNSPEGYNGGGSIPFKYKWWEPNFPQEWLRPYFHKWYASDD----------------- 340 (443)
T ss_dssp HHHHCCHHTEEEEEE--BCHHHCTSTTGGGGGGGSB--HC--GHHCCHHHHHHCCE-EEEC-T-----------------
T ss_pred cccccccCCCCceEECCCHHHHhhCccCCcCceeEEecchhccccchHHHHHHHHhhhccccc-----------------
Confidence 00011123578999999999999 4444 223689999999998833
Q ss_pred HHHhhcccceeEEEEeeccC
Q 002685 778 AAALEGISKKVQLILHVSQG 797 (893)
Q Consensus 778 ~~a~g~~~~~~ql~~~~~~~ 797 (893)
..||..+.+|+|+|++-.
T Consensus 341 --~~~R~~~~pH~K~y~~~~ 358 (443)
T PF06087_consen 341 --PSGRSRAPPHIKTYMRFS 358 (443)
T ss_dssp --GCTTTTS-B--EEEEEEE
T ss_pred --cCCCCCcCcceEEEEEec
Confidence 678999999999999765
|
Tyrosyl-DNA phosphodiesterase can hydrolyse the bond between topoisomerase I and DNA [].; GO: 0008081 phosphoric diester hydrolase activity, 0006281 DNA repair, 0005634 nucleus; PDB: 3SQ8_A 3SQ5_B 3SQ3_A 1Q32_D 3SQ7_A 1QZQ_A 1RGU_B 1RG2_B 1MU9_B 1RFI_B .... |
| >KOG2031 consensus Tyrosyl-DNA phosphodiesterase [Replication, recombination and repair] | 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 |
|---|
| >cd00060 FHA Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins | Back alignment and domain information |
|---|
| >TIGR03354 VI_FHA type VI secretion system FHA domain protein | Back alignment and domain information |
|---|
| >KOG1882 consensus Transcriptional regulator SNIP1, contains FHA domain [Signal transduction mechanisms] | Back alignment and domain information |
|---|
| >COG1716 FOG: FHA domain [Signal transduction mechanisms] | 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 |
|---|
| >COG3456 Predicted component of the type VI protein secretion system, contains a FHA domain [Intracellular trafficking, secretion, and vesicular transport; Signal transduction mechanisms] | Back alignment and domain information |
|---|
| >KOG1881 consensus Anion exchanger adaptor protein Kanadaptin, contains FHA domain [General function prediction only] | Back alignment and domain information |
|---|
| >KOG0615 consensus Serine/threonine protein kinase Chk2 and related proteins [Cell cycle control, cell division, chromosome partitioning] | Back alignment and domain information |
|---|
| >KOG1880 consensus Nuclear inhibitor of phosphatase-1 [General function prediction only] | Back alignment and domain information |
|---|
| >TIGR02500 type_III_yscD type III secretion apparatus protein, YscD/HrpQ family | Back alignment and domain information |
|---|
| >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 |
|---|
| >TIGR01663 PNK-3'Pase polynucleotide 5'-kinase 3'-phosphatase | Back alignment and domain information |
|---|
| >KOG0245 consensus Kinesin-like protein [Cytoskeleton] | Back alignment and domain information |
|---|
| >PF08797 HIRAN: HIRAN domain; InterPro: IPR014905 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p | Back alignment and domain information |
|---|
| >KOG2293 consensus Daxx-interacting protein MSP58/p78, contains FHA domain [Transcription; Signal transduction mechanisms] | Back alignment and domain information |
|---|
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
| ID | Alignment Graph | Length |
Definition |
E-value | |
| Query | 893 | ||||
| 1qzq_A | 483 | Human Tyrosyl Dna Phosphodiesterase Length = 483 | 6e-06 | ||
| 1mu7_A | 485 | Crystal Structure Of A Human Tyrosyl-dna Phosphodie | 9e-06 | ||
| 1jy1_A | 464 | Crystal Structure Of Human Tyrosyl-Dna Phosphodiest | 2e-04 |
| >pdb|1QZQ|A Chain A, Human Tyrosyl Dna Phosphodiesterase Length = 483 | Back alignment and structure |
|
| >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
| >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 = 140 bits (353), Expect = 1e-35
Identities = 59/370 (15%), Positives = 121/370 (32%), Gaps = 53/370 (14%)
Query: 400 DKSKSLGSSCSPPGKKFYLNRLEFMDLTSLNYDVISLPELLYPVE-SISRMFIATFTSDI 458
+ +P +FYL R+ + N + + ++L P+ ++ + D+
Sbjct: 8 QDIWDMLDKGNPF--QFYLTRVSGVKPKY-NSGALHIKDILSPLFGTLVSSAQFNYCFDV 64
Query: 459 LWFMS-YCEIPSHLPVTIACHNTERCWSTSADKRTSVPYPNFPNLVLVFPPFPESVAFGE 517
W + Y P+ + H +R + + N+ L AFG
Sbjct: 65 DWLVKQYPPEFRKKPILLV-HGDKREAKAHLHAQ----AKPYENISLCQAKLDI--AFG- 116
Query: 518 NCKKQGIACHHPKLFVLQREDSIRVIVTSANLGAKQWNAVTNTVWWQDFPRRCAPDYLSL 577
HH K+ +L E+ +RV++ ++NL W+ T +W R A
Sbjct: 117 --------THHTKMMLLLYEEGLRVVIHTSNLIHADWHQKTQGIWLSPLYPRIADG---- 164
Query: 578 FVQTPVEEINQDSRSDFTAQLASFMASLVIDVPSQAHWIVELTKYDFASAAGHLVASVPG 637
+ +S + F A L S++ + + PS WI + K+D + +L+ S PG
Sbjct: 165 ------THKSGESPTHFKANLISYLTAY--NAPSLKEWIDVIHKHDLSETNVYLIGSTPG 216
Query: 638 IHSYRNPNLSESTYSKPVDHGAIWSSDGKFLGSVETSVVGLSHLFRTAADSNGTQIKKLA 697
+ K + S V + L + K L
Sbjct: 217 RFQGSQKDNWGHFRLKKLLKDHASSMPNAESWPVVGQFSSVGSL-------GADESKWLC 269
Query: 698 AFLGKSFSAHGMLKILLRRNTNVPADANAVSVLVPNPDELSD-------GDCIQLGFMPR 750
+ +S G + + + + ++ P+ + + G +
Sbjct: 270 SEFKESMLTLG------KESKTPGKSSVPLYLIYPSVENVRTSLEGYPAGGSLPYSIQTA 323
Query: 751 DIAKWVSPLW 760
+ W+ +
Sbjct: 324 EKQNWLHSYF 333
|
| >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 |
|---|
| >1lgp_A Cell cycle checkpoint protein CHFR; FHA, tungstate, domain swapping; 2.00A {Homo sapiens} SCOP: b.26.1.2 PDB: 1lgq_A Length = 116 | Back alignment and structure |
|---|
| >2jpe_A Nuclear inhibitor of protein phosphatase 1; FHA domain, NIPP1, mRNA splicing, transcription; NMR {Mus musculus} Length = 140 | 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 Length = 118 | 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} Length = 106 | 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 Length = 138 | 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} Length = 131 | Back alignment and structure |
|---|
| >1qu5_A Protein kinase SPK1; FHA, RAD53, transferase; NMR {Saccharomyces cerevisiae} SCOP: b.26.1.2 Length = 182 | 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 Length = 145 | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >2jqj_A DNA damage response protein kinase DUN1; protein/phosphopeptide, cell cycle; HET: DNA; NMR {Saccharomyces cerevisiae} PDB: 2jql_A* Length = 151 | Back alignment and structure |
|---|
| >3po8_A RV0020C protein, putative uncharacterized protein TB39.8; FHA domain, synthetic peptide, peptide binding protein; 1.50A {Mycobacterium tuberculosis} PDB: 3poa_A* 2lc1_A Length = 100 | 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 |
|---|
| >2xt9_B Putative signal transduction protein GARA; lyase-signaling protein complex, KDH, KGD; HET: TPP; 2.20A {Mycobacterium smegmatis} Length = 115 | 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} Length = 158 | 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 |
|---|
| >2kfu_A RV1827 PThr 22; FHA domain, phosphorylation, intramolecular interaction, glutamate metabolism, phosphoprotein, protein binding; HET: TPO; NMR {Mycobacterium tuberculosis} PDB: 2kkl_A Length = 162 | 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 Length = 149 | 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 Length = 143 | 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 Length = 205 | Back alignment and structure |
|---|
| >2l1i_A HLTF protein; hiran domain, transcription factor, DNA repair, transc regulation, transcription, structural genomics, structural consortium, SGC; NMR {Homo sapiens} Length = 122 | 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 Length = 419 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
No hit with probability above 80.00
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 |
| 893 | ||||
| d1q32a1 | 215 | d.136.1.3 (A:79-293) Tyrosyl-DNA phosphodiesterase | 2e-47 | |
| d1jy1a1 | 206 | d.136.1.3 (A:145-350) Tyrosyl-DNA phosphodiesteras | 7e-32 | |
| d1dmza_ | 158 | b.26.1.2 (A:) Phosphotyrosine binding domain of Ra | 5e-10 | |
| d1uhta_ | 118 | b.26.1.2 (A:) FHA domain containing protein At4G14 | 7e-09 | |
| d1g6ga_ | 127 | b.26.1.2 (A:) Phosphotyrosine binding domain of Ra | 3e-05 | |
| d1jy1a2 | 258 | d.136.1.3 (A:351-608) Tyrosyl-DNA phosphodiesteras | 4e-04 | |
| d1mzka_ | 122 | b.26.1.2 (A:) Kinase associated protein phosphatas | 4e-04 | |
| d2piea1 | 127 | b.26.1.2 (A:13-139) Ubiquitin ligase protein RNF8 | 5e-04 | |
| d1gxca_ | 116 | b.26.1.2 (A:) Chk2 kinase {Human (Homo sapiens) [T | 0.002 | |
| d2ff4a3 | 99 | b.26.1.2 (A:284-382) Probable regulatory protein E | 0.004 |
| >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 |
|---|
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: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Score = 166 bits (421), Expect = 2e-47
Identities = 31/237 (13%), Positives = 68/237 (28%), Gaps = 39/237 (16%)
Query: 413 GKKFYLNRLEFMDL---TSLNYDVISLPELLYPVESISRMFIATFTSDILWFMSYCEIPS 469
G F L + +F + D+I+L ++ E++ R + +F ++ + +
Sbjct: 1 GAVFKLMKSDFYEREDFMGEVEDMITLKDIFGT-ETLKRSILFSFQYELDFLLRQF--HQ 57
Query: 470 HLPVTIACHNTERCWSTSADKRTSVPYPNFPNLVLVFPPFPESVAFGENCKKQGIACHHP 529
++ A + + L+ P F HH
Sbjct: 58 NVENITIVGQKGTIMPIEARAMDATLAVILKKVKLIEITMP---PFA---------SHHT 105
Query: 530 KLFVLQRED-SIRVIVTSANLGAKQWNAVTNTVWWQDFPRRCAPDYLSLFVQTPVEEINQ 588
KL + ++ ++ + S N + + N W + F
Sbjct: 106 KLIINFYDNGECKIFLPSNNFTSMETNLPQQVCWCSPLLKIGKEGLPVPF---------- 155
Query: 589 DSRSDFTAQLASFMASLVIDVPSQAHWIVE-LTKYDFASAAG-HLVASVPGIHSYRN 643
+ L S+ + I + + + +FA + V S P
Sbjct: 156 --KRSLIEYLNSY------HLKDIDELITKSVEEVNFAPLSELEFVYSTPSKFQSSG 204
|
| >d1jy1a1 d.136.1.3 (A:145-350) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 206 | Back information, alignment and structure |
|---|
| >d1dmza_ b.26.1.2 (A:) Phosphotyrosine binding domain of Rad53 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 158 | Back information, alignment and structure |
|---|
| >d1uhta_ b.26.1.2 (A:) FHA domain containing protein At4G14490 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 118 | Back information, alignment and structure |
|---|
| >d1g6ga_ b.26.1.2 (A:) Phosphotyrosine binding domain of Rad53 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 127 | Back information, alignment and structure |
|---|
| >d1jy1a2 d.136.1.3 (A:351-608) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} Length = 258 | Back information, alignment and structure |
|---|
| >d1mzka_ b.26.1.2 (A:) Kinase associated protein phosphatase {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} Length = 122 | Back information, alignment and structure |
|---|
| >d2piea1 b.26.1.2 (A:13-139) Ubiquitin ligase protein RNF8 {Human (Homo sapiens) [TaxId: 9606]} Length = 127 | Back information, alignment and structure |
|---|
| >d1gxca_ b.26.1.2 (A:) Chk2 kinase {Human (Homo sapiens) [TaxId: 9606]} Length = 116 | 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 |
| Query | 893 | |||
| d1q32a1 | 215 | Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast | 100.0 | |
| d1jy1a1 | 206 | Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sa | 100.0 | |
| d1jy1a2 | 258 | Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sa | 99.74 | |
| d1dmza_ | 158 | Phosphotyrosine binding domain of Rad53 {Baker's y | 99.7 | |
| d1uhta_ | 118 | FHA domain containing protein At4G14490 {Thale cre | 99.67 | |
| d1mzka_ | 122 | Kinase associated protein phosphatase {Thale cress | 99.67 | |
| d1lgpa_ | 113 | Cell cycle checkpoint protein Chfr {Human (Homo sa | 99.65 | |
| d1g6ga_ | 127 | Phosphotyrosine binding domain of Rad53 {Baker's y | 99.63 | |
| d1gxca_ | 116 | Chk2 kinase {Human (Homo sapiens) [TaxId: 9606]} | 99.62 | |
| d2piea1 | 127 | Ubiquitin ligase protein RNF8 {Human (Homo sapiens | 99.6 | |
| d2brfa1 | 101 | Polynucleotide kinase 3'-phosphatase {Human (Homo | 99.59 | |
| d2ff4a3 | 99 | Probable regulatory protein EmbR, C-terminal domai | 99.58 | |
| d2affa1 | 98 | Antigen ki-67 {Human (Homo sapiens) [TaxId: 9606]} | 99.46 | |
| d2g1la1 | 102 | Kinesin-like protein kif1c {Human (Homo sapiens) [ | 99.28 | |
| d1wlna1 | 107 | Afadin {Mouse (Mus musculus) [TaxId: 10090]} | 99.18 | |
| d1q32a2 | 237 | Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast | 98.22 | |
| d1jy1a2 | 258 | Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sa | 96.6 | |
| d1mv5a_ | 242 | Multidrug resistance ABC transporter LmrA, C-termi | 85.8 | |
| d1ji0a_ | 240 | Branched chain aminoacid ABC transporter {Thermoto | 82.31 |
| >d1q32a1 d.136.1.3 (A:79-293) Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | 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: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Probab=100.00 E-value=0 Score=373.18 Aligned_cols=199 Identities=16% Similarity=0.243 Sum_probs=161.0
Q ss_pred CCCEEEEEECCCCCCC---CCCCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHCC-CCCCCCEEEEECCCCCCCCCCC
Q ss_conf 9867998815578879---99986233412588412769898630126666632059-9999759999805765444686
Q 002685 413 GKKFYLNRLEFMDLTS---LNYDVISLPELLYPVESISRMFIATFTSDILWFMSYCE-IPSHLPVTIACHNTERCWSTSA 488 (893)
Q Consensus 413 gspF~LtrI~~lp~~~---~n~~tISL~DLLgP~~~L~~ailsnF~iDidWLLs~f~-~~r~lpVtIVvh~~~g~wk~e~ 488 (893)
|+.|+|++...|+.+. .|.|+|+|+|||++ ++|++||+||||+|++|||++|+ ..+.+++++ ..++.|..+.
T Consensus 1 ~~~f~l~~~~~~d~~~~~~~~~d~I~l~evl~~-~~L~~a~l~nF~~Di~wLl~~~~~~~~~~~~v~---~~~~~~~~~~ 76 (215)
T d1q32a1 1 GAVFKLMKSDFYEREDFMGEVEDMITLKDIFGT-ETLKRSILFSFQYELDFLLRQFHQNVENITIVG---QKGTIMPIEA 76 (215)
T ss_dssp CCEEEEECCTTTTCCC-------EECHHHHHCC-TTEEEEEEECSCEEHHHHHTTSCTTCCEEEEEE---ETTCEECCCG
T ss_pred CCCEEEECCCCCCCCCCCCCCCCEEEHHHHCCC-HHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEE---ECCCCCCCCC
T ss_conf 981598426433467655788980455895486-179999988877649899976784446517999---8177454320
Q ss_pred CCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECC-CEEEEEECCCCCHHHHCCCCCEEEEECCC
Q ss_conf 77677788999991999589986412366555788542114099998479-27999928999977431345869965277
Q 002685 489 DKRTSVPYPNFPNLVLVFPPFPESVAFGENCKKQGIACHHPKLFVLQRED-SIRVIVTSANLGAKQWNAVTNTVWWQDFP 567 (893)
Q Consensus 489 ~~rl~~~~~~~pNv~lv~PpLPe~IaFG~d~~~~g~GtHHSKLmIL~y~D-~LRVVI~TANLi~~DW~~~TQ~VWiQDFP 567 (893)
..........++|+++|.|||| +|| |||||||||+|+| ++|||||||||++.||++|||++|+||||
T Consensus 77 ~~~~~~~~~~~~nv~~~~~~mp---~fG---------tHHSKmmiL~y~dg~lRVVI~TANLi~~DW~~~tQ~vW~sp~l 144 (215)
T d1q32a1 77 RAMDATLAVILKKVKLIEITMP---PFA---------SHHTKLIINFYDNGECKIFLPSNNFTSMETNLPQQVCWCSPLL 144 (215)
T ss_dssp GGCCHHHHHHHTTEEEEEECCC---TTC---------CBCCCEEEEEESTTEEEEEEESSCBSHHHHHSSBCEEEECCCE
T ss_pred HHHHHHHHCCCCCEEEEECCCC---CCC---------CCCCEEEEEEECCCCEEEEEECCCCCHHHHCCEEEEEEECCCC
T ss_conf 0204656313786179943689---866---------5531368999359978999955877854646660049967876
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCHHHHH-HHHCCCCCCCC-CEEEEEECCCCCCCCCCC
Q ss_conf 8889996664557983223688978479999999998124998436999-75125346654-189997049956689999
Q 002685 568 RRCAPDYLSLFVQTPVEEINQDSRSDFTAQLASFMASLVIDVPSQAHWI-VELTKYDFASA-AGHLVASVPGIHSYRNPN 645 (893)
Q Consensus 568 rl~~~~~~~~~~~~~~~e~~~~s~sdFk~dL~~YL~sy~~~~ps~~~li-~~L~kyDFSsa-kv~LVaSVPG~H~g~~~~ 645 (893)
.+.. .+++++|+.||++||++|+. +.+..|+ +.|++||||++ +|+||+||||+|.|.+..
T Consensus 145 ~~~s----------------~~~~~~F~~dL~~yL~~y~~--~~~~~~i~~~l~~~Dfs~~~~v~lV~SvPG~~~g~~~~ 206 (215)
T d1q32a1 145 KIGK----------------EGLPVPFKRSLIEYLNSYHL--KDIDELITKSVEEVNFAPLSELEFVYSTPSKFQSSGLL 206 (215)
T ss_dssp EECC----------------CSSCCHHHHHHHHHHHTTCC--HHHHHHTHHHHHTEECGGGTTCEEEEECCCTTSCCHHH
T ss_pred CCCC----------------CCCCCCHHHHHHHHHHHCCC--CHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCCCCHH
T ss_conf 6789----------------98888368999999998397--40158999999876966678889999479674077646
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| >d1jy1a1 d.136.1.3 (A:145-350) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1jy1a2 d.136.1.3 (A:351-608) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1dmza_ b.26.1.2 (A:) Phosphotyrosine binding domain of Rad53 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
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| >d1uhta_ b.26.1.2 (A:) FHA domain containing protein At4G14490 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} | Back information, alignment and structure |
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| >d1mzka_ b.26.1.2 (A:) Kinase associated protein phosphatase {Thale cress (Arabidopsis thaliana) [TaxId: 3702]} | Back information, alignment and structure |
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| >d1lgpa_ b.26.1.2 (A:) Cell cycle checkpoint protein Chfr {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1g6ga_ b.26.1.2 (A:) Phosphotyrosine binding domain of Rad53 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
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| >d1gxca_ b.26.1.2 (A:) Chk2 kinase {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2piea1 b.26.1.2 (A:13-139) Ubiquitin ligase protein RNF8 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2brfa1 b.26.1.2 (A:8-108) Polynucleotide kinase 3'-phosphatase {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2ff4a3 b.26.1.2 (A:284-382) Probable regulatory protein EmbR, C-terminal domain {Mycobacterium tuberculosis [TaxId: 1773]} | Back information, alignment and structure |
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| >d2affa1 b.26.1.2 (A:3-100) Antigen ki-67 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d2g1la1 b.26.1.2 (A:498-599) Kinesin-like protein kif1c {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1wlna1 b.26.1.2 (A:8-114) Afadin {Mouse (Mus musculus) [TaxId: 10090]} | Back information, alignment and structure |
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| >d1q32a2 d.136.1.3 (A:302-538) Tyrosyl-DNA phosphodiesterase TDP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
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| >d1jy1a2 d.136.1.3 (A:351-608) Tyrosyl-DNA phosphodiesterase TDP1 {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
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| >d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]} | Back information, alignment and structure |
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| >d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]} | Back information, alignment and structure |
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