Citrus Sinensis ID: 046997
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 | 807 | 2.2.26 [Sep-21-2011] | |||||||
| O70157 | 1003 | DNA topoisomerase 3-alpha | yes | no | 0.903 | 0.726 | 0.462 | 0.0 | |
| Q13472 | 1001 | DNA topoisomerase 3-alpha | yes | no | 0.946 | 0.763 | 0.448 | 0.0 | |
| Q8T2T7 | 828 | DNA topoisomerase 3 OS=Di | yes | no | 0.831 | 0.810 | 0.442 | 1e-169 | |
| Q9NG98 | 1250 | DNA topoisomerase 3-alpha | yes | no | 0.852 | 0.550 | 0.428 | 1e-161 | |
| O61660 | 759 | DNA topoisomerase 3 OS=Ca | yes | no | 0.749 | 0.797 | 0.439 | 1e-141 | |
| O60126 | 622 | DNA topoisomerase 3 OS=Sc | yes | no | 0.724 | 0.940 | 0.419 | 1e-130 | |
| Q9Z321 | 862 | DNA topoisomerase 3-beta- | no | no | 0.765 | 0.716 | 0.366 | 1e-108 | |
| O95985 | 862 | DNA topoisomerase 3-beta- | no | no | 0.765 | 0.716 | 0.369 | 1e-107 | |
| P13099 | 656 | DNA topoisomerase 3 OS=Sa | yes | no | 0.748 | 0.920 | 0.369 | 1e-107 | |
| O96651 | 875 | DNA topoisomerase 3-beta | no | no | 0.762 | 0.702 | 0.348 | 2e-99 |
| >sp|O70157|TOP3A_MOUSE DNA topoisomerase 3-alpha OS=Mus musculus GN=Top3a PE=1 SV=1 | Back alignment and function desciption |
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Score = 690 bits (1781), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 349/755 (46%), Positives = 485/755 (64%), Gaps = 26/755 (3%)
Query: 9 NVLNVAEKPSVAKSVAGILSKNQGLRIREGRSRYNKIYEFNYSIRGQPCHMLMTSVTGHL 68
VL VAEK AK +A +LS N +R +EG S++NKIYEF+Y + GQ M+MTSV+GHL
Sbjct: 35 KVLCVAEKNDAAKGIADLLS-NGRMRRKEGLSKFNKIYEFDYHLYGQNVTMIMTSVSGHL 93
Query: 69 MELDFDERYRKWHSCDPADLYHAPVRKHVPEDKKDIKKTLEEEARRCQWLVLWLDCDREG 128
+ DF ++RKW SC+P L+ A + K+ PE+ DIKKTLE E CQ LV+W DCDREG
Sbjct: 94 LAHDFQMQFRKWQSCNPLVLFEAEIEKYCPENFIDIKKTLERETHHCQALVIWTDCDREG 153
Query: 129 ENIAFEVIEVCRAVNCHLVLRRARFSALIDREIHQAVQNLVDPNQWFADAVDARQEIDLR 188
ENI FE+I VC+AV +L + RARFS + + A +NL +P+Q +DAVD RQE+DLR
Sbjct: 154 ENIGFEIIHVCKAVKPNLRVLRARFSEITPHAVRTACENLTEPDQRVSDAVDVRQELDLR 213
Query: 189 IGASFTRFQTMLLKNFHIDSVTDDRNLVLSYGPCQFPTLGFVVERYWEIQAHESEEFWTI 248
IGA+FTRFQT+ L+ + + + ++SYG CQFPTLGFVVER+ IQA E F I
Sbjct: 214 IGAAFTRFQTLRLQRIFPEVLAEQ---LISYGSCQFPTLGFVVERFKAIQAFVPEVFHKI 270
Query: 249 NCSHKSEEGTATFSWMRGHLFDYTSAVIIYEMCVQEPTATVTKVRQQEKLKYPPYPLSTI 308
+H ++GT F+W R LF++T+ +++Y++C+++P ATV +VR + K K+ P L T+
Sbjct: 271 KVTHDHKDGTVEFNWKRYRLFNHTACLVLYQLCMEDPMATVVEVRSKPKSKWRPQALDTV 330
Query: 309 ELEKRASRYFRMSSEHTMKVAEDLYQAGFISYPRTETDSFSSGTNLHGIVQEQIGHPDWG 368
ELEK ASR R++++ TM++AE LY G+ISYPRTET+ F NL +V++Q P WG
Sbjct: 331 ELEKLASRKLRINAKETMRIAEKLYTQGYISYPRTETNIFPKDLNLVALVEQQTVDPHWG 390
Query: 369 PYAQRLLDHAAGLWRNPGSGGHDDKAHPPIHPTKFSSGESRWSQDHYKLYELVVRHFLAC 428
+AQ +L+ RN G D+AHPPIHPTK++SG D +LYE +VRHFLAC
Sbjct: 391 AFAQTILERGGPTPRN---GSKSDQAHPPIHPTKYTSG---LQGDDRRLYEFIVRHFLAC 444
Query: 429 VSQPAVGAETIVEINIAGEVFSTSGRVILAKNYLDVYRFESWGGLVIPTYVHGQQFIPTT 488
SQ A G ET VEI+IA E F G +ILA+NYLDVY ++ W ++P Y G F P+T
Sbjct: 445 CSQDAQGQETTVEIDIAQERFVAHGLIILARNYLDVYPYDHWSDKLLPVYEQGSHFQPST 504
Query: 489 LTLDSGVTRPPPLLSEADLLSCMDKAGIGTDATMHDHIKKLLDRFYAIKDANTRFAPTNI 548
+ + G T PP LL+EADL++ M+K GIGTDAT +HI+ + R Y ++ RF P ++
Sbjct: 505 VEMVDGETSPPQLLTEADLIALMEKHGIGTDATHAEHIETIKARMYVGLTSDKRFLPGHL 564
Query: 549 GEALVMGYDDMGYELWKPNLRSMMESDMKEVSVGNKSKADVLANCLQQMKACFLDARLKK 608
G LV GYD MGYE+ KP+LR+ +E+D+K + G K K VL +Q+ K F++A K
Sbjct: 565 GMGLVEGYDSMGYEMSKPDLRAELEADLKLICEGKKDKFQVLRQQVQKYKQVFIEAVAKA 624
Query: 609 VKLLEAMGIFF-ERWSGGEDQQ---AAGEVVRQCGICQESNMVLKKSRDGNLMVGCLAFP 664
KL EA+ + ER + ++ A E VR+C C + +MVLK + G + C+ FP
Sbjct: 625 KKLDEALSQYLGERTEMAQQEEIYPAMPEPVRKCPQCNK-DMVLKTKKSGGFYLSCMGFP 683
Query: 665 QCRNAVWLPGSVSEAAVTTNTCNSCTPGPVYLIQFKFRQHEIPPGFNVNHLGCIGGCDET 724
+CR+AVW P SV EA+ + C+ C P PVY ++ KF++ +PP + +GCIGGCDET
Sbjct: 684 ECRSAVWFPDSVLEASRDNSVCSVCQPPPVYRLKLKFKRGSLPPAMPLEFVGCIGGCDET 743
Query: 725 LRQLIEICGTGSRIPARGRGPTASSNNGQQSNHRQ 759
L+++ + R P A Q S H Q
Sbjct: 744 LKEIFGL-----------RFPRALPRASQPSGHLQ 767
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Releases the supercoiling and torsional tension of DNA introduced during the DNA replication and transcription by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand than undergoes passage around the unbroken strand thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone. Essential component of the RMI complex, a complex that plays an important role in the processing of homologous recombination intermediates to limit DNA crossover formation in cells. Mus musculus (taxid: 10090) EC: 5EC: .EC: 9EC: 9EC: .EC: 1EC: .EC: 2 |
| >sp|Q13472|TOP3A_HUMAN DNA topoisomerase 3-alpha OS=Homo sapiens GN=TOP3A PE=1 SV=1 | Back alignment and function description |
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| >sp|Q8T2T7|TOP3_DICDI DNA topoisomerase 3 OS=Dictyostelium discoideum GN=top3 PE=3 SV=1 | Back alignment and function description |
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| >sp|Q9NG98|TOP3A_DROME DNA topoisomerase 3-alpha OS=Drosophila melanogaster GN=Top3alpha PE=2 SV=2 | Back alignment and function description |
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| >sp|O61660|TOP3_CAEEL DNA topoisomerase 3 OS=Caenorhabditis elegans GN=top-3 PE=2 SV=1 | Back alignment and function description |
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| >sp|O60126|TOP3_SCHPO DNA topoisomerase 3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=top3 PE=1 SV=2 | Back alignment and function description |
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| >sp|Q9Z321|TOP3B_MOUSE DNA topoisomerase 3-beta-1 OS=Mus musculus GN=Top3b PE=2 SV=1 | Back alignment and function description |
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| >sp|O95985|TOP3B_HUMAN DNA topoisomerase 3-beta-1 OS=Homo sapiens GN=TOP3B PE=1 SV=1 | Back alignment and function description |
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| >sp|P13099|TOP3_YEAST DNA topoisomerase 3 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TOP3 PE=1 SV=1 | Back alignment and function description |
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| >sp|O96651|TOP3B_DROME DNA topoisomerase 3-beta OS=Drosophila melanogaster GN=Top3beta PE=2 SV=2 | 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 | 807 | ||||||
| 224083488 | 910 | predicted protein [Populus trichocarpa] | 0.978 | 0.868 | 0.808 | 0.0 | |
| 255572920 | 833 | prokaryotic DNA topoisomerase, putative | 0.980 | 0.949 | 0.795 | 0.0 | |
| 225431699 | 914 | PREDICTED: DNA topoisomerase 3-alpha [Vi | 0.980 | 0.865 | 0.797 | 0.0 | |
| 449437640 | 925 | PREDICTED: DNA topoisomerase 3-alpha-lik | 0.967 | 0.844 | 0.781 | 0.0 | |
| 15237561 | 926 | DNA topoisomerase III [Arabidopsis thali | 0.978 | 0.853 | 0.766 | 0.0 | |
| 297793983 | 923 | hypothetical protein ARALYDRAFT_496584 [ | 0.978 | 0.855 | 0.762 | 0.0 | |
| 356516381 | 913 | PREDICTED: DNA topoisomerase 3-alpha [Gl | 0.972 | 0.859 | 0.751 | 0.0 | |
| 297721829 | 928 | Os03g0165000 [Oryza sativa Japonica Grou | 0.965 | 0.839 | 0.718 | 0.0 | |
| 242036831 | 860 | hypothetical protein SORBIDRAFT_01g04621 | 0.928 | 0.870 | 0.742 | 0.0 | |
| 414864981 | 915 | TPA: hypothetical protein ZEAMMB73_75177 | 0.978 | 0.863 | 0.709 | 0.0 |
| >gi|224083488|ref|XP_002307047.1| predicted protein [Populus trichocarpa] gi|222856496|gb|EEE94043.1| predicted protein [Populus trichocarpa] | Back alignment and taxonomy information |
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Score = 1363 bits (3527), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 643/795 (80%), Positives = 712/795 (89%), Gaps = 5/795 (0%)
Query: 8 INVLNVAEKPSVAKSVAGILSKNQGLRIREGRSRYNKIYEFNYSIRGQPCHMLMTSVTGH 67
I VLNVAEKPSVAKSVA ILS+NQ LR+R+GRSRYNKI+EFNYSI GQ CHML+TSVTGH
Sbjct: 2 IKVLNVAEKPSVAKSVATILSRNQ-LRVRDGRSRYNKIFEFNYSINGQQCHMLVTSVTGH 60
Query: 68 LMELDFDERYRKWHSCDPADLYHAPVRKHVPEDKKDIKKTLEEEARRCQWLVLWLDCDRE 127
LME++F++R+RKWHSCDPADLY APVRK+VPEDK DIK+TLEEEARRC WLVLWLDCDRE
Sbjct: 61 LMEVEFEDRFRKWHSCDPADLYTAPVRKYVPEDKLDIKRTLEEEARRCHWLVLWLDCDRE 120
Query: 128 GENIAFEVIEVCRAVNCHLVLRRARFSALIDREIHQAVQNLVDPNQWFADAVDARQEIDL 187
GENIAFEV+EVC+ VN +L +RRARFSALI+R+IH+A QNL+ PNQWF+DAVDARQEIDL
Sbjct: 121 GENIAFEVMEVCKGVNRNLTIRRARFSALIERDIHEAAQNLIAPNQWFSDAVDARQEIDL 180
Query: 188 RIGASFTRFQTMLLKN-FHIDSVTDDRNLVLSYGPCQFPTLGFVVERYWEIQAHESEEFW 246
RIGASFTRFQTMLL++ F IDS DDRNLVLSYGPCQFPTLGFVVERYWEIQ+HE EEFW
Sbjct: 181 RIGASFTRFQTMLLRDRFVIDSAQDDRNLVLSYGPCQFPTLGFVVERYWEIQSHEPEEFW 240
Query: 247 TINCSHKSEEGTATFSWMRGHLFDYTSAVIIYEMCVQEPTATVT-KVRQQEKLKYPPYPL 305
TINC+H+S+EG A+F+WMRGHLFDYTS+VI+YEMCV+EPTATV+ + QQEKLKYPPYPL
Sbjct: 241 TINCTHRSDEGLASFNWMRGHLFDYTSSVILYEMCVEEPTATVSNRNHQQEKLKYPPYPL 300
Query: 306 STIELEKRASRYFRMSSEHTMKVAEDLYQAGFISYPRTETDSFSSGTNLHGIVQEQIGHP 365
STIELEKRASRYFRMSSE TMKVAEDLYQAGFISYPRTETDSFSS T+LH IVQE HP
Sbjct: 301 STIELEKRASRYFRMSSEQTMKVAEDLYQAGFISYPRTETDSFSSRTDLHTIVQEHQEHP 360
Query: 366 DWGPYAQRLLDHAAGLWRNPGSGGHDDKAHPPIHPTKFSSGESRWSQDHYKLYELVVRHF 425
WG YAQRLLD AGLWRNP +GGHDDKAHPPIHPTKFS+GESRWSQDH++LYELVVRHF
Sbjct: 361 VWGSYAQRLLDPGAGLWRNPSNGGHDDKAHPPIHPTKFSAGESRWSQDHHRLYELVVRHF 420
Query: 426 LACVSQPAVGAETIVEINIAGEVFSTSGRVILAKNYLDVYRFESWGGLVIPTYVHGQQFI 485
LACVSQPAVGAET+VEI+IAGE FS SGRVILAKNYLDVYRFESWG +IPTY+ GQQFI
Sbjct: 421 LACVSQPAVGAETVVEIDIAGERFSASGRVILAKNYLDVYRFESWGDSMIPTYLQGQQFI 480
Query: 486 PTTLTLDSGVTRPPPLLSEADLLSCMDKAGIGTDATMHDHIKKLLDRFYAIKDANTRFAP 545
P TLTLDSGVTRPPPLLSEADLLSCMDKAGIGTDATMHDHIKKLLDRFY KDANTRF+P
Sbjct: 481 PATLTLDSGVTRPPPLLSEADLLSCMDKAGIGTDATMHDHIKKLLDRFYVTKDANTRFSP 540
Query: 546 TNIGEALVMGYDDMGYELWKPNLRSMMESDMKEVSVGNKSKADVLANCLQQMKACFLDAR 605
TN+GEALVMGYDDMGYELWKPNLRS+ME DMKEVSVGNKSKA+VLA CLQQMKACFLDA+
Sbjct: 541 TNLGEALVMGYDDMGYELWKPNLRSLMECDMKEVSVGNKSKAEVLATCLQQMKACFLDAK 600
Query: 606 LKKVKLLEAMGIFFER--WSGGEDQQAAGEVVRQCGICQESNMVLKKSRDGNLMVGCLAF 663
+ KVKLLEAM IFF R S G+D A GE VR CG+CQE+NMVLKK+RDGN MVGC F
Sbjct: 601 VNKVKLLEAMAIFFNRSDRSNGDDSSALGENVRPCGLCQEANMVLKKNRDGNFMVGCSGF 660
Query: 664 PQCRNAVWLPGSVSEAAVTTNTCNSCTPGPVYLIQFKFRQHEIPPGFNVNHLGCIGGCDE 723
PQCRNAVWLPG V EA +T N CNSCTPGPVYLIQFKFRQ EIPPGFNVNHLGCIGGCDE
Sbjct: 661 PQCRNAVWLPGPVLEATITNNICNSCTPGPVYLIQFKFRQLEIPPGFNVNHLGCIGGCDE 720
Query: 724 TLRQLIEICGTGSRIPARGRGPTASSNNGQQSNHRQRACIYCQQMGHSSSDCPSQFSGSR 783
TLRQLIEICGTGSR+ PT + +N Q+SN RQ CIYC Q GH+S+DCPS+ S +R
Sbjct: 721 TLRQLIEICGTGSRVQGGNGPPTTTPSNPQRSNSRQAPCIYCYQTGHASTDCPSRISATR 780
Query: 784 NARANGMNPQSGMTA 798
+ +++GMN Q+G ++
Sbjct: 781 HVQSHGMNQQNGESS 795
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Source: Populus trichocarpa Species: Populus trichocarpa Genus: Populus Family: Salicaceae Order: Malpighiales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|255572920|ref|XP_002527391.1| prokaryotic DNA topoisomerase, putative [Ricinus communis] gi|223533243|gb|EEF34998.1| prokaryotic DNA topoisomerase, putative [Ricinus communis] | Back alignment and taxonomy information |
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| >gi|225431699|ref|XP_002264607.1| PREDICTED: DNA topoisomerase 3-alpha [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|449437640|ref|XP_004136599.1| PREDICTED: DNA topoisomerase 3-alpha-like [Cucumis sativus] | Back alignment and taxonomy information |
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| >gi|15237561|ref|NP_201197.1| DNA topoisomerase III [Arabidopsis thaliana] gi|8777305|dbj|BAA96895.1| DNA topoisomerase III [Arabidopsis thaliana] gi|169218912|gb|ACA50279.1| topoisomerase 3 alpha [Arabidopsis thaliana] gi|332010433|gb|AED97816.1| DNA topoisomerase III [Arabidopsis thaliana] | Back alignment and taxonomy information |
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| >gi|297793983|ref|XP_002864876.1| hypothetical protein ARALYDRAFT_496584 [Arabidopsis lyrata subsp. lyrata] gi|297310711|gb|EFH41135.1| hypothetical protein ARALYDRAFT_496584 [Arabidopsis lyrata subsp. lyrata] | Back alignment and taxonomy information |
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| >gi|356516381|ref|XP_003526873.1| PREDICTED: DNA topoisomerase 3-alpha [Glycine max] | Back alignment and taxonomy information |
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| >gi|297721829|ref|NP_001173278.1| Os03g0165000 [Oryza sativa Japonica Group] gi|255674230|dbj|BAH92006.1| Os03g0165000 [Oryza sativa Japonica Group] | Back alignment and taxonomy information |
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| >gi|242036831|ref|XP_002465810.1| hypothetical protein SORBIDRAFT_01g046210 [Sorghum bicolor] gi|241919664|gb|EER92808.1| hypothetical protein SORBIDRAFT_01g046210 [Sorghum bicolor] | Back alignment and taxonomy information |
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| >gi|414864981|tpg|DAA43538.1| TPA: hypothetical protein ZEAMMB73_751776 [Zea mays] | 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 | 807 | ||||||
| TAIR|locus:2160841 | 926 | TOP3A "topoisomerase 3alpha" [ | 0.978 | 0.853 | 0.766 | 0.0 | |
| MGI|MGI:1197527 | 1003 | Top3a "topoisomerase (DNA) III | 0.898 | 0.722 | 0.468 | 3.7e-185 | |
| UNIPROTKB|Q13472 | 1001 | TOP3A "DNA topoisomerase 3-alp | 0.909 | 0.733 | 0.462 | 1.6e-184 | |
| UNIPROTKB|E2RIS5 | 989 | TOP3A "DNA topoisomerase" [Can | 0.913 | 0.745 | 0.461 | 2.6e-184 | |
| UNIPROTKB|F1MGY1 | 1002 | TOP3A "DNA topoisomerase" [Bos | 0.903 | 0.727 | 0.470 | 2.9e-183 | |
| UNIPROTKB|F1P1F3 | 1020 | TOP3A "DNA topoisomerase" [Gal | 0.965 | 0.763 | 0.443 | 1.7e-178 | |
| ZFIN|ZDB-GENE-071212-2 | 1009 | top3a "topoisomerase (DNA) III | 0.910 | 0.728 | 0.459 | 2.8e-176 | |
| RGD|1309320 | 949 | Top3a "topoisomerase (DNA) III | 0.903 | 0.768 | 0.443 | 4.2e-166 | |
| UNIPROTKB|B4DK80 | 906 | TOP3A "DNA topoisomerase" [Hom | 0.821 | 0.731 | 0.453 | 1.2e-164 | |
| DICTYBASE|DDB_G0275257 | 828 | top3 "DNA topoisomerase III" [ | 0.576 | 0.561 | 0.410 | 3.9e-155 |
| TAIR|locus:2160841 TOP3A "topoisomerase 3alpha" [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
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Score = 3265 (1154.4 bits), Expect = 0., Sum P(2) = 0.
Identities = 610/796 (76%), Positives = 683/796 (85%)
Query: 4 GGRPINVLNVAEKPSVAKSVAGILSKNQGLRIREGRSRYNKIYEFNYSIRGQPCHMLMTS 63
GG P+ VLNVAEKPSVAKSVAGILS+ R REGRSRYNKI+EF+Y+I GQPC MLMTS
Sbjct: 5 GGGPVTVLNVAEKPSVAKSVAGILSRGT-FRTREGRSRYNKIFEFDYAINGQPCRMLMTS 63
Query: 64 VTGHLMELDFDERYRKWHSCDPADLYHAPVRKHVPEDKKDIKKTLEEEARRCQWLVLWLD 123
V GHLMEL+F +RYRKWHSCDPADLY APV KHVPEDKKDIKKTLEEEAR+ WLVLWLD
Sbjct: 64 VIGHLMELEFADRYRKWHSCDPADLYQAPVMKHVPEDKKDIKKTLEEEARKSDWLVLWLD 123
Query: 124 CDREGENIAFEVIEVCRAVNCHLVLRRARFSALIDREIHQAVQNLVDPNQWFADAVDARQ 183
CDREGENIAFEV++VCRAV +L +RRA FSALIDR+IH+AVQNL DPNQ FA+AVDARQ
Sbjct: 124 CDREGENIAFEVVDVCRAVKHNLFIRRAHFSALIDRDIHEAVQNLRDPNQLFAEAVDARQ 183
Query: 184 EIDLRIGASFTRFQTMLLKN-FHIDSVTDDRNLVLSYGPCQFPTLGFVVERYWEIQAHES 242
EIDLRIGASFTRFQTMLL++ F IDS ++R+ V+SYGPCQFPTLGF+VERYWEIQAHE
Sbjct: 184 EIDLRIGASFTRFQTMLLRDRFAIDSTGEERSRVISYGPCQFPTLGFIVERYWEIQAHEP 243
Query: 243 EEFWTINCSHKSEEGTATFSWMRGHLFDYTSAVIIYEMCVQEPTATVTKV-RQQEKLKYP 301
EEFWTINCSH+SEEG ATF+WMRGHLFDY SAVI+YEMCV+EPTATV V +E+ KYP
Sbjct: 244 EEFWTINCSHQSEEGLATFNWMRGHLFDYASAVILYEMCVEEPTATVMNVPHPRERFKYP 303
Query: 302 PYPLSTIELEKRASRYFRMSSEHTMKVAEDLYQAGFISYPRTETDSFSSGTNLHGIVQEQ 361
PYPL+TIELEKRASRYFR+SSEHTMKVAE+LYQAGFISYPRTETDSFSS T+L +V+EQ
Sbjct: 304 PYPLNTIELEKRASRYFRLSSEHTMKVAEELYQAGFISYPRTETDSFSSRTDLRAMVEEQ 363
Query: 362 IGHPDWGPYAQRLLDHAAGLWRNPGSGGHDDKAHPPIHPTKFSSGESRWSQDHYKLYELV 421
HP WG YAQRLL+ GLWRNP +GGHDDKAHPPIHPTKFSSGES WS+DH +YELV
Sbjct: 364 TRHPAWGSYAQRLLEPEGGLWRNPANGGHDDKAHPPIHPTKFSSGESNWSRDHLNVYELV 423
Query: 422 VRHFLACVSQPAVGAETIVEINIAGEVFSTSGRVILAKNYLDVYRFESWGGLVIPTYVHG 481
VRH+LACVSQPAV AET VEI+IAGE FS SGR ILAKNYL+VYRFESWGG VIP Y G
Sbjct: 424 VRHYLACVSQPAVAAETTVEIDIAGERFSASGRAILAKNYLEVYRFESWGGSVIPVYEKG 483
Query: 482 QQFIPTTLTLDSGVTRPPPLLSEADLLSCMDKAGIGTDATMHDHIKKLLDRFYAIKDANT 541
QQFIPTTLTLD+ VTRPPPLL EADLLSCMDKAGIGTDATMHDHIKKLLDR YA KDANT
Sbjct: 484 QQFIPTTLTLDAAVTRPPPLLCEADLLSCMDKAGIGTDATMHDHIKKLLDRGYATKDANT 543
Query: 542 RFAPTNIGEALVMGYDDMGYELWKPNLRSMMESDMKEVSVGNKSKADVLANCLQQMKACF 601
RF+PTN+GEALVMGYDDMGYELWKPNLR++ME DM EVSVG K+KA+VL CLQQMKACF
Sbjct: 544 RFSPTNLGEALVMGYDDMGYELWKPNLRALMEHDMNEVSVGRKTKAEVLETCLQQMKACF 603
Query: 602 LDARLKKVKLLEAMGIFFERWSGGEDQ--QAAGEVVRQCGICQESNMVLKKSRDGNLMVG 659
LDAR+KK KLLEAM IFFER + ++ Q AGEVVR+C +C ES+M L+K+RDGN MVG
Sbjct: 604 LDARVKKSKLLEAMTIFFERSNNTDESESQTAGEVVRRCNLCNESDMALRKNRDGNFMVG 663
Query: 660 CLAFPQCRNAVWLPGSVSEAAVTTNTCNSCTPGPVYLIQFKFRQHEIPPGFNVNHLGCIG 719
C+ +PQCRNAVWLPG EA+VTTN C SC PGPVY I FKFRQ IPPGF+VNHLGC+G
Sbjct: 664 CMNYPQCRNAVWLPGPTLEASVTTNVCQSCGPGPVYKILFKFRQIGIPPGFDVNHLGCVG 723
Query: 720 GCDETLRQLIEICGTGSRIPARGRGPTASSNNGQQSNHRQ-RACIYCQQMGHSSSDCPSQ 778
GCD+ L+QLI+ICGTGSR AR TA SNN Q SN RQ CI+CQQ GH+S++CPS+
Sbjct: 724 GCDDILKQLIDICGTGSRSQARRTPGTAPSNNIQGSNTRQSNVCIHCQQRGHASTNCPSR 783
Query: 779 FSGSRNARANGMNPQS 794
SRN+R NP++
Sbjct: 784 VPASRNSRPTATNPRN 799
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| MGI|MGI:1197527 Top3a "topoisomerase (DNA) III alpha" [Mus musculus (taxid:10090)] | Back alignment and assigned GO terms |
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| UNIPROTKB|Q13472 TOP3A "DNA topoisomerase 3-alpha" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
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| UNIPROTKB|E2RIS5 TOP3A "DNA topoisomerase" [Canis lupus familiaris (taxid:9615)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|F1MGY1 TOP3A "DNA topoisomerase" [Bos taurus (taxid:9913)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|F1P1F3 TOP3A "DNA topoisomerase" [Gallus gallus (taxid:9031)] | Back alignment and assigned GO terms |
|---|
| ZFIN|ZDB-GENE-071212-2 top3a "topoisomerase (DNA) III alpha" [Danio rerio (taxid:7955)] | Back alignment and assigned GO terms |
|---|
| RGD|1309320 Top3a "topoisomerase (DNA) III alpha" [Rattus norvegicus (taxid:10116)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|B4DK80 TOP3A "DNA topoisomerase" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
|---|
| DICTYBASE|DDB_G0275257 top3 "DNA topoisomerase III" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
|---|
Prediction of Enzyme Commission (EC) Number
EC Number Prediction by Annotation Transfer from SWISS-PROT Entries
Original result of BLAST against SWISS-PROT
| ID | Name | Annotated EC number | Identity | Query coverage | Hit coverage | RBH(Q2H) | RBH(H2Q) |
| Q8T2T7 | TOP3_DICDI | 5, ., 9, 9, ., 1, ., 2 | 0.4424 | 0.8314 | 0.8103 | yes | no |
EC Number Prediction by Ezypred Server
Original result from Ezypred Server
Fail to connect to Ezypred Server
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 4th Layer | 5.99.1.2 | 0.824 |
| 3rd Layer | 5.99.1 | 0.766 |
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 | 807 | |||
| cd00186 | 381 | cd00186, TOP1Ac, DNA Topoisomerase, subtype IA; DN | 1e-145 | |
| PRK07219 | 822 | PRK07219, PRK07219, DNA topoisomerase I; Validated | 1e-141 | |
| COG0550 | 570 | COG0550, TopA, Topoisomerase IA [DNA replication, | 1e-140 | |
| pfam01131 | 365 | pfam01131, Topoisom_bac, DNA topoisomerase | 1e-108 | |
| PRK07220 | 740 | PRK07220, PRK07220, DNA topoisomerase I; Validated | 5e-86 | |
| TIGR01057 | 618 | TIGR01057, topA_arch, DNA topoisomerase I, archaea | 9e-82 | |
| smart00437 | 259 | smart00437, TOP1Ac, Bacterial DNA topoisomerase I | 9e-79 | |
| PRK14973 | 936 | PRK14973, PRK14973, DNA topoisomerase I; Provision | 9e-75 | |
| PRK05776 | 670 | PRK05776, PRK05776, DNA topoisomerase I; Provision | 1e-72 | |
| cd03362 | 151 | cd03362, TOPRIM_TopoIA_TopoIII, TOPRIM_TopoIA_Topo | 2e-55 | |
| TIGR01056 | 660 | TIGR01056, topB, DNA topoisomerase III, bacteria a | 5e-54 | |
| PRK07726 | 658 | PRK07726, PRK07726, DNA topoisomerase III; Provisi | 6e-50 | |
| cd01028 | 142 | cd01028, TOPRIM_TopoIA, TOPRIM_TopoIA: topoisomera | 9e-48 | |
| TIGR01051 | 610 | TIGR01051, topA_bact, DNA topoisomerase I, bacteri | 1e-46 | |
| PRK05582 | 650 | PRK05582, PRK05582, DNA topoisomerase I; Validated | 3e-44 | |
| PRK06599 | 675 | PRK06599, PRK06599, DNA topoisomerase I; Validated | 3e-34 | |
| PRK06319 | 860 | PRK06319, PRK06319, DNA topoisomerase I/SWI domain | 9e-33 | |
| PRK09401 | 1176 | PRK09401, PRK09401, reverse gyrase; Reviewed | 6e-32 | |
| COG1110 | 1187 | COG1110, COG1110, Reverse gyrase [DNA replication, | 9e-30 | |
| PRK08780 | 780 | PRK08780, PRK08780, DNA topoisomerase I; Provision | 1e-29 | |
| TIGR01054 | 1171 | TIGR01054, rgy, reverse gyrase | 5e-29 | |
| PRK08173 | 862 | PRK08173, PRK08173, DNA topoisomerase III; Validat | 6e-26 | |
| PRK07561 | 859 | PRK07561, PRK07561, DNA topoisomerase I subunit om | 2e-25 | |
| smart00436 | 89 | smart00436, TOP1Bc, Bacterial DNA topoisomeraes I | 1e-24 | |
| PRK14724 | 987 | PRK14724, PRK14724, DNA topoisomerase III; Provisi | 3e-22 | |
| PRK14701 | 1638 | PRK14701, PRK14701, reverse gyrase; Provisional | 3e-12 | |
| PTZ00407 | 805 | PTZ00407, PTZ00407, DNA topoisomerase IA; Provisio | 1e-09 | |
| smart00493 | 75 | smart00493, TOPRIM, topoisomerases, DnaG-type prim | 2e-08 | |
| pfam01751 | 86 | pfam01751, Toprim, Toprim domain | 1e-07 | |
| PRK14701 | 1638 | PRK14701, PRK14701, reverse gyrase; Provisional | 8e-07 | |
| cd00188 | 83 | cd00188, TOPRIM, Topoisomerase-primase domain | 3e-05 | |
| cd03363 | 123 | cd03363, TOPRIM_TopoIA_TopoI, TOPRIM_TopoIA_TopoI: | 6e-05 | |
| cd03361 | 170 | cd03361, TOPRIM_TopoIA_RevGyr, TopoIA_RevGyr : The | 0.001 | |
| pfam01396 | 39 | pfam01396, zf-C4_Topoisom, Topoisomerase DNA bindi | 0.002 |
| >gnl|CDD|238110 cd00186, TOP1Ac, DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases | Back alignment and domain information |
|---|
Score = 430 bits (1108), Expect = e-145
Identities = 133/431 (30%), Positives = 192/431 (44%), Gaps = 56/431 (12%)
Query: 175 FADAVDARQEIDLRIGASFTRFQTMLLKNFHIDSVTDDRNLVLSYGPCQFPTLGFVVERY 234
+A AR+ +D +G + +R T L+ VLS G Q PTLG +VER
Sbjct: 3 LVNAQLARRILDRLVGFNLSRLLTKKLRRKG----------VLSAGRVQSPTLGLIVERE 52
Query: 235 WEIQAHESEEFWTINCSHKSEEGTATFSWMRGHLFDYTSAVIIYEMCVQEPTATVTKVRQ 294
EI+A E++W I A V V +
Sbjct: 53 REIKAFVPEDYWEIK------------------------------------EAVVVSVEK 76
Query: 295 QEKLKYPPYPLSTIELEKRASRYFRMSSEHTMKVAEDLYQAGFISYPRTETDSFSSGTNL 354
+EK K PP P +T L++ AS S++ TM++A+ LY+AG I+YPRT++ S L
Sbjct: 77 KEKKKNPPPPFTTSTLQQEASSKLGFSAKKTMQIAQKLYEAGLITYPRTDSTRLSEEAIL 136
Query: 355 HGIVQEQIGHPDWGPYAQRLLDHAAGLWRNPGSGGHDDKAHPPIHPTKF---SSGESRWS 411
Q + Y LL RNP G + AH I PTK E+ S
Sbjct: 137 EAREYIQAIYGKEYLYPAPLLG-----RRNPKRGKKEQGAHEAIRPTKVAPTPELEANLS 191
Query: 412 QDHYKLYELVVRHFLACVSQPAVGAETIVEINIAGEVFSTSGRVILAKNYLDVYRFESWG 471
+D +KLYEL+ R FLA A ET V + I GE F SG+V+L +L+VY E
Sbjct: 192 EDEFKLYELIWRRFLASQMADAKYEETTVTLEIGGEKFKASGKVLLEDGWLEVYPEEKDD 251
Query: 472 GLVI-PTYVHGQQFIPTTLTLDSGVTRPPPLLSEADLLSCMDKAGIGTDATMHDHIKKLL 530
P G + + L+ T+PPP +EA L+ M+K GIG +T I+ LL
Sbjct: 252 EEEEPPPLKEGDELKLEEVELEEKETQPPPRYTEASLIKLMEKRGIGRPSTYASIIETLL 311
Query: 531 DRFYAIKDANTRFAPTNIGEALVMGYDDMGYELWKPNLRSMMESDMKEVSVGNKSKADVL 590
DR Y K+ + PT +G A++ + EL P + +E + E++ G K +VL
Sbjct: 312 DRGYVEKEKK-KLIPTELGFAVIELLEKHFPELVDPEFTAKLEEKLDEIAEGKKDYQEVL 370
Query: 591 ANCLQQMKACF 601
++ K
Sbjct: 371 EEFYEEFKKIV 381
|
Topoisomerases clevage single or double stranded DNA and then rejoin the broken phosphodiester backbone. Proposed catalytic mechanism of single stranded DNA cleavage is by phosphoryl transfer through a tyrosine nucleophile using acid/base catalysis. Tyr is activated by a nearby group (not yet identified) acting as a general base for nucleophilic attack on the 5' phosphate of the scissile bond. Arg and Lys stabilize the pentavalent transition state. Glu then acts as a proton donor for the leaving 3'-oxygen, upon cleavage of the scissile strand. Length = 381 |
| >gnl|CDD|235971 PRK07219, PRK07219, DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|223624 COG0550, TopA, Topoisomerase IA [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >gnl|CDD|216317 pfam01131, Topoisom_bac, DNA topoisomerase | Back alignment and domain information |
|---|
| >gnl|CDD|180892 PRK07220, PRK07220, DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|233253 TIGR01057, topA_arch, DNA topoisomerase I, archaeal | Back alignment and domain information |
|---|
| >gnl|CDD|214663 smart00437, TOP1Ac, Bacterial DNA topoisomerase I DNA-binding domain | Back alignment and domain information |
|---|
| >gnl|CDD|184936 PRK14973, PRK14973, DNA topoisomerase I; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|235602 PRK05776, PRK05776, DNA topoisomerase I; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|173782 cd03362, TOPRIM_TopoIA_TopoIII, TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III | Back alignment and domain information |
|---|
| >gnl|CDD|233252 TIGR01056, topB, DNA topoisomerase III, bacteria and conjugative plasmid | Back alignment and domain information |
|---|
| >gnl|CDD|236078 PRK07726, PRK07726, DNA topoisomerase III; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|173778 cd01028, TOPRIM_TopoIA, TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA) | Back alignment and domain information |
|---|
| >gnl|CDD|233249 TIGR01051, topA_bact, DNA topoisomerase I, bacterial | Back alignment and domain information |
|---|
| >gnl|CDD|235516 PRK05582, PRK05582, DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|235840 PRK06599, PRK06599, DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|235778 PRK06319, PRK06319, DNA topoisomerase I/SWI domain fusion protein; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|236498 PRK09401, PRK09401, reverse gyrase; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|224035 COG1110, COG1110, Reverse gyrase [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >gnl|CDD|181555 PRK08780, PRK08780, DNA topoisomerase I; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|233251 TIGR01054, rgy, reverse gyrase | Back alignment and domain information |
|---|
| >gnl|CDD|236172 PRK08173, PRK08173, DNA topoisomerase III; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|236048 PRK07561, PRK07561, DNA topoisomerase I subunit omega; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|214662 smart00436, TOP1Bc, Bacterial DNA topoisomeraes I ATP-binding domain | Back alignment and domain information |
|---|
| >gnl|CDD|237803 PRK14724, PRK14724, DNA topoisomerase III; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|237791 PRK14701, PRK14701, reverse gyrase; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|173597 PTZ00407, PTZ00407, DNA topoisomerase IA; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|214695 smart00493, TOPRIM, topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins | Back alignment and domain information |
|---|
| >gnl|CDD|216679 pfam01751, Toprim, Toprim domain | Back alignment and domain information |
|---|
| >gnl|CDD|237791 PRK14701, PRK14701, reverse gyrase; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|173773 cd00188, TOPRIM, Topoisomerase-primase domain | Back alignment and domain information |
|---|
| >gnl|CDD|173783 cd03363, TOPRIM_TopoIA_TopoI, TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I | Back alignment and domain information |
|---|
| >gnl|CDD|173781 cd03361, TOPRIM_TopoIA_RevGyr, TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to the ATP-dependent reverse gyrase found in archaea and thermophilic bacteria | Back alignment and domain information |
|---|
| >gnl|CDD|110400 pfam01396, zf-C4_Topoisom, Topoisomerase DNA binding C4 zinc finger | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 807 | |||
| PRK07220 | 740 | DNA topoisomerase I; Validated | 100.0 | |
| PRK14973 | 936 | DNA topoisomerase I; Provisional | 100.0 | |
| PRK07219 | 822 | DNA topoisomerase I; Validated | 100.0 | |
| PRK05776 | 670 | DNA topoisomerase I; Provisional | 100.0 | |
| TIGR01057 | 618 | topA_arch DNA topoisomerase I, archaeal. This mode | 100.0 | |
| PRK06319 | 860 | DNA topoisomerase I/SWI domain fusion protein; Val | 100.0 | |
| PRK08173 | 862 | DNA topoisomerase III; Validated | 100.0 | |
| PRK07726 | 658 | DNA topoisomerase III; Provisional | 100.0 | |
| TIGR01056 | 660 | topB DNA topoisomerase III, bacteria and conjugati | 100.0 | |
| KOG1956 | 758 | consensus DNA topoisomerase III alpha [Replication | 100.0 | |
| PRK06599 | 675 | DNA topoisomerase I; Validated | 100.0 | |
| PRK05582 | 650 | DNA topoisomerase I; Validated | 100.0 | |
| PRK14724 | 987 | DNA topoisomerase III; Provisional | 100.0 | |
| PRK07561 | 859 | DNA topoisomerase I subunit omega; Validated | 100.0 | |
| TIGR01051 | 610 | topA_bact DNA topoisomerase I, bacterial. This mod | 100.0 | |
| COG0550 | 570 | TopA Topoisomerase IA [DNA replication, recombinat | 100.0 | |
| PRK08780 | 780 | DNA topoisomerase I; Provisional | 100.0 | |
| PRK09401 | 1176 | reverse gyrase; Reviewed | 100.0 | |
| PTZ00407 | 805 | DNA topoisomerase IA; Provisional | 100.0 | |
| TIGR01054 | 1171 | rgy reverse gyrase. Generally, these gyrases are e | 100.0 | |
| PRK14701 | 1638 | reverse gyrase; Provisional | 100.0 | |
| cd00186 | 381 | TOP1Ac DNA Topoisomerase, subtype IA; DNA-binding, | 100.0 | |
| PF01131 | 403 | Topoisom_bac: DNA topoisomerase; InterPro: IPR0134 | 100.0 | |
| COG1110 | 1187 | Reverse gyrase [DNA replication, recombination, an | 100.0 | |
| KOG1957 | 555 | consensus DNA topoisomerase III beta [Replication, | 100.0 | |
| smart00437 | 259 | TOP1Ac Bacterial DNA topoisomerase I DNA-binding d | 100.0 | |
| cd03362 | 151 | TOPRIM_TopoIA_TopoIII TOPRIM_TopoIA_TopoIII: The t | 100.0 | |
| cd01028 | 142 | TOPRIM_TopoIA TOPRIM_TopoIA: topoisomerase-primase | 100.0 | |
| cd03361 | 170 | TOPRIM_TopoIA_RevGyr TopoIA_RevGyr : The topoisome | 99.97 | |
| smart00436 | 89 | TOP1Bc Bacterial DNA topoisomeraes I ATP-binding d | 99.97 | |
| cd03363 | 123 | TOPRIM_TopoIA_TopoI TOPRIM_TopoIA_TopoI: The topoi | 99.97 | |
| PF01751 | 100 | Toprim: Toprim domain; InterPro: IPR006171 This is | 99.87 | |
| COG0551 | 140 | TopA Zn-finger domain associated with topoisomeras | 99.04 | |
| PF01396 | 39 | zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc | 98.95 | |
| PRK06319 | 860 | DNA topoisomerase I/SWI domain fusion protein; Val | 98.95 | |
| COG0551 | 140 | TopA Zn-finger domain associated with topoisomeras | 98.63 | |
| smart00493 | 76 | TOPRIM topoisomerases, DnaG-type primases, OLD fam | 98.43 | |
| PRK07219 | 822 | DNA topoisomerase I; Validated | 98.38 | |
| cd01025 | 112 | TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TO | 97.69 | |
| cd00188 | 83 | TOPRIM Topoisomerase-primase domain. This is a nuc | 97.1 | |
| PRK07561 | 859 | DNA topoisomerase I subunit omega; Validated | 96.7 | |
| PRK06599 | 675 | DNA topoisomerase I; Validated | 96.46 | |
| cd01027 | 81 | TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The to | 96.36 | |
| PRK00076 | 196 | recR recombination protein RecR; Reviewed | 96.08 | |
| PRK05582 | 650 | DNA topoisomerase I; Validated | 96.02 | |
| PF00098 | 18 | zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc fi | 95.71 | |
| PF01396 | 39 | zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc | 94.21 | |
| PF09151 | 36 | DUF1936: Domain of unknown function (DUF1936); Int | 93.84 | |
| smart00437 | 259 | TOP1Ac Bacterial DNA topoisomerase I DNA-binding d | 93.32 | |
| COG4026 | 290 | Uncharacterized protein containing TOPRIM domain, | 93.25 | |
| PF13662 | 81 | Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B | 92.72 | |
| KOG2906 | 105 | consensus RNA polymerase III subunit C11 [Transcri | 92.44 | |
| PF01131 | 403 | Topoisom_bac: DNA topoisomerase; InterPro: IPR0134 | 92.31 | |
| TIGR01057 | 618 | topA_arch DNA topoisomerase I, archaeal. This mode | 90.34 | |
| PF13696 | 32 | zf-CCHC_2: Zinc knuckle | 90.1 | |
| PF06839 | 45 | zf-GRF: GRF zinc finger; InterPro: IPR010666 Zinc | 89.64 | |
| PRK07220 | 740 | DNA topoisomerase I; Validated | 89.51 | |
| COG1594 | 113 | RPB9 DNA-directed RNA polymerase, subunit M/Transc | 89.43 | |
| cd00186 | 381 | TOP1Ac DNA Topoisomerase, subtype IA; DNA-binding, | 89.4 | |
| TIGR01051 | 610 | topA_bact DNA topoisomerase I, bacterial. This mod | 89.0 | |
| PRK13844 | 200 | recombination protein RecR; Provisional | 88.67 | |
| smart00529 | 96 | HTH_DTXR Helix-turn-helix diphteria tox regulatory | 88.53 | |
| COG1754 | 298 | Uncharacterized C-terminal domain of topoisomerase | 88.43 | |
| PRK04031 | 408 | DNA primase; Provisional | 88.42 | |
| TIGR00615 | 195 | recR recombination protein RecR. This family is ba | 88.23 | |
| PRK05776 | 670 | DNA topoisomerase I; Provisional | 87.92 | |
| TIGR01056 | 660 | topB DNA topoisomerase III, bacteria and conjugati | 87.34 | |
| COG0353 | 198 | RecR Recombinational DNA repair protein (RecF path | 87.31 | |
| PF09664 | 152 | DUF2399: Protein of unknown function C-terminus (D | 87.14 | |
| COG1658 | 127 | Small primase-like proteins (Toprim domain) [DNA r | 87.09 | |
| TIGR00334 | 174 | 5S_RNA_mat_M5 ribonuclease M5. This family of orth | 86.73 | |
| PRK14973 | 936 | DNA topoisomerase I; Provisional | 86.41 | |
| PRK07726 | 658 | DNA topoisomerase III; Provisional | 85.8 | |
| PRK03573 | 144 | transcriptional regulator SlyA; Provisional | 85.46 | |
| PRK03564 | 309 | formate dehydrogenase accessory protein FdhE; Prov | 85.41 | |
| PF04606 | 47 | Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: I | 84.67 | |
| COG0550 | 570 | TopA Topoisomerase IA [DNA replication, recombinat | 83.39 | |
| COG1107 | 715 | Archaea-specific RecJ-like exonuclease, contains D | 83.29 | |
| TIGR01562 | 305 | FdhE formate dehydrogenase accessory protein FdhE. | 82.22 | |
| PRK10870 | 176 | transcriptional repressor MprA; Provisional | 81.9 | |
| PRK08173 | 862 | DNA topoisomerase III; Validated | 81.83 | |
| TIGR01384 | 104 | TFS_arch transcription factor S, archaeal. There h | 81.3 | |
| PRK13777 | 185 | transcriptional regulator Hpr; Provisional | 81.19 |
| >PRK07220 DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=4.6e-147 Score=1311.14 Aligned_cols=663 Identities=28% Similarity=0.481 Sum_probs=565.5
Q ss_pred EEEEcChHHHHHHHHHhCCCC-CcccccCcccccceeeeeccccCCCceEEEEeccCcccccccccccCcCcCCCCCCCC
Q 046997 11 LNVAEKPSVAKSVAGILSKNQ-GLRIREGRSRYNKIYEFNYSIRGQPCHMLMTSVTGHLMELDFDERYRKWHSCDPADLY 89 (807)
Q Consensus 11 LiIaEKPs~Ak~IA~~Lg~~~-~~~~~~G~~~~~~~~ef~~~~~g~~~~~~Vt~~~GHl~~l~~p~~y~~W~~~~p~~L~ 89 (807)
||||||||+|++||++||++. ...+.+|. ++|+|.+ +|. +++|+|+.|||++|++|++|..|..|++.+|+
T Consensus 3 LiIaEKPs~Ak~Ia~~Lg~~~~~~~~~~g~----~~y~~~~--~g~--~~~v~~~~GHl~~l~~P~~y~~w~~~~~~~l~ 74 (740)
T PRK07220 3 LIITEKNIAARRIAQILAPKKPKKTRVSGV----DVYRYED--NGD--DTVVVGLSGHIVNIDFPKEYNNWQKVDARDLI 74 (740)
T ss_pred EEEEeCHHHHHHHHHHhCCCCccccccCCc----ceeEEec--CCC--CEEEEEeCcccccCCCCccccccCCCChhHcC
Confidence 999999999999999998532 12245563 3344432 343 58999999999999999999999999988887
Q ss_pred CCCcccccCCChHHHHHHHHHHHhhcCeEEEeecCChhhhHHHHHHHHHhhhcCCCCeEEEEEecccCHHHHHHHHHcCC
Q 046997 90 HAPVRKHVPEDKKDIKKTLEEEARRCQWLVLWLDCDREGENIAFEVIEVCRAVNCHLVLRRARFSALIDREIHQAVQNLV 169 (807)
Q Consensus 90 ~~p~~~~v~~~k~~~~~~lk~~~~~~d~IiiAtD~DREGE~I~~ei~~~~~~~~~~~~v~R~~~s~lt~~~I~~A~~nl~ 169 (807)
+.++. ...+++++++.|++++++||+||||||||||||+|||||+++++..+++++++|+|||+||+++|++||+||+
T Consensus 75 ~~~~~--~~~~~~~~~~~lk~l~k~ad~viiAtD~DREGE~I~~~i~~~l~~~~~~~~~~R~~fs~iT~~~I~~A~~n~~ 152 (740)
T PRK07220 75 DAEII--TTPTQKKIVTALKKLGKEADRVTIATDYDREGELIGVEALNIIKKVNPDIKFDRVRYSAITKKEIERAFSNPV 152 (740)
T ss_pred CcceE--ecCCHHHHHHHHHHHHhcCCEEEECCCCCccHHHHHHHHHHHHHhcCCCCceEEEEEccCCHHHHHHHHhCCC
Confidence 65543 2346788999999999999999999999999999999999999876666789999999999999999999999
Q ss_pred CCCcchHHHHHHHHHHhHhhhccchHHHHHhhhhcccccccccCCcccccCccchhhHHHHHHHHHHHHcccccceEEEE
Q 046997 170 DPNQWFADAVDARQEIDLRIGASFTRFQTMLLKNFHIDSVTDDRNLVLSYGPCQFPTLGFVVERYWEIQAHESEEFWTIN 249 (807)
Q Consensus 170 ~~~~~l~~a~~aR~~~D~liG~n~SR~~Tl~~~~~~~~~~~~~~~~~lS~GRVQtPtL~lIv~Re~eI~~F~p~~y~~i~ 249 (807)
++|.+|++||+|||++||||||||||++|+.+++++ ..++|+||||||||+|||+||+||+||+|++||+|.
T Consensus 153 ~~d~~l~~A~~aR~~~D~lvG~nlSr~~t~~~~~~~--------~~~lS~GRVQtptL~lIv~Re~eI~~F~p~~y~~i~ 224 (740)
T PRK07220 153 EVDFNLADAGHSRQVIDLVWGAALTRYISLAAGRLG--------KMFLSVGRVQSPTLALIVDREKEREAFVPTPYWEIY 224 (740)
T ss_pred CCChhHHHHHHHHHHHHHHhchhcCHHHHHHHHhhC--------CccccccccchhhhHHHHhhHHHHHhCCCCccEEEE
Confidence 999999999999999999999999999999876421 237999999999999999999999999999999999
Q ss_pred EEeecCCceEEEEeccCCcCCHHHHHHHHHHhccCCCeEEEEEEeeeeeeCCCCCCCHHHHHHHHHHhcCCCHHHHHHHH
Q 046997 250 CSHKSEEGTATFSWMRGHLFDYTSAVIIYEMCVQEPTATVTKVRQQEKLKYPPYPLSTIELEKRASRYFRMSSEHTMKVA 329 (807)
Q Consensus 250 ~~~~~~~~~~~~~~~~~r~~d~~~a~~~~~~~~~~~~~~V~~v~~k~~~~~pP~pf~l~~Lq~~ask~~g~s~~~tl~ia 329 (807)
+.+..++..|.+.|..++++|++.|+.+++.+ . ..++|++|+.++++..||+||||++||++||+ +||||++||++|
T Consensus 225 ~~~~~~~~~~~~~~~~~r~~~~~~a~~~~~~~-~-~~~~V~~v~~~~~~~~pP~pf~ts~Lq~~a~~-~g~s~~~tm~ia 301 (740)
T PRK07220 225 ATLENNGETFVAQHSTRRFWEKEEADRVFEKL-G-KTAEVTEVEKGTKTDKPPTPFNTTEFISAANS-IGFSAANAMRIA 301 (740)
T ss_pred EEEEcCCceEEEEeccCcCCCHHHHHHHHHhh-C-CCeEEEEEeeeeEecCCCCCcCHHHHHHHHHH-cCCCHHHHHHHH
Confidence 99987778899999888999999999999988 3 46999999999999999999999999999996 899999999999
Q ss_pred HHHhhcCceeccCCCCcccCCcccHHHHHHHHhcCCCchhhHHhhcccccCCccCCCCCCCCCCCCCCCcCCCCCCCCCC
Q 046997 330 EDLYQAGFISYPRTETDSFSSGTNLHGIVQEQIGHPDWGPYAQRLLDHAAGLWRNPGSGGHDDKAHPPIHPTKFSSGESR 409 (807)
Q Consensus 330 Q~LYE~g~ISYPRTds~~l~~~~~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~aH~aI~PT~~~~~~~~ 409 (807)
|+|||+||||||||||++||+++++.++++.+... .|+.++..+++.. . ..|..+..++.||||||||... ..+.
T Consensus 302 Q~LYe~g~ITYPRTDs~~l~~~~~~~~~i~~l~~~-~~~~~~~~~l~~~--~-~~~~~~~~~~~~H~aI~PT~~~-~~~~ 376 (740)
T PRK07220 302 ESLYTNGYISYPRTDNTVYPESLDLREQIEIFAEG-PFGEYAQKLLEKG--E-LVPTRGKKETTDHPPIYPASLA-KKSE 376 (740)
T ss_pred HHHHhCCceeecccCCeecCchhhHHHHHHHHHHH-HHHHHHHHhcccC--C-ccCCCCCCCCCCCCCCCcccCC-Cccc
Confidence 99999999999999999999988888888887643 4777776666521 1 1233334456799999999974 3468
Q ss_pred CCHHHHHHHHHHHHHHHHhcCcccEEEEEEEEEEECCeEEEEEEEEEEecCeeeeecccccCCccCCccCCCCeeeeeee
Q 046997 410 WSQDHYKLYELVVRHFLACVSQPAVGAETIVEINIAGEVFSTSGRVILAKNYLDVYRFESWGGLVIPTYVHGQQFIPTTL 489 (807)
Q Consensus 410 Ls~~e~~vY~lI~rrfla~~~~~a~~~~t~v~~~~~~~~F~a~g~~i~~~Gw~~v~~~~~~~~~~lP~l~~G~~~~~~~~ 489 (807)
|+++|++||+||+|||||+||+||+|++|+|+++++++.|+++|++++++||++||+++.+++..||.|++||.+.+.++
T Consensus 377 L~~de~~lY~LI~rRfla~~~~~a~~~~t~v~~~~~~~~F~a~g~~~~~~Gw~~vy~~~~~~~~~LP~l~~Ge~~~~~~~ 456 (740)
T PRK07220 377 LKEDEWKVYELVVRRFFATFAGPAEWETMKLRFDIGGEEFRANGSRLTEPGWRWYYPYNAPEDRLLPELSEGEELKVKKK 456 (740)
T ss_pred CCHHHHHHHHHHHHHHHHHhCchheEEEEEEEEEECCeEEEEeeeEEeeCChHHHcCccccccccCCCCCCCCEeeeeee
Confidence 99999999999999999999999999999999999999999999999999999999876555667999999999999999
Q ss_pred EeecCccCCCCCCCHHHHHHHHHhCCCCCccchHHHHHhhcccceEEEcCCceeeechhHHHHHhhccccCccccCchhh
Q 046997 490 TLDSGVTRPPPLLSEADLLSCMDKAGIGTDATMHDHIKKLLDRFYAIKDANTRFAPTNIGEALVMGYDDMGYELWKPNLR 569 (807)
Q Consensus 490 ~i~e~~T~PP~~~Tea~Li~~Me~~GIGTpATra~iI~~L~~R~Yv~~~~~~~l~pT~~G~~li~~l~~~~~~l~~p~~T 569 (807)
.+.+++|+||+||||++||++||+.|||||||||+||++|++||||+ + +.|+||++|+.|+++|....+.|++|+||
T Consensus 457 ~~~ek~TkPP~ryTea~Li~~Me~~GIGTpATra~iI~~L~~R~Yi~--~-k~l~pT~~G~~v~~~l~~~~~~i~~~~~T 533 (740)
T PRK07220 457 EMLDKETQPPGRYGQGRLIKLMEDLGLGTKATRHEIISKLYSRAYIH--G-NPIQPTNTAFAVVDALEKYAPTITKPDMT 533 (740)
T ss_pred eecccccCCCCCCCHHHHHHHHHhCCCCCCCcHHHHHHHHHhcCCcc--C-CcccccHHHHHHHHHHHHhchhhcChhHH
Confidence 99999999999999999999999999999999999999999999997 3 35899999999999998776789999999
Q ss_pred HHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccCCCCCCcccccccccccCCCCCcceEEE
Q 046997 570 SMMESDMKEVSVGNKSKADVLANCLQQMKACFLDARLKKVKLLEAMGIFFERWSGGEDQQAAGEVVRQCGICQESNMVLK 649 (807)
Q Consensus 570 a~~E~~L~~I~~G~~~~~~~l~~~~~~~~~~~~~~~~~~~k~~~~~g~fl~cs~~p~~~~~~~~~~~~CP~C~g~~lv~r 649 (807)
|.||..|++|++|+.++++||+++++++.+.+.+...+...+.+.+ ..+. ........||+| |+.|+++
T Consensus 534 a~~E~~Ld~I~~G~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~------~~~~~~~~CP~C-g~~l~~r 602 (740)
T PRK07220 534 SRLEEDMDKIAEGKIKEDAVLEESREMLEQVFDELDKNREKIRESL----REGL------REDKIIGKCPLC-GSDLMVR 602 (740)
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----hhhh------cccccccccccC-CCeeeEE
Confidence 9999999999999999999999999998887766554433322111 1000 011234689999 5789888
Q ss_pred ecCCCCceeeccCCCCCCcceecCCCccccccccCccCCCCCCceEEEEeeccCccCCCCCccCccccCCCCChh
Q 046997 650 KSRDGNLMVGCLAFPQCRNAVWLPGSVSEAAVTTNTCNSCTPGPVYLIQFKFRQHEIPPGFNVNHLGCIGGCDET 724 (807)
Q Consensus 650 ~~k~G~~f~gCs~yP~C~~~~~~p~~~~~~~~t~~~CP~Cg~~~l~~~~~k~~~g~~~~~~~~~~~~C~~~C~~~ 724 (807)
++++|+.||+|++||+|+++.|+|..+ ...+++..||+||.+ ++++.. +++. +++++|| .|++.
T Consensus 603 ~~r~g~~f~gCs~yp~C~~~~~l~~~g-~~~~~~~~Cp~Cg~~-~~k~~~---~g~~-----~~~~~Cp-~C~~~ 666 (740)
T PRK07220 603 RSKRGSRFIGCEGYPECTFSLPLPKSG-QIIVTDKVCEAHGLN-HIRIIN---GGKR-----PWDLGCP-QCNFI 666 (740)
T ss_pred ecCCCceEEEcCCCCCCCceeeCCCCC-ccccCCCCCCCCCCc-eEEEEe---cCCc-----cceeeCC-CCCCc
Confidence 888877789999999999999987642 335678899999953 443332 2211 1247899 99873
|
|
| >PRK14973 DNA topoisomerase I; Provisional | Back alignment and domain information |
|---|
| >PRK07219 DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >PRK05776 DNA topoisomerase I; Provisional | Back alignment and domain information |
|---|
| >TIGR01057 topA_arch DNA topoisomerase I, archaeal | Back alignment and domain information |
|---|
| >PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated | Back alignment and domain information |
|---|
| >PRK08173 DNA topoisomerase III; Validated | Back alignment and domain information |
|---|
| >PRK07726 DNA topoisomerase III; Provisional | Back alignment and domain information |
|---|
| >TIGR01056 topB DNA topoisomerase III, bacteria and conjugative plasmid | Back alignment and domain information |
|---|
| >KOG1956 consensus DNA topoisomerase III alpha [Replication, recombination and repair] | Back alignment and domain information |
|---|
| >PRK06599 DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >PRK05582 DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >PRK14724 DNA topoisomerase III; Provisional | Back alignment and domain information |
|---|
| >PRK07561 DNA topoisomerase I subunit omega; Validated | Back alignment and domain information |
|---|
| >TIGR01051 topA_bact DNA topoisomerase I, bacterial | Back alignment and domain information |
|---|
| >COG0550 TopA Topoisomerase IA [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >PRK08780 DNA topoisomerase I; Provisional | Back alignment and domain information |
|---|
| >PRK09401 reverse gyrase; Reviewed | Back alignment and domain information |
|---|
| >PTZ00407 DNA topoisomerase IA; Provisional | Back alignment and domain information |
|---|
| >TIGR01054 rgy reverse gyrase | Back alignment and domain information |
|---|
| >PRK14701 reverse gyrase; Provisional | Back alignment and domain information |
|---|
| >cd00186 TOP1Ac DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases | Back alignment and domain information |
|---|
| >PF01131 Topoisom_bac: DNA topoisomerase; InterPro: IPR013497 DNA topoisomerases regulate the number of topological links between two DNA strands (i | Back alignment and domain information |
|---|
| >COG1110 Reverse gyrase [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >KOG1957 consensus DNA topoisomerase III beta [Replication, recombination and repair] | Back alignment and domain information |
|---|
| >smart00437 TOP1Ac Bacterial DNA topoisomerase I DNA-binding domain | Back alignment and domain information |
|---|
| >cd03362 TOPRIM_TopoIA_TopoIII TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III | Back alignment and domain information |
|---|
| >cd01028 TOPRIM_TopoIA TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA) | Back alignment and domain information |
|---|
| >cd03361 TOPRIM_TopoIA_RevGyr TopoIA_RevGyr : The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to the ATP-dependent reverse gyrase found in archaea and thermophilic bacteria | Back alignment and domain information |
|---|
| >smart00436 TOP1Bc Bacterial DNA topoisomeraes I ATP-binding domain | Back alignment and domain information |
|---|
| >cd03363 TOPRIM_TopoIA_TopoI TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I | Back alignment and domain information |
|---|
| >PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase | Back alignment and domain information |
|---|
| >COG0551 TopA Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i | Back alignment and domain information |
|---|
| >PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated | Back alignment and domain information |
|---|
| >COG0551 TopA Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins | Back alignment and domain information |
|---|
| >PRK07219 DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >cd01025 TOPRIM_recR TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR | Back alignment and domain information |
|---|
| >cd00188 TOPRIM Topoisomerase-primase domain | Back alignment and domain information |
|---|
| >PRK07561 DNA topoisomerase I subunit omega; Validated | Back alignment and domain information |
|---|
| >PRK06599 DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >cd01027 TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea | Back alignment and domain information |
|---|
| >PRK00076 recR recombination protein RecR; Reviewed | Back alignment and domain information |
|---|
| >PRK05582 DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >PF00098 zf-CCHC: Zinc knuckle; InterPro: IPR001878 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule | Back alignment and domain information |
|---|
| >PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i | Back alignment and domain information |
|---|
| >PF09151 DUF1936: Domain of unknown function (DUF1936); InterPro: IPR015234 This domain is found in a set of hypothetical archaeal proteins | Back alignment and domain information |
|---|
| >smart00437 TOP1Ac Bacterial DNA topoisomerase I DNA-binding domain | Back alignment and domain information |
|---|
| >COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only] | Back alignment and domain information |
|---|
| >PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A | Back alignment and domain information |
|---|
| >KOG2906 consensus RNA polymerase III subunit C11 [Transcription] | Back alignment and domain information |
|---|
| >PF01131 Topoisom_bac: DNA topoisomerase; InterPro: IPR013497 DNA topoisomerases regulate the number of topological links between two DNA strands (i | Back alignment and domain information |
|---|
| >TIGR01057 topA_arch DNA topoisomerase I, archaeal | Back alignment and domain information |
|---|
| >PF13696 zf-CCHC_2: Zinc knuckle | Back alignment and domain information |
|---|
| >PF06839 zf-GRF: GRF zinc finger; InterPro: IPR010666 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule | Back alignment and domain information |
|---|
| >PRK07220 DNA topoisomerase I; Validated | Back alignment and domain information |
|---|
| >COG1594 RPB9 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription] | Back alignment and domain information |
|---|
| >cd00186 TOP1Ac DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases | Back alignment and domain information |
|---|
| >TIGR01051 topA_bact DNA topoisomerase I, bacterial | Back alignment and domain information |
|---|
| >PRK13844 recombination protein RecR; Provisional | Back alignment and domain information |
|---|
| >smart00529 HTH_DTXR Helix-turn-helix diphteria tox regulatory element | Back alignment and domain information |
|---|
| >COG1754 Uncharacterized C-terminal domain of topoisomerase IA [General function prediction only] | Back alignment and domain information |
|---|
| >PRK04031 DNA primase; Provisional | Back alignment and domain information |
|---|
| >TIGR00615 recR recombination protein RecR | Back alignment and domain information |
|---|
| >PRK05776 DNA topoisomerase I; Provisional | Back alignment and domain information |
|---|
| >TIGR01056 topB DNA topoisomerase III, bacteria and conjugative plasmid | Back alignment and domain information |
|---|
| >COG0353 RecR Recombinational DNA repair protein (RecF pathway) [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >PF09664 DUF2399: Protein of unknown function C-terminus (DUF2399); InterPro: IPR024465 This domain is found in archaeal, bacterial and eukaryotic proteins | Back alignment and domain information |
|---|
| >COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >TIGR00334 5S_RNA_mat_M5 ribonuclease M5 | Back alignment and domain information |
|---|
| >PRK14973 DNA topoisomerase I; Provisional | Back alignment and domain information |
|---|
| >PRK07726 DNA topoisomerase III; Provisional | Back alignment and domain information |
|---|
| >PRK03573 transcriptional regulator SlyA; Provisional | Back alignment and domain information |
|---|
| >PRK03564 formate dehydrogenase accessory protein FdhE; Provisional | Back alignment and domain information |
|---|
| >PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr | Back alignment and domain information |
|---|
| >COG0550 TopA Topoisomerase IA [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
| >TIGR01562 FdhE formate dehydrogenase accessory protein FdhE | Back alignment and domain information |
|---|
| >PRK10870 transcriptional repressor MprA; Provisional | Back alignment and domain information |
|---|
| >PRK08173 DNA topoisomerase III; Validated | Back alignment and domain information |
|---|
| >TIGR01384 TFS_arch transcription factor S, archaeal | Back alignment and domain information |
|---|
| >PRK13777 transcriptional regulator Hpr; Provisional | Back alignment and domain information |
|---|
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
| ID | Alignment Graph | Length |
Definition |
E-value | |
| Query | 807 | ||||
| 2gai_A | 633 | Structure Of Full Length Topoisomerase I From Therm | 1e-27 | ||
| 1ecl_A | 597 | Amino Terminal 67kda Domain Of Escherichia Coli Dna | 2e-27 | ||
| 1cy1_A | 599 | Complex Of E.Coli Dna Topoisomerase I With 5'ptptpt | 2e-26 | ||
| 1mw8_X | 592 | Crystal Structure Of A Complex Between H365r Mutant | 7e-26 | ||
| 3pwt_A | 596 | Crystal Structure Of Mutant E.Coli Topoisomerase Ia | 7e-26 | ||
| 3px7_A | 595 | Crystal Structure Of Covalent Complex Of Topoisomer | 6e-25 | ||
| 2o19_A | 659 | Structure Of E. Coli Topoisomersae Iii In Complex W | 1e-23 | ||
| 1d6m_A | 653 | Crystal Structure Of E. Coli Dna Topoisomerase Iii | 1e-23 | ||
| 1i7d_A | 659 | Noncovalent Complex Of E.Coli Dna Topoisomerase Iii | 3e-23 | ||
| 1gl9_B | 1054 | Archaeoglobus Fulgidus Reverse Gyrase Complexed Wit | 3e-16 | ||
| 1gku_B | 1054 | Reverse Gyrase From Archaeoglobus Fulgidus Length = | 3e-16 | ||
| 4ddt_A | 1104 | Thermotoga Maritima Reverse Gyrase, C2 Form 2 Lengt | 1e-13 | ||
| 1cy9_A | 264 | Crystal Structure Of The 30 Kda Fragment Of E. Coli | 4e-09 |
| >pdb|2GAI|A Chain A, Structure Of Full Length Topoisomerase I From Thermotoga Maritima In Triclinic Crystal Form Length = 633 | Back alignment and structure |
|
| >pdb|1ECL|A Chain A, Amino Terminal 67kda Domain Of Escherichia Coli Dna Topoisomerase I (Residues 2-590 Of Mature Protein) Cloning Artifact Adds Two Residues To The Amino-Terminus Which Were Not Observed In The Experimental Electron Density (Gly-2, Ser-1) Length = 597 | Back alignment and structure |
| >pdb|1CY1|A Chain A, Complex Of E.Coli Dna Topoisomerase I With 5'ptptpt Length = 599 | Back alignment and structure |
| >pdb|1MW8|X Chain X, Crystal Structure Of A Complex Between H365r Mutant Of 67 Kda N-Terminal Fragment Of E. Coli Dna Topoisomerase I And 5'-Acttcgggatg-3' Length = 592 | Back alignment and structure |
| >pdb|3PWT|A Chain A, Crystal Structure Of Mutant E.Coli Topoisomerase Ia Length = 596 | Back alignment and structure |
| >pdb|3PX7|A Chain A, Crystal Structure Of Covalent Complex Of Topoisomerase 1a With Substrate Length = 595 | Back alignment and structure |
| >pdb|2O19|A Chain A, Structure Of E. Coli Topoisomersae Iii In Complex With An 8- Base Single Stranded Oligonucleotide. Frozen In Glycerol At Ph 5.5 Length = 659 | Back alignment and structure |
| >pdb|1D6M|A Chain A, Crystal Structure Of E. Coli Dna Topoisomerase Iii Length = 653 | Back alignment and structure |
| >pdb|1I7D|A Chain A, Noncovalent Complex Of E.Coli Dna Topoisomerase Iii With An 8-Base Single-Stranded Dna Oligonucleotide Length = 659 | Back alignment and structure |
| >pdb|1GL9|B Chain B, Archaeoglobus Fulgidus Reverse Gyrase Complexed With Adpnp Length = 1054 | Back alignment and structure |
| >pdb|1GKU|B Chain B, Reverse Gyrase From Archaeoglobus Fulgidus Length = 1054 | Back alignment and structure |
| >pdb|4DDT|A Chain A, Thermotoga Maritima Reverse Gyrase, C2 Form 2 Length = 1104 | Back alignment and structure |
| >pdb|1CY9|A Chain A, Crystal Structure Of The 30 Kda Fragment Of E. Coli Dna Topoisomerase I. Monoclinic Form Length = 264 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex, single-stranded DNA, isomerase/DNA complex; HET: DNA; 2.05A {Escherichia coli} SCOP: e.10.1.1 PDB: 2o5c_A* 2o54_A* 2o59_A* 2o19_A* 2o5e_A* 1d6m_A* Length = 659 | Back alignment and structure |
|---|
Score = 244 bits (624), Expect = 1e-70
Identities = 136/628 (21%), Positives = 238/628 (37%), Gaps = 96/628 (15%)
Query: 14 AEKPSVAKSVAGILSKNQGLRIREGRSRYNKIYEFN--YSIRGQPCHMLMTSVTGHLMEL 71
AEKPS+A+++A +L K R +G + E + T GHL+E
Sbjct: 6 AEKPSLARAIADVLPKPH--RKGDG---F---IECGNGQVV---------TWCIGHLLEQ 48
Query: 72 ----DFDERYRKWHSCDPADLYHAPV-----RKHVPEDKKDIKKTLEEEARRCQWLVLWL 122
+D RY +W + ADL P+ + ++ +V
Sbjct: 49 AQPDAYDSRYARW---NLADL---PIVPEKWQLQPRPSVTKQLNVIKRFLHEASEIVHAG 102
Query: 123 DCDREGENIAFEVIEVCR-AVNCHLVLRRARFSALIDREIHQAVQNLVDPNQWF--ADAV 179
D DREG+ + EV++ + A ++R + L + + +A+ L +++ +
Sbjct: 103 DPDREGQLLVDEVLDYLQLAPEKRQQVQRCLINDLNPQAVERAIDRLRSNSEFVPLCVSA 162
Query: 180 DARQEIDLRIGASFTRFQTMLLKNFHIDSVTDDRNLVLSYGPCQFPTLGFVVERYWEIQA 239
AR D G + TR T+L +N V LS G Q P LG VV R EI+
Sbjct: 163 LARARADWLYGINMTRAYTILGRNAGYQGV-------LSVGRVQTPVLGLVVRRDEEIEN 215
Query: 240 HESEEFWTINCSHKSEEGTA-TFSWMR-----------GHLFDYTSAVIIYEMCVQEPTA 287
+++F+ + + T W G L A + +P A
Sbjct: 216 FVAKDFFEVKAHIVTPADERFTAIWQPSEACEPYQDEEGRLLHRPLAEHVVNRISGQP-A 274
Query: 288 TVTKVRQQEKLKYPPYPLSTIELEKRASRYFRMSSEHTMKVAEDLY-QAGFISYPRTETD 346
VT + + + P P S L+ A++ F +S+++ + + + LY I++PR +D
Sbjct: 275 IVTSYNDKRESESAPLPFSLSALQIEAAKRFGLSAQNVLDICQKLYETHKLITFPR--SD 332
Query: 347 SFSSGTNLHGIVQEQIGHPDWGPYAQRLLDHAAGLWRNPGSGGH--DDK---AHPPIHPT 401
+ + D +P DDK AH I PT
Sbjct: 333 CRYLPEEHFAGRHAVMNA-----ISVHAPDLLPQPVVDPDIRNRCWDDKKVDAHHAIIPT 387
Query: 402 KFSSGESRWSQDHYKLYELVVRHFLACVSQPAVGAETIVEINIAGEVFSTSGRVILAKNY 461
SS + +++ K+Y L+ R +L AV + ++E++IA F R + +
Sbjct: 388 ARSSAIN-LTENEAKVYNLIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGW 446
Query: 462 LDVYRFES----WGGLVIPTYVHGQQFIPTTLTLDSGVTRPPPLLSEADLLSCM------ 511
+ + G +P G + + + T+PP ++A LLS M
Sbjct: 447 RTLLGSKERDEENDGTPLPVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARF 506
Query: 512 -----------DKAGIGTDATMHDHIKKLLDRFYAIKDANTRFAPTNIGEALVMGYDDMG 560
G+GT+AT I+ L R + K T+ G+AL + +
Sbjct: 507 VQDKDLKKILRATDGLGTEATRAGIIELLFKRGFLTKKGRY-IHSTDAGKAL---FHSLP 562
Query: 561 YELWKPNLRSMMESDMKEVSVGNKSKAD 588
+P++ + ES + ++S D
Sbjct: 563 EMATRPDMTAHWESVLTQISEKQCRYQD 590
|
| >1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B* Length = 1054 | Back alignment and structure |
|---|
| >1mw9_X DNA topoisomerase I; decatenase enzyme, toprim domain; HET: DNA; 1.67A {Escherichia coli} SCOP: e.10.1.1 PDB: 1mw8_X* 1cy1_A* 1cy0_A* 1cy2_A* 1cy4_A* 1cy6_A* 1cy7_A* 1cy8_A* 3pwt_A* 3px7_A* 1ecl_A 1cy9_A* 1cyy_A* Length = 592 | Back alignment and structure |
|---|
| >2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga maritima} PDB: 2gaj_A* Length = 633 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 807 | |||
| 2gai_A | 633 | DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A | 100.0 | |
| 1i7d_A | 659 | DNA topoisomerase III; decatenating enzyme, protei | 100.0 | |
| 1mw9_X | 592 | DNA topoisomerase I; decatenase enzyme, toprim dom | 100.0 | |
| 4ddu_A | 1104 | Reverse gyrase; topoisomerase, DNA supercoiling, a | 100.0 | |
| 1gku_B | 1054 | Reverse gyrase, TOP-RG; topoisomerase, DNA superco | 100.0 | |
| 1a6b_B | 40 | Momulv, zinc finger protein NCP10; nucleocapsid pr | 95.33 | |
| 1u6p_A | 56 | GAG polyprotein; MLV, A-minor K-turn, stem loop, b | 94.11 | |
| 2fcj_A | 119 | Small toprim domain protein; structural genomics, | 93.77 | |
| 1dsq_A | 26 | Nucleic acid binding protein P14; CCHC type zinc f | 93.17 | |
| 1vdd_A | 228 | Recombination protein RECR; helix-hairpin-helix, z | 92.6 | |
| 3h0g_I | 113 | DNA-directed RNA polymerases I, II, and III subuni | 91.74 | |
| 1tbx_A | 99 | ORF F-93, hypothetical 11.0 kDa protein; sulfolobu | 91.13 | |
| 2ysa_A | 55 | Retinoblastoma-binding protein 6; zinc finger, CCH | 90.98 | |
| 1nc8_A | 29 | Nucleocapsid protein; HIV-2, RNA recognition, zinc | 89.76 | |
| 1twf_I | 122 | B12.6, DNA-directed RNA polymerase II 14.2 kDa pol | 89.24 | |
| 1t6t_1 | 118 | Putative protein; structural genomics, PSI, protei | 88.62 | |
| 3qt1_I | 133 | DNA-directed RNA polymerases I, II, and III subun; | 88.54 | |
| 1cl4_A | 60 | Protein (GAG polyprotein); nucleocapsid protein, R | 88.05 | |
| 2a51_A | 39 | Nucleocapsid protein; sivlhoest, structure, NCP8, | 84.29 | |
| 2bl6_A | 37 | Nucleocapsid protein P11; lentivirus, polyprotein, | 83.53 | |
| 3g3z_A | 145 | NMB1585, transcriptional regulator, MARR family; t | 83.53 | |
| 4aik_A | 151 | Transcriptional regulator SLYA; transcription, tra | 83.52 | |
| 2hr3_A | 147 | Probable transcriptional regulator; MCSG, structur | 83.49 | |
| 1r7j_A | 95 | Conserved hypothetical protein SSO10A; winged heli | 83.47 | |
| 2ec7_A | 49 | GAG polyprotein (PR55GAG); nucleocapsid protein, H | 83.39 | |
| 2cqf_A | 63 | RNA-binding protein LIN-28; CCHC zinc-finger, stru | 83.31 | |
| 3kp7_A | 151 | Transcriptional regulator TCAR; multiple drug resi | 82.91 | |
| 3boq_A | 160 | Transcriptional regulator, MARR family; MARR famil | 82.33 | |
| 1on2_A | 142 | Transcriptional regulator MNTR; helix-turn-helix, | 81.77 | |
| 2fiy_A | 309 | Protein FDHE homolog; FDHE protein, structural gen | 81.65 | |
| 2a61_A | 145 | Transcriptional regulator TM0710; APC4350, MCSG, m | 81.23 | |
| 3vdp_A | 212 | Recombination protein RECR; zinc finger, DNA repai | 81.07 | |
| 2li8_A | 74 | Protein LIN-28 homolog A; zinc finger, micro RNA, | 80.66 | |
| 1mw9_X | 592 | DNA topoisomerase I; decatenase enzyme, toprim dom | 80.61 | |
| 2cqf_A | 63 | RNA-binding protein LIN-28; CCHC zinc-finger, stru | 80.5 | |
| 2qq9_A | 226 | Diphtheria toxin repressor; regulator, DTXR, helix | 80.37 | |
| 2gxg_A | 146 | 146AA long hypothetical transcriptional regulator; | 80.15 |
| >2gai_A DNA topoisomerase I; zinc ribbon; HET: DNA; 1.70A {Thermotoga maritima} PDB: 2gaj_A* | Back alignment and structure |
|---|
Probab=100.00 E-value=3.3e-140 Score=1233.28 Aligned_cols=603 Identities=22% Similarity=0.268 Sum_probs=479.4
Q ss_pred ceEEEEEcChHHHHHHHHHhCCCCCcccccCcccccceeeeeccccCCCceEEEEeccCcccccccccccCcCcCCCCCC
Q 046997 8 INVLNVAEKPSVAKSVAGILSKNQGLRIREGRSRYNKIYEFNYSIRGQPCHMLMTSVTGHLMELDFDERYRKWHSCDPAD 87 (807)
Q Consensus 8 ~~~LiIaEKPs~Ak~IA~~Lg~~~~~~~~~G~~~~~~~~ef~~~~~g~~~~~~Vt~~~GHl~~l~~p~~y~~W~~~~p~~ 87 (807)
|+.||||||||+|++||++||.+ ++|||+.|||++|+.|+ ..|. +.+
T Consensus 5 mk~LvIaEkPs~Ak~Ia~~Lg~~----------------------------y~Vt~s~GHl~~l~~~~--~~~~---~~~ 51 (633)
T 2gai_A 5 VKKYIVVESPAKAKTIKSILGNE----------------------------YEVFASMGHIIDLPKSK--FGVD---LEK 51 (633)
T ss_dssp --CEEEESCHHHHHHHHHHHGGG----------------------------SEEEECCSCSEESCSSS--CCEE---TTT
T ss_pred CcEEEEEeCHHHHHHHHHHhCCC----------------------------CEEEecccccccCCccC--CCCC---ccc
Confidence 56799999999999999999742 48999999999998663 2343 333
Q ss_pred CCCCCcccccCCChHHHHHHHHHHHhhcCeEEEeecCChhhhHHHHHHHHHhhhcCCCCeEEEEEecccCHHHHHHHHHc
Q 046997 88 LYHAPVRKHVPEDKKDIKKTLEEEARRCQWLVLWLDCDREGENIAFEVIEVCRAVNCHLVLRRARFSALIDREIHQAVQN 167 (807)
Q Consensus 88 L~~~p~~~~v~~~k~~~~~~lk~~~~~~d~IiiAtD~DREGE~I~~ei~~~~~~~~~~~~v~R~~~s~lt~~~I~~A~~n 167 (807)
.| .| .+.+.++++++++.|++++++|| ||||||||||||+|+|||+++++.. ++|+|+|||+||+++|++||+|
T Consensus 52 ~f-~p-~~~~~~~~~~~~~~lk~l~k~ad-iiiAtD~DREGE~I~~~i~~~~~~~---~~v~R~~fs~iT~~aI~~a~~~ 125 (633)
T 2gai_A 52 DF-EP-EFAVIKGKEKVVEKLKDLAKKGE-LLIASDMDREGEAIAWHIARVTNTL---GRKNRIVFSEITPRVIREAVKN 125 (633)
T ss_dssp TS-EE-CCEECTTCHHHHHHHHHHHHHSC-EEECCCSSHHHHHHHHHHHHHHTCT---TSSCBCCCSSCCHHHHHHHHHS
T ss_pred Cc-Cc-eEEECccHHHHHHHHHHHHhhCC-EEEcCCCCcccCHHHHHHHHHcCCC---CCeEEEEEccCCHHHHHHHHhC
Confidence 22 12 23455678899999999999999 9999999999999999999999753 5899999999999999999999
Q ss_pred CCCCCcchHHHHHHHHHHhHhhhccchHHHHHhhhhcccccccccCCcccccCccchhhHHHHHHHHHHHHcccccceEE
Q 046997 168 LVDPNQWFADAVDARQEIDLRIGASFTRFQTMLLKNFHIDSVTDDRNLVLSYGPCQFPTLGFVVERYWEIQAHESEEFWT 247 (807)
Q Consensus 168 l~~~~~~l~~a~~aR~~~D~liG~n~SR~~Tl~~~~~~~~~~~~~~~~~lS~GRVQtPtL~lIv~Re~eI~~F~p~~y~~ 247 (807)
|+++|++|++||+||+++|||||||+||++|+.++ ..||+||||||||+|||+||+||++|+|++||+
T Consensus 126 ~~~~~~~l~~A~~aR~~~D~lvG~n~Sr~l~~~~~------------~~lS~GRVQtptL~lIv~Re~eI~~F~p~~y~~ 193 (633)
T 2gai_A 126 PREIDMKKVRAQLARRILDRIVGYSLSPVLWRNFK------------SNLSAGRVQSATLKLVCDREREILRFVPKKYHR 193 (633)
T ss_dssp CBCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHS------------CCCTTHHHHHHHHHHHHHHHHHHHHCCCCEEEE
T ss_pred CCCCcHHHHHHHHHhhHHHHHhhHHHCHHHHHhhh------------cccccCccchHHHHHHHHHHHHHHhCCCcceEE
Confidence 99999999999999999999999999999998653 379999999999999999999999999999999
Q ss_pred EEEEeecCCceEEEEe--ccCCcCCHHHHHHHHHHhccCCCeEEEEEEeeeeeeCCCCCCCHHHHHHHHHHhcCCCHHHH
Q 046997 248 INCSHKSEEGTATFSW--MRGHLFDYTSAVIIYEMCVQEPTATVTKVRQQEKLKYPPYPLSTIELEKRASRYFRMSSEHT 325 (807)
Q Consensus 248 i~~~~~~~~~~~~~~~--~~~r~~d~~~a~~~~~~~~~~~~~~V~~v~~k~~~~~pP~pf~l~~Lq~~ask~~g~s~~~t 325 (807)
|.+.+. + |.+.| ..++++|++.|+.++ .| ..++|++|++++++++||+||||++||++||++|||||++|
T Consensus 194 i~~~~~--~--~~a~~~~~~~~~~~~~~a~~~~-~~---~~~~V~~v~~k~~~~~pP~pf~ts~LQ~~As~~lg~sa~~t 265 (633)
T 2gai_A 194 ITVNFD--G--LTAEIDVKEKKFFDAETLKEIQ-SI---DELVVEEKKVSVKKFAPPEPFKTSTLQQEAYSKLGFSVSKT 265 (633)
T ss_dssp EEEEET--T--EEEEECCSSCCCCCHHHHHHHH-TC---CCEEEEEEEEEEEEECCCCCBCHHHHHHHHHHHHCCCHHHH
T ss_pred EEEEEe--e--EEEEEecCCcccCCHHHHHHHH-hC---CCeEEEEEEEEEEEecCCCCccHHHHHHHHHHHcCCCHHHH
Confidence 999884 2 77787 346788999999999 77 36999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhc--------CceeccCCCCcccCCcc--cHHHHHHHHhcCCCchhhHHhhcccccCCccCCCCCCCCCCCC
Q 046997 326 MKVAEDLYQA--------GFISYPRTETDSFSSGT--NLHGIVQEQIGHPDWGPYAQRLLDHAAGLWRNPGSGGHDDKAH 395 (807)
Q Consensus 326 l~iaQ~LYE~--------g~ISYPRTds~~l~~~~--~~~~il~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~aH 395 (807)
|++||+|||+ ||||||||||++||++. .+.+++... |+ ..+++..++.|++ +++.++||
T Consensus 266 m~iaQ~LYE~~~~~~~~~glITYpRTDs~~ls~~~~~~~~~~i~~~-----~g---~~~~~~~~r~~~~---~~~~~~aH 334 (633)
T 2gai_A 266 MMIAQQLYEGVETKDGHIAFITYMRTDSTRVSDYAKEEARNLITEV-----FG---EEYVGSKRERRKS---NAKIQDAH 334 (633)
T ss_dssp HHHHHHHHHCEECSSSEECCBCCSCCSCCCCCHHHHHHHHHHHHHH-----TC---GGGBC-----------------CC
T ss_pred HHHHHHHhhccccccCccceEEecCCCccccCHHHHHHHHHHHHHH-----hh---hhhcccCCccccC---CCCcCCCC
Confidence 9999999998 99999999999999875 234444332 22 2334322344432 12335699
Q ss_pred CCCcCCCCCCCC----CCCCHHHHHHHHHHHHHHHHhcCcccEEEEEEEEEEE--CCeEEEEEEEEEEecCeeeeecccc
Q 046997 396 PPIHPTKFSSGE----SRWSQDHYKLYELVVRHFLACVSQPAVGAETIVEINI--AGEVFSTSGRVILAKNYLDVYRFES 469 (807)
Q Consensus 396 ~aI~PT~~~~~~----~~Ls~~e~~vY~lI~rrfla~~~~~a~~~~t~v~~~~--~~~~F~a~g~~i~~~Gw~~v~~~~~ 469 (807)
||||||.....+ ..|+++|++||+||+|||||+||+||+|++|+|++.+ +++.|+++|++++++||++||..
T Consensus 335 ~AI~PT~~~~~p~~~~~~L~~~e~klY~LI~rrflA~~~~~a~~~~t~v~~~~~~~~~~F~a~g~~i~~~G~~~vy~~-- 412 (633)
T 2gai_A 335 EAIRPTNVFMTPEEAGKYLNSDQKKLYELIWKRFLASQMKPSQYEETRFVLRTKDGKYRFKGTVLKKIFDGYEKVWKT-- 412 (633)
T ss_dssp CCBCBSCTTSCHHHHTTTSCHHHHHHHHHHHHHHHHHTBCCEEEEEEEEEEECTTSSCEEEEEEEEEEECGGGGTSCC--
T ss_pred CCcccccccCChhhhhhcCCHHHHHHHHHHHHHHHHHhCchheEEEEEEEEEEeCCCcEEEEEEEEEecCCHHHhhcc--
Confidence 999999864321 4699999999999999999999999999999999999 99999999999999999999942
Q ss_pred cCCccCCccCCCCeeeeeeeEeecCccCCCCCCCHHHHHHHHHhCCCCCccchHHHHHhhcccceEEEcCCceeeechhH
Q 046997 470 WGGLVIPTYVHGQQFIPTTLTLDSGVTRPPPLLSEADLLSCMDKAGIGTDATMHDHIKKLLDRFYAIKDANTRFAPTNIG 549 (807)
Q Consensus 470 ~~~~~lP~l~~G~~~~~~~~~i~e~~T~PP~~~Tea~Li~~Me~~GIGTpATra~iI~~L~~R~Yv~~~~~~~l~pT~~G 549 (807)
+++..||.|++||.+.+.++.+.+++|+||+||||++||++||+.|||||||||+||++|++|+||.++++ .|+||++|
T Consensus 413 ~~~~~LP~l~~G~~~~~~~~~~~~~~T~PP~ryTEasLi~~Me~~GIGtpaT~A~iI~~L~~R~Yv~~~~k-~l~pT~~G 491 (633)
T 2gai_A 413 ERNTGEFPFEEGESVKPVVVKIEEQETKPKPRYTEGSLVKEMERLGIGRPSTYASTIKLLLNRGYIKKIRG-YLYPTIVG 491 (633)
T ss_dssp CCCBCCCCCCTTCEECCCEEEEEEEECCCCCCCCHHHHHHHHHHHTCCCTTTHHHHHHHHHHTTSEEEETT-EEEEBHHH
T ss_pred cccccCCCcCCCCEEEEeEEEEeeeecCCCCCCCHHHHHHHhhccCCCCcccHHHHHHHHhhcCcEEEcCC-EEEEChhH
Confidence 34567999999999999999999999999999999999999999999999999999999999999998754 69999999
Q ss_pred HHHHhhccccCccccCchhhHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhccCCCCCCcc
Q 046997 550 EALVMGYDDMGYELWKPNLRSMMESDMKEVSVGNKSKADVLANCLQQMKACFLDARLKKVKLLEAMGIFFERWSGGEDQQ 629 (807)
Q Consensus 550 ~~li~~l~~~~~~l~~p~~Ta~~E~~L~~I~~G~~~~~~~l~~~~~~~~~~~~~~~~~~~k~~~~~g~fl~cs~~p~~~~ 629 (807)
+.|++.|....++|++|+|||.||+.|++|++|+.++++||+++++.+.+.+...... +.+.. .-..| .-.....
T Consensus 492 ~~l~~~l~~~~~~l~~~~~Ta~~E~~L~~I~~G~~~~~~~l~~~~~~~~~~v~~~~~~---~~~~~-~~~~c-~cg~~~~ 566 (633)
T 2gai_A 492 SVVMDYLEKKYSDVVSVSFTAEMEKDLDEVEQGKKTDKIVLREFYESFSSVFDRNDRI---VVDFP-TNQKC-SCGKEMR 566 (633)
T ss_dssp HHHHHHHHHHSTTTTSHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTTCCTTCCC---CCCEE-EEEEC-TTSCEEE
T ss_pred HHHHHHHHHhhhhhcCHHHHHHHHHHHHHHHcCCcCHHHHHHHHHHHHHHHHHHHHhh---hhhhc-ccchh-hcCceee
Confidence 9999999876668999999999999999999999999999999988776533221100 00000 00012 1000000
Q ss_pred cccccccccCCCCCcceEEEecCCCCceeeccCCCCCCcceecCCCccccccccCccCCCCCCceEEE
Q 046997 630 AAGEVVRQCGICQESNMVLKKSRDGNLMVGCLAFPQCRNAVWLPGSVSEAAVTTNTCNSCTPGPVYLI 697 (807)
Q Consensus 630 ~~~~~~~~CP~C~g~~lv~r~~k~G~~f~gCs~yP~C~~~~~~p~~~~~~~~t~~~CP~Cg~~~l~~~ 697 (807)
......++||+|+.+.|+.+++++|+.||+|+|||+|+|++|.++ .+..||+ | ++++++
T Consensus 567 ~k~g~~G~CP~Cg~g~l~~r~~k~G~~f~gCs~yp~C~f~~~~~p-------~~~~Cp~-~-~~l~~~ 625 (633)
T 2gai_A 567 LSFGKYGFYLKCECGKTRSVKNDEIAVIDDGKIFLGRKDSESGSP-------DGRSVEG-K-GNLSEK 625 (633)
T ss_dssp EEEETTEEEEECSSSCCEECCTTSBCEEETTEEEC---------------------------------
T ss_pred ecccccccCcccCCCcceeecccCCCeEEeCCCCcCCCCeecCCc-------cCCcCCC-C-CeEEEE
Confidence 111234679999438899999999987899999999999999743 4678999 7 566644
|
| >1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex, single-stranded DNA, isomerase/DNA complex; HET: DNA; 2.05A {Escherichia coli} SCOP: e.10.1.1 PDB: 2o5c_A* 2o54_A* 2o59_A* 2o19_A* 2o5e_A* 1d6m_A* | Back alignment and structure |
|---|
| >1mw9_X DNA topoisomerase I; decatenase enzyme, toprim domain; HET: DNA; 1.67A {Escherichia coli} SCOP: e.10.1.1 PDB: 1mw8_X* 1cy1_A* 1cy0_A* 1cy2_A* 1cy4_A* 1cy6_A* 1cy7_A* 1cy8_A* 3pwt_A* 3px7_A* 1ecl_A 1cy9_A* 1cyy_A* | Back alignment and structure |
|---|
| >4ddu_A Reverse gyrase; topoisomerase, DNA supercoiling, archaea, helicase, hydrolas; 3.00A {Thermotoga maritima} PDB: 4ddt_A 4ddv_A 4ddw_A 4ddx_A | Back alignment and structure |
|---|
| >1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea, helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16 c.37.1.16 e.10.1.1 PDB: 1gl9_B* | Back alignment and structure |
|---|
| >1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1 | Back alignment and structure |
|---|
| >1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A | Back alignment and structure |
|---|
| >2fcj_A Small toprim domain protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 1.30A {Geobacillus stearothermophilus} SCOP: c.136.1.1 PDB: 2i5r_A* | Back alignment and structure |
|---|
| >1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1 | Back alignment and structure |
|---|
| >1vdd_A Recombination protein RECR; helix-hairpin-helix, zinc finger, toprim, walker B ATP binding motif; 2.50A {Deinococcus radiodurans} SCOP: e.49.1.1 PDB: 2v1c_A | Back alignment and structure |
|---|
| >3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} | Back alignment and structure |
|---|
| >1tbx_A ORF F-93, hypothetical 11.0 kDa protein; sulfolobus spindle virus, winged helix, fusellovirus; 2.70A {Sulfolobus virus 1} SCOP: a.4.5.48 | Back alignment and structure |
|---|
| >2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A | Back alignment and structure |
|---|
| >1twf_I B12.6, DNA-directed RNA polymerase II 14.2 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.3.1 g.41.3.1 PDB: 1i3q_I 1i6h_I 1k83_I* 1nik_I 1nt9_I 1pqv_I 1r5u_I 1r9s_I* 1r9t_I* 1sfo_I* 1twa_I* 1twc_I* 1i50_I* 1twg_I* 1twh_I* 1wcm_I 1y1v_I 1y1w_I 1y1y_I 1y77_I* ... | Back alignment and structure |
|---|
| >1t6t_1 Putative protein; structural genomics, PSI, protein structur initiative, midwest center for structural genomics, MCSG, U function; 1.80A {Aquifex aeolicus} SCOP: c.136.1.1 | Back alignment and structure |
|---|
| >3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae} | Back alignment and structure |
|---|
| >1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A | Back alignment and structure |
|---|
| >2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic} | Back alignment and structure |
|---|
| >2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus} | Back alignment and structure |
|---|
| >3g3z_A NMB1585, transcriptional regulator, MARR family; transcription factor, structur genomics, oxford protein production facility; 2.10A {Neisseria meningitidis serogroup B} | Back alignment and structure |
|---|
| >4aik_A Transcriptional regulator SLYA; transcription, transcription factor; 1.85A {Yersinia pseudotuberculosis} PDB: 4aih_A 4aij_A 3qpt_A* 3q5f_A* | Back alignment and structure |
|---|
| >2hr3_A Probable transcriptional regulator; MCSG, structural genomics, PSI-2, protein structure initiati midwest center for structural genomics; 2.40A {Pseudomonas aeruginosa} SCOP: a.4.5.28 | Back alignment and structure |
|---|
| >1r7j_A Conserved hypothetical protein SSO10A; winged helix-turn-helix, two-stranded antiparallel coiled CO structural genomics, PSI; 1.47A {Sulfolobus solfataricus} SCOP: a.4.5.49 PDB: 1xsx_A | Back alignment and structure |
|---|
| >2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1 | Back alignment and structure |
|---|
| >2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >3kp7_A Transcriptional regulator TCAR; multiple drug resistance, biofilm, transcription regulation, binding, transcription regulator; 2.30A {Staphylococcus epidermidis RP62A} PDB: 3kp3_A* 3kp4_A* 3kp5_A* 3kp2_A* 3kp6_A | Back alignment and structure |
|---|
| >3boq_A Transcriptional regulator, MARR family; MARR famil structural genomics, PSI-2, protein structure initiative; 2.39A {Silicibacter pomeroyi dss-3} | Back alignment and structure |
|---|
| >1on2_A Transcriptional regulator MNTR; helix-turn-helix, DNA-binding protein, metalloregulatory protein; 1.61A {Bacillus subtilis} SCOP: a.4.5.24 a.76.1.1 PDB: 2ev0_A 1on1_A 2ev5_A 2ev6_A* 2f5c_A 2f5d_A 2f5e_A 2f5f_A 2hyf_A* 2hyg_D 3r60_A* 3r61_A* | Back alignment and structure |
|---|
| >2fiy_A Protein FDHE homolog; FDHE protein, structural genomics, P protein structure initiative, midwest center for structural genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP: e.59.1.1 | Back alignment and structure |
|---|
| >2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for structural genomics, PSI, protein structure initiative, MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28 | Back alignment and structure |
|---|
| >3vdp_A Recombination protein RECR; zinc finger, DNA repair, DNA binding; 2.45A {Thermoanaerobacter tengcongensis} PDB: 3vdu_A 3ve5_D | Back alignment and structure |
|---|
| >2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >1mw9_X DNA topoisomerase I; decatenase enzyme, toprim domain; HET: DNA; 1.67A {Escherichia coli} SCOP: e.10.1.1 PDB: 1mw8_X* 1cy1_A* 1cy0_A* 1cy2_A* 1cy4_A* 1cy6_A* 1cy7_A* 1cy8_A* 3pwt_A* 3px7_A* 1ecl_A 1cy9_A* 1cyy_A* | Back alignment and structure |
|---|
| >2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} | Back alignment and structure |
|---|
| >2qq9_A Diphtheria toxin repressor; regulator, DTXR, helix-turn-helix, metal ION, ACT DNA-binding, ferrous iron, transcription; 1.71A {Corynebacterium diphtheriae} PDB: 2tdx_A 1ddn_A 1g3t_A 1g3s_A 1g3w_A 2qqa_A 2qqb_A 2dtr_A 1bi0_A 1bi2_A 1bi3_A 1dpr_A 1bi1_A 1fwz_A 1g3y_A 1c0w_A* 3glx_A 1p92_A 1xcv_A 1f5t_A ... | Back alignment and structure |
|---|
| >2gxg_A 146AA long hypothetical transcriptional regulator; winged helix; 1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A 3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A | Back alignment and structure |
|---|
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
E-value |
| 807 | ||||
| d1mw9x_ | 591 | e.10.1.1 (X:) DNA topoisomerase I, 67K N-terminal | 1e-107 | |
| d1i7da_ | 620 | e.10.1.1 (A:) DNA topoisomerase III {Escherichia c | 2e-86 | |
| d1gkub3 | 556 | e.10.1.1 (B:499-1054) Topoisomerase "domain" of re | 1e-81 | |
| d1cy9a_ | 260 | e.10.1.1 (A:) DNA topoisomerase I, 67K N-terminal | 3e-29 |
| >d1mw9x_ e.10.1.1 (X:) DNA topoisomerase I, 67K N-terminal domain {Escherichia coli [TaxId: 562]} Length = 591 | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: Prokaryotic type I DNA topoisomerase superfamily: Prokaryotic type I DNA topoisomerase family: Prokaryotic type I DNA topoisomerase domain: DNA topoisomerase I, 67K N-terminal domain species: Escherichia coli [TaxId: 562]
Score = 338 bits (866), Expect = e-107
Identities = 135/597 (22%), Positives = 224/597 (37%), Gaps = 36/597 (6%)
Query: 10 VLNVAEKPSVAKSVAGILSKNQGLRIREGRSRYNKIYEFNYSIRGQPCHMLMTSV-TGHL 68
L + E P+ AK++ L + +S I + S TS T
Sbjct: 3 ALVIVESPAKAKTINKYLGSD-----YVVKSSVGHIRDLPTSGSAAKKSADSTSTKTAKK 57
Query: 69 MELDFDERYRKWHSCDPADLYHAPVRKHVPEDKKDIKKTLEEEARRCQWLVLWLDCDREG 128
+ D DP + A V K+ + L++ A + + L D DREG
Sbjct: 58 PKKDERGALVNRMGVDPWHNWEAHYE--VLPGKEKVVSELKQLAEKADHIYLATDLDREG 115
Query: 129 ENIAFEVIEVCRAVNCHLVLRRARFSALIDREIHQAVQNLVDPNQWFADAVDARQEIDLR 188
E IA+ + EV + R F+ + I QA + N +A AR+ +D
Sbjct: 116 EAIAWHLREVIGGDDA--RYSRVVFNEITKNAIRQAFNKPGELNIDRVNAQQARRFMDRV 173
Query: 189 IGASFTRFQTMLLKNFHIDSVTDDRNLVLSYGPCQFPTLGFVVERYWEIQAHESEEFWTI 248
+G + + LS G Q + VVER EI+A EEFW +
Sbjct: 174 VGYMVSPLLWKKIARG------------LSAGRVQSVAVRLVVEREREIKAFVPEEFWEV 221
Query: 249 NCSHKSEEGTATFSWM---RGHLFDYTSAVIIYEMCVQEPTATVTKVRQQEKLKY--PPY 303
+ S + G A + F + A + + +++K P
Sbjct: 222 DASTTTPSGEALALQVTHQNDKPFRPVNKEQTQAAVSLLEKARYSVLEREDKPTTSKPGA 281
Query: 304 PLSTIELEKRASRYFRMSSEHTMKVAEDLYQAGFISYPRTETDSFSSGTNLHGIVQEQIG 363
P T L++ AS + TM +A+ LY+AG+I+Y RT DS + + +V+ I
Sbjct: 282 PFITSTLQQAASTRLGFGVKKTMMMAQRLYEAGYITYMRT--DSTNLSQDAVNMVRGYI- 338
Query: 364 HPDWGPYAQRLLDHAAGLWRNPGSGGHDDKAHPPIHPTKFSSGESRWSQDHYKLYELVVR 423
+ ++ L + + + + +A P + D KLY+L+ R
Sbjct: 339 ---SDNFGKKYLPESPNQYASKENSQEAREAIRPSDVNVMAESLKDMEADAQKLYQLIWR 395
Query: 424 HFLACVSQPAVGAETIVEINIAGEVFSTSGRVILAKNYLDVYRFESWG--GLVIPTYVHG 481
F+AC PA T + + GR++ + V G ++P G
Sbjct: 396 QFVACQMTPAKYDSTTLTVGAGDFRLKARGRILRFDGWTKVMPALRKGDEDRILPAVNKG 455
Query: 482 QQFIPTTLTLDSGVTRPPPLLSEADLLSCMDKAGIGTDATMHDHIKKLLDRFYAIKDANT 541
LT T+PP SEA L+ ++K GIG +T I + DR Y + N
Sbjct: 456 DALTLVELTPAQHFTKPPARFSEASLVKELEKRGIGRPSTYASIISTIQDRGYVRVE-NR 514
Query: 542 RFAPTNIGEALVMGYDDMGYELWKPNLRSMMESDMKEVSVGNKSKADVLANCLQQMK 598
RF +GE + ++ EL + + ME+++ +V+ VL +
Sbjct: 515 RFYAEKMGEIVTDRLEENFRELMNYDFTAQMENNLDQVANHEAEWKAVLDHFFSDFT 571
|
| >d1i7da_ e.10.1.1 (A:) DNA topoisomerase III {Escherichia coli [TaxId: 562]} Length = 620 | Back information, alignment and structure |
|---|
| >d1gkub3 e.10.1.1 (B:499-1054) Topoisomerase "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 556 | Back information, alignment and structure |
|---|
| >d1cy9a_ e.10.1.1 (A:) DNA topoisomerase I, 67K N-terminal domain {Escherichia coli [TaxId: 562]} Length = 260 | 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 | 807 | |||
| d1i7da_ | 620 | DNA topoisomerase III {Escherichia coli [TaxId: 56 | 100.0 | |
| d1mw9x_ | 591 | DNA topoisomerase I, 67K N-terminal domain {Escher | 100.0 | |
| d1gkub3 | 556 | Topoisomerase "domain" of reverse gyrase {Archaeon | 100.0 | |
| d1cy9a_ | 260 | DNA topoisomerase I, 67K N-terminal domain {Escher | 100.0 | |
| d1pvma3 | 36 | Hypothetical protein Ta0289 C-terminal domain {Arc | 94.37 | |
| d1a6bb_ | 40 | Zinc finger protein ncp10 {Moloney murine leukemia | 93.04 | |
| d2exfa1 | 42 | HIV nucleocapsid {Human immunodeficiency virus typ | 89.86 | |
| d2a61a1 | 139 | Transcriptional regulator TM0710 {Thermotoga marit | 89.75 | |
| d1vdda_ | 199 | Recombination protein RecR {Deinococcus radioduran | 89.19 | |
| d1dsqa_ | 26 | Nucleic acid binding protein p14 {Mouse mammary tu | 89.02 | |
| d2etha1 | 140 | Putative transcriptional regulator TM0816 {Thermot | 87.29 | |
| d1mw9x_ | 591 | DNA topoisomerase I, 67K N-terminal domain {Escher | 87.15 | |
| d1s3ja_ | 143 | Putative transcriptional regulator YusO {Bacillus | 87.09 | |
| d2fbha1 | 137 | Transcriptional regulator PA3341 {Pseudomonas aeru | 84.86 | |
| d1lj9a_ | 144 | Transcriptional regulator SlyA {Enterococcus faeca | 84.24 | |
| d1q1ha_ | 88 | Transcription factor E/IIe-alpha, N-terminal domai | 83.12 | |
| d2fbka1 | 172 | Transcriptional regulator DR1159 {Deinococcus radi | 82.56 | |
| d1stza1 | 87 | Heat-inducible transcription repressor HrcA, N-ter | 82.01 | |
| d1r7ja_ | 90 | Sso10a (SSO10449) {Archaeon Sulfolobus solfataricu | 81.42 | |
| d2fxaa1 | 162 | Protease production regulatory protein Hpr {Bacill | 81.03 | |
| d2hr3a1 | 145 | Probable transcriptional regulator PA3067 {Pseudom | 80.38 | |
| d2exfa1 | 42 | HIV nucleocapsid {Human immunodeficiency virus typ | 80.25 |
| >d1i7da_ e.10.1.1 (A:) DNA topoisomerase III {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: Prokaryotic type I DNA topoisomerase superfamily: Prokaryotic type I DNA topoisomerase family: Prokaryotic type I DNA topoisomerase domain: DNA topoisomerase III species: Escherichia coli [TaxId: 562]
Probab=100.00 E-value=3.5e-126 Score=1118.08 Aligned_cols=562 Identities=24% Similarity=0.325 Sum_probs=472.6
Q ss_pred ceEEEEEcChHHHHHHHHHhCCCCCcccccCcccccceeeeeccccCCCceEEEEeccCcccccccccccC-cCcCCCCC
Q 046997 8 INVLNVAEKPSVAKSVAGILSKNQGLRIREGRSRYNKIYEFNYSIRGQPCHMLMTSVTGHLMELDFDERYR-KWHSCDPA 86 (807)
Q Consensus 8 ~~~LiIaEKPs~Ak~IA~~Lg~~~~~~~~~G~~~~~~~~ef~~~~~g~~~~~~Vt~~~GHl~~l~~p~~y~-~W~~~~p~ 86 (807)
|| ||||||||+|++||++||+.. ++.+|+ ...|. +++|||+.|||++|++|++|. .|..|+..
T Consensus 1 Mk-LiIaEkPs~Ak~Ia~~Lg~~~--~~~~g~-----------~~~g~--~~~Vt~~~GHl~~l~~p~~~~~~~~~w~~~ 64 (620)
T d1i7da_ 1 MR-LFIAEKPSLARAIADVLPKPH--RKGDGF-----------IECGN--GQVVTWCIGHLLEQAQPDAYDSRYARWNLA 64 (620)
T ss_dssp CE-EEEESSHHHHHHHHTTSCSCC--EEETTE-----------EEETT--TEEEEECSSCSEEECCHHHHCGGGGSCCST
T ss_pred Ce-EEEECCHHHHHHHHHHhCCcc--ccCCCc-----------eecCC--CeEEEEeCCcCcCCCCchhccccccCCccc
Confidence 66 999999999999999999763 566673 22243 589999999999999887763 33333333
Q ss_pred CCCCCCc--ccccCCChHHHHHHHHHHHhhcCeEEEeecCChhhhHHHHHHHHHhhhc-CCCCeEEEEEecccCHHHHHH
Q 046997 87 DLYHAPV--RKHVPEDKKDIKKTLEEEARRCQWLVLWLDCDREGENIAFEVIEVCRAV-NCHLVLRRARFSALIDREIHQ 163 (807)
Q Consensus 87 ~L~~~p~--~~~v~~~k~~~~~~lk~~~~~~d~IiiAtD~DREGE~I~~ei~~~~~~~-~~~~~v~R~~~s~lt~~~I~~ 163 (807)
+|+..|. ...+..+++++++.|++++++||.||||||||||||+|||||+++|+.. +.+++|+|+|||+||+++|++
T Consensus 65 ~lp~~p~~~~~~~~~~~~k~~~~lk~l~k~ad~iilAtD~DREGE~Ia~~i~~~~~~~~~~~~~v~R~~f~~iT~~aI~~ 144 (620)
T d1i7da_ 65 DLPIVPEKWQLQPRPSVTKQLNVIKRFLHEASEIVHAGDPDREGQLLVDEVLDYLQLAPEKRQQVQRCLINDLNPQAVER 144 (620)
T ss_dssp TCSCCCSSCCEEECGGGHHHHHHHHHHHHHCSEEEEECCSSHHHHHHHHHHHHHTTCCHHHHHTCEECCCSCCSHHHHHH
T ss_pred cCCCCCccceeeeCccHHHHHHHHHHHHhcCCEEEEcCCCCcchhHHHHHHHHHhccccccCCceEEEEeecCcHHHHHH
Confidence 3444332 2334456788999999999999999999999999999999999999742 124579999999999999999
Q ss_pred HHHcCCCCC--cchHHHHHHHHHHhHhhhccchHHHHHhhhhcccccccccCCcccccCccchhhHHHHHHHHHHHHccc
Q 046997 164 AVQNLVDPN--QWFADAVDARQEIDLRIGASFTRFQTMLLKNFHIDSVTDDRNLVLSYGPCQFPTLGFVVERYWEIQAHE 241 (807)
Q Consensus 164 A~~nl~~~~--~~l~~a~~aR~~~D~liG~n~SR~~Tl~~~~~~~~~~~~~~~~~lS~GRVQtPtL~lIv~Re~eI~~F~ 241 (807)
||+||++++ .++++||+|||++||+||||+||++|++++..+ ...++|+||||||||+|||+||+||++|+
T Consensus 145 A~~n~~~~~~~~~l~~a~~aR~~~D~liG~~~Sr~~t~~~~~~~-------~~~~lS~GRVQtPtL~lIveRe~eI~~F~ 217 (620)
T d1i7da_ 145 AIDRLRSNSEFVPLCVSALARARADWLYGINMTRAYTILGRNAG-------YQGVLSVGRVQTPVLGLVVRRDEEIENFV 217 (620)
T ss_dssp HHTTCEEGGGGHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT-------CCSCCCCCTTHHHHHHHHHHHHHHHHTCC
T ss_pred HHHhcCCchhhhhHHHHHHHhHHHHhhcCcchhHHHHHHHhhcC-------CCccccccccccchhhhHHHHHHHHhhcc
Confidence 999999988 478999999999999999999999999887621 23589999999999999999999999999
Q ss_pred ccceEEEEEEeecCCc-eEEEEec-----------cCCcCCHHHHHHHHHHhccCCCeEEEEEEeeeeeeCCCCCCCHHH
Q 046997 242 SEEFWTINCSHKSEEG-TATFSWM-----------RGHLFDYTSAVIIYEMCVQEPTATVTKVRQQEKLKYPPYPLSTIE 309 (807)
Q Consensus 242 p~~y~~i~~~~~~~~~-~~~~~~~-----------~~r~~d~~~a~~~~~~~~~~~~~~V~~v~~k~~~~~pP~pf~l~~ 309 (807)
|++||.|.+.+...++ .+.+.|. +++++|+..|+.+++.+.. ..++|++|+++++++.||+||+|++
T Consensus 218 p~~y~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~V~~v~~k~~~~~pP~Pf~ts~ 296 (620)
T d1i7da_ 218 AKDFFEVKAHIVTPADERFTAIWQPSEACEPYQDEEGRLLHRPLAEHVVNRISG-QPAIVTSYNDKRESESAPLPFSLSA 296 (620)
T ss_dssp CCEEEEEEEEEECTTCCEEEEEECCCGGGTTTBCTTCCBCCHHHHHHHHHHHSS-CEEECCEEEEEEEEECCCCSBCHHH
T ss_pred ccceeeeeeEeccccchhhhhhhcccccccccchhhhhHhHHHHHHHHHHHhcc-CCeEEEEecccceecCCCcccchHH
Confidence 9999999999976544 5777774 3578899999999999975 4689999999999999999999999
Q ss_pred HHHHHHHhcCCCHHHHHHHHHHHhhc-CceeccCCCCcccCCcc--cHHHHHHHHhcCCCchhhHHhhccccc--CCccC
Q 046997 310 LEKRASRYFRMSSEHTMKVAEDLYQA-GFISYPRTETDSFSSGT--NLHGIVQEQIGHPDWGPYAQRLLDHAA--GLWRN 384 (807)
Q Consensus 310 Lq~~ask~~g~s~~~tl~iaQ~LYE~-g~ISYPRTds~~l~~~~--~~~~il~~~~~~~~~~~~~~~~l~~~~--~~~~~ 384 (807)
||++||++|||||++||++||+|||+ ||||||||||++||++. .+..+++.+.. +...++.... .....
T Consensus 297 LQ~~As~~lg~s~~~tm~iAQ~LYe~~glITYpRTDS~~ls~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~ 370 (620)
T d1i7da_ 297 LQIEAAKRFGLSAQNVLDICQKLYETHKLITFPRSDCRYLPEEHFAGRHAVMNAISV------HAPDLLPQPVVDPDIRN 370 (620)
T ss_dssp HHHHHHHHHCCCHHHHHHHHHHHHHTSCCBSCSSCCCCCBCGGGGGGHHHHHHHHHH------HSTTTCCCTTCCTTCCC
T ss_pred HHHHhhhhcCCcHHHHHHHHHHHHHhcCceecccCccccCcHHHHHHHHHHHHHhhc------ccccccccccccccccc
Confidence 99999999999999999999999997 99999999999999875 34445544321 1111111000 00000
Q ss_pred CCCCCCCCCCCCCCcCCCCCCCCCCCCHHHHHHHHHHHHHHHHhcCcccEEEEEEEEEEECCeEEEEEEEEEEecCeeee
Q 046997 385 PGSGGHDDKAHPPIHPTKFSSGESRWSQDHYKLYELVVRHFLACVSQPAVGAETIVEINIAGEVFSTSGRVILAKNYLDV 464 (807)
Q Consensus 385 ~~~~~~~~~aH~aI~PT~~~~~~~~Ls~~e~~vY~lI~rrfla~~~~~a~~~~t~v~~~~~~~~F~a~g~~i~~~Gw~~v 464 (807)
...+...++|||||+||...+ ...|+++|++||+||||||||+||+||+|+.|++++.++++.|.++|++++++||+.+
T Consensus 371 ~~~~~~~~~aH~aI~Pt~~~~-~~~l~~~e~klY~LI~~r~las~~~~a~~~~t~~~~~~~~~~F~~~g~~i~~~Gw~~v 449 (620)
T d1i7da_ 371 RCWDDKKVDAHHAIIPTARSS-AINLTENEAKVYNLIARQYLMQFCPDAVFRKCVIELDIAKGKFVAKARFLAEAGWRTL 449 (620)
T ss_dssp TTBCGGGCCSSCCBCBCSCCS-CCCCCHHHHHHHHHHHHHHHHTTSCCEEEEEEEEEECSTTCCEEECEEEEEECGGGGG
T ss_pred cccCCcccCCcccccccchhh-ccCCCHHHHHHHHHHHHHHHHhhCcchhccceEEEEEeccccccccccccccCceeee
Confidence 101112457999999998654 3578999999999999999999999999999999999999999999999999999999
Q ss_pred eccccc----CCccCCccCCCCeeeeeeeEeecCccCCCCCCCHHHHHHHHHh-----------------CCCCCccchH
Q 046997 465 YRFESW----GGLVIPTYVHGQQFIPTTLTLDSGVTRPPPLLSEADLLSCMDK-----------------AGIGTDATMH 523 (807)
Q Consensus 465 ~~~~~~----~~~~lP~l~~G~~~~~~~~~i~e~~T~PP~~~Tea~Li~~Me~-----------------~GIGTpATra 523 (807)
|+.+.. ++..||.+.+|+.+.+.++.+.+++|+||+||||++||++||+ .|||||||||
T Consensus 450 ~~~~~~~~~~~~~~lp~l~~g~~~~~~~~~~~e~~T~PP~ryTEasLi~~Me~~~k~~~d~~l~~~l~~~~GIGtpaT~a 529 (620)
T d1i7da_ 450 LGSKERDEENDGTPLPVVAKGDELLCEKGEVVERQTQPPRHFTDATLLSAMTGIARFVQDKDLKKILRATDGLGTEATRA 529 (620)
T ss_dssp SCTTGGGTTCEECCCCCCCTTCEEEEEEEEEEEEECCCCCCEEHHHHHHHHHTGGGGCCCHHHHHHHHHTTSSSCTTTHH
T ss_pred ecccccchhcccccccccccCCeecccccccccccCCCCCCCCHHHHHHHHHhhccccccHHHHHhhcccCCCCccccHH
Confidence 975432 2347999999999999999999999999999999999999984 5999999999
Q ss_pred HHHHhhcccceEEEcCCceeeechhHHHHHhhccccCccccCchhhHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHHH
Q 046997 524 DHIKKLLDRFYAIKDANTRFAPTNIGEALVMGYDDMGYELWKPNLRSMMESDMKEVSVGNKSKADVLANCLQQMKACFLD 603 (807)
Q Consensus 524 ~iI~~L~~R~Yv~~~~~~~l~pT~~G~~li~~l~~~~~~l~~p~~Ta~~E~~L~~I~~G~~~~~~~l~~~~~~~~~~~~~ 603 (807)
+||++|++||||.++++ .|+||++|+.|++.|+. .+.+|+|||.||..|++|++|+.++++||+++++.+.+.+.+
T Consensus 530 ~iI~~L~~R~Yv~~~~k-~l~pT~~G~~l~~~l~~---~~~~~~~Ta~~E~~Ld~I~~G~~~~~~~l~~~~~~~~~~v~~ 605 (620)
T d1i7da_ 530 GIIELLFKRGFLTKKGR-YIHSTDAGKALFHSLPE---MATRPDMTAHWESVLTQISEKQCRYQDFMQPLVGTLYQLIDQ 605 (620)
T ss_dssp HHHHHHHHTTSEEESSS-EEEECHHHHHHHHHSCH---HHHSTHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhCCcEEecCC-EEeecHHHHHHHHHHHH---hcCCHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHH
Confidence 99999999999998754 68999999999999875 488999999999999999999999999999999988876654
Q ss_pred H
Q 046997 604 A 604 (807)
Q Consensus 604 ~ 604 (807)
.
T Consensus 606 ~ 606 (620)
T d1i7da_ 606 A 606 (620)
T ss_dssp H
T ss_pred H
Confidence 3
|
| >d1mw9x_ e.10.1.1 (X:) DNA topoisomerase I, 67K N-terminal domain {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
| >d1gkub3 e.10.1.1 (B:499-1054) Topoisomerase "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} | Back information, alignment and structure |
|---|
| >d1cy9a_ e.10.1.1 (A:) DNA topoisomerase I, 67K N-terminal domain {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
| >d1pvma3 g.41.13.1 (A:143-178) Hypothetical protein Ta0289 C-terminal domain {Archaeon Thermoplasma acidophilum [TaxId: 2303]} | Back information, alignment and structure |
|---|
| >d1a6bb_ g.40.1.1 (B:) Zinc finger protein ncp10 {Moloney murine leukemia virus, MoMLV [TaxId: 11801]} | Back information, alignment and structure |
|---|
| >d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} | Back information, alignment and structure |
|---|
| >d2a61a1 a.4.5.28 (A:5-143) Transcriptional regulator TM0710 {Thermotoga maritima [TaxId: 2336]} | Back information, alignment and structure |
|---|
| >d1vdda_ e.49.1.1 (A:) Recombination protein RecR {Deinococcus radiodurans [TaxId: 1299]} | Back information, alignment and structure |
|---|
| >d1dsqa_ g.40.1.1 (A:) Nucleic acid binding protein p14 {Mouse mammary tumor virus [TaxId: 11757]} | Back information, alignment and structure |
|---|
| >d2etha1 a.4.5.28 (A:1-140) Putative transcriptional regulator TM0816 {Thermotoga maritima [TaxId: 2336]} | Back information, alignment and structure |
|---|
| >d1mw9x_ e.10.1.1 (X:) DNA topoisomerase I, 67K N-terminal domain {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
| >d1s3ja_ a.4.5.28 (A:) Putative transcriptional regulator YusO {Bacillus subtilis [TaxId: 1423]} | Back information, alignment and structure |
|---|
| >d2fbha1 a.4.5.28 (A:8-144) Transcriptional regulator PA3341 {Pseudomonas aeruginosa [TaxId: 287]} | Back information, alignment and structure |
|---|
| >d1lj9a_ a.4.5.28 (A:) Transcriptional regulator SlyA {Enterococcus faecalis [TaxId: 1351]} | Back information, alignment and structure |
|---|
| >d1q1ha_ a.4.5.41 (A:) Transcription factor E/IIe-alpha, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]} | Back information, alignment and structure |
|---|
| >d2fbka1 a.4.5.28 (A:8-179) Transcriptional regulator DR1159 {Deinococcus radiodurans [TaxId: 1299]} | Back information, alignment and structure |
|---|
| >d1stza1 a.4.5.51 (A:14-100) Heat-inducible transcription repressor HrcA, N-terminal domain {Thermotoga maritima [TaxId: 2336]} | Back information, alignment and structure |
|---|
| >d1r7ja_ a.4.5.49 (A:) Sso10a (SSO10449) {Archaeon Sulfolobus solfataricus [TaxId: 2287]} | Back information, alignment and structure |
|---|
| >d2fxaa1 a.4.5.28 (A:6-167) Protease production regulatory protein Hpr {Bacillus subtilis [TaxId: 1423]} | Back information, alignment and structure |
|---|
| >d2hr3a1 a.4.5.28 (A:2-146) Probable transcriptional regulator PA3067 {Pseudomonas aeruginosa [TaxId: 287]} | Back information, alignment and structure |
|---|
| >d2exfa1 g.40.1.1 (A:12-53) HIV nucleocapsid {Human immunodeficiency virus type 1, different isolates [TaxId: 11676]} | Back information, alignment and structure |
|---|