Query gi|254780134|ref|YP_003064547.1| phage-related integrase/recombinase [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 348
No_of_seqs 161 out of 6694
Neff 9.6
Searched_HMMs 13730
Date Sun May 22 21:56:25 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780134.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 d1aiha_ d.163.1.1 (A:) Integra 99.9 6E-25 4.4E-29 177.7 7.6 149 170-327 3-153 (170)
2 d1a0pa2 d.163.1.1 (A:111-292) 99.9 5.4E-23 4E-27 165.0 8.6 153 173-326 2-173 (182)
3 d1ae9a_ d.163.1.1 (A:) Integra 99.8 6.4E-22 4.7E-26 158.1 6.7 152 172-324 2-168 (179)
4 d1f44a2 d.163.1.1 (A:130-343) 99.8 4.7E-20 3.4E-24 145.9 13.0 158 170-327 4-200 (214)
5 d1a0pa1 a.60.9.1 (A:3-100) Rec 98.9 3.5E-09 2.5E-13 75.3 8.1 88 74-161 5-98 (98)
6 d1f44a1 a.60.9.1 (A:20-129) Cr 97.3 0.00039 2.8E-08 42.4 7.2 78 74-151 4-87 (110)
7 d1a41a_ d.163.1.2 (A:) Eukaryo 92.5 0.16 1.2E-05 25.4 6.1 120 195-325 40-197 (230)
8 d1k4ta2 d.163.1.2 (A:431-640,A 87.0 0.7 5.1E-05 21.2 8.1 97 194-299 47-169 (263)
9 d1z1ba1 d.10.1.4 (A:11-59) lam 82.0 0.69 5E-05 21.3 3.7 28 6-37 1-29 (49)
10 d1p4ea2 d.163.1.1 (A:136-422) 45.5 6.4 0.00047 15.0 8.6 130 194-325 45-211 (287)
11 d1hmja_ d.78.1.1 (A:) RNA poly 41.5 4.9 0.00036 15.8 1.4 45 171-216 3-52 (68)
12 d1dzfa2 d.78.1.1 (A:144-215) E 28.4 4.2 0.0003 16.2 -0.7 46 170-216 9-59 (72)
13 d2dw4a1 a.4.1.18 (A:172-273) L 27.1 12 0.00091 13.1 4.3 66 88-159 32-97 (102)
14 d1eika_ d.78.1.1 (A:) RNA poly 21.7 4.9 0.00036 15.7 -1.4 45 171-216 14-63 (77)
15 d1ijwc_ a.4.1.2 (C:) HIN recom 21.2 16 0.0012 12.4 4.4 31 292-323 12-42 (47)
16 d1j09a1 a.97.1.1 (A:306-468) C 20.7 17 0.0012 12.3 2.8 49 263-313 101-151 (163)
No 1
>d1aiha_ d.163.1.1 (A:) Integrase {Bacteriophage HP1 [TaxId: 10690]}
Probab=99.91 E-value=6e-25 Score=177.74 Aligned_cols=149 Identities=15% Similarity=0.134 Sum_probs=115.6
Q ss_pred CCCCCCHHHHHHHHHHHCC--CCHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHHHCCHHHHHHHHHH
Q ss_conf 4211652344566664037--80899998989861887310025664014430233211331024331121689999964
Q gi|254780134|r 170 GIRPWTKEDMQQFKSFWSE--GSQPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTIITVELPDGFMKLLAM 247 (348)
Q Consensus 170 ~~~~~t~~ei~~~~~~~~~--~~~~~~~~~l~~~TG~R~~Ei~~L~~~did~~~i~~~~~Kt~~~~~vpl~~~l~~~l~~ 247 (348)
+...++++|+.+|++.+.. ....++++.|+++||||++|+++|+|+||+++.+.+...|+++.+.|||++.+.++|..
T Consensus 3 ~~~~Lt~eEi~~l~~~~~~~~~~~~~~~i~l~~~tG~R~~E~~~L~~~dI~~~~~~~~~~K~~~~r~ipl~~~~~~~l~~ 82 (170)
T d1aiha_ 3 ELAFLYERDIYRLLAECDNSRNPDLGLIVRICLATGARWSEAETLTQSQVMPYKITFTNTKSKKNRTVPISDELFDMLPK 82 (170)
T ss_dssp CCCCCCHHHHHHHHHHHTTSSSTTHHHHHHHHHHHCCCHHHHHTCBTTTEETTEEEEESSSSSCEEEEECCHHHHHHSCC
T ss_pred CCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 46689999999999986365896699999999997776112444331024421102114444300577669999999875
Q ss_pred HCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 20133221122245775877899999999998388998140269999999984899889999964999899999999998
Q gi|254780134|r 248 TPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVNKSAHGVRKFSATISADAGATAHELMATYGWKTVDQAETYTKGAD 327 (348)
Q Consensus 248 ~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~~~ 327 (348)
. ....| +.....+...+.+.....+...++|+|||||+|.|.++|+++.+|+.+|||++..||++|++..+
T Consensus 83 ~---~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~H~lRht~at~l~~~g~~~~~i~~~lGH~~~~~t~~Y~~~~~ 153 (170)
T d1aiha_ 83 K---RGRLF------NDAYESFENAVLRAEIELPKGQLTHVLRHTFASHFMMNGGNILVLKEILGHSTIEMTMRYAHFAP 153 (170)
T ss_dssp C---SSBSS------CCCHHHHHHHHHHTTCCCCTTCTTTHHHHHHHHHHHHTTCCHHHHHHHHTCSSHHHHGGGGGGSC
T ss_pred H---HCCCC------CCCHHHHHHHHHHHHHCCCCCCEEEECHHHHHHHHHCCCCCHHHHHHHHCCCCHHHHHHHHCCCH
T ss_conf 1---00110------11112443345666502577610111046551455216989999999808999899998876799
No 2
>d1a0pa2 d.163.1.1 (A:111-292) Recombinase XerD {Escherichia coli [TaxId: 562]}
Probab=99.88 E-value=5.4e-23 Score=165.02 Aligned_cols=153 Identities=19% Similarity=0.208 Sum_probs=114.8
Q ss_pred CCCHHHHHHHHHHHCCCC----HHHHHHHHHHHCCCCCCCCCCCCCCEEEEE--CCCCCCCCCHHHHHHCCHHHHHHH--
Q ss_conf 165234456666403780----899998989861887310025664014430--233211331024331121689999--
Q gi|254780134|r 173 PWTKEDMQQFKSFWSEGS----QPRLAFEFLLYSGLRCSDSCRAGVQHLQNN--IFSIKTQKTGTIITVELPDGFMKL-- 244 (348)
Q Consensus 173 ~~t~~ei~~~~~~~~~~~----~~~~~~~l~~~TG~R~~Ei~~L~~~did~~--~i~~~~~Kt~~~~~vpl~~~l~~~-- 244 (348)
.+|+||+.++++....+. +.++++.++++||||.+|++.|+|.||+.+ .|.+. .|+.+.+.++........
T Consensus 2 ~Lt~eei~~ll~~~~~~~~~~lRd~~l~~l~~~tG~R~~ei~~L~~~~i~~~~~~i~~~-~~~~k~r~~~~~~~~~~~~~ 80 (182)
T d1a0pa2 2 DLSEAQVERLLQAPLIDQPLELRDKAMLEVLYATGLRVSELVGLTMSDISLRQGVVRVI-GKGNKERLVPLGEEAVYWLE 80 (182)
T ss_dssp CCCHHHHHHHHHCSCTTSHHHHHHHHHHHHHHHHCCCHHHHTTCBGGGEETTTTEEEEE-CSSSCEEEEECCHHHHHHHH
T ss_pred CCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHCCCCEEEEEE-CCCCEEEEEEECCHHHHHHH
T ss_conf 89999999998274638818799999999999967764774202141411443289983-68980125752001335566
Q ss_pred --HHH------HCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC---CCCCHHHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf --964------201332211222457758778999999999983889---981402699999999848998899999649
Q gi|254780134|r 245 --LAM------TPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVN---KSAHGVRKFSATISADAGATAHELMATYGW 313 (348)
Q Consensus 245 --l~~------~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~---~~~H~lRht~at~l~~~G~~~~~i~~~lGH 313 (348)
+.. .......++....+.++...++...++.++..+|++ .++|+|||||||.+.++|+++.+|+++|||
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~t~H~~Rht~at~l~~~G~~~~~I~~~lGH 160 (182)
T d1a0pa2 81 TYLEHGRPWLLNGVSIDVLFPSQRAQQMTRQTFWHRIKHYAVLAGIDSEKLSPHVLRHAFATHLLNHGADLRVVQMLLGH 160 (182)
T ss_dssp HHHHHTHHHHHTTCCCCBSSBCTTSSBCCHHHHHHHHHHHHHHTTCCGGGCCHHHHHHHHHHHHHHHCSSCGGGSSCC--
T ss_pred HHHHHCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHCC
T ss_conf 65531123001234565421023577366899999999999984998578361414658999655649999999999589
Q ss_pred CCHHHHHHHHHHH
Q ss_conf 9989999999999
Q gi|254780134|r 314 KTVDQAETYTKGA 326 (348)
Q Consensus 314 ss~~~t~~Y~~~~ 326 (348)
+|..||++|.+..
T Consensus 161 ~s~~tt~~Y~~~~ 173 (182)
T d1a0pa2 161 SDLSTTQIYTHVA 173 (182)
T ss_dssp CCCCHHHHHHHHH
T ss_pred CCHHHHHHHHCCC
T ss_conf 9889999876879
No 3
>d1ae9a_ d.163.1.1 (A:) Integrase (Int) {Bacteriophage lambda [TaxId: 10710]}
Probab=99.85 E-value=6.4e-22 Score=158.06 Aligned_cols=152 Identities=16% Similarity=0.242 Sum_probs=120.1
Q ss_pred CCCCHHHHHHHHHHHCCCC-HHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCHHHHHHCCHHHHH-------H
Q ss_conf 1165234456666403780-8999989898618873100256640144302332113310243311216899-------9
Q gi|254780134|r 172 RPWTKEDMQQFKSFWSEGS-QPRLAFEFLLYSGLRCSDSCRAGVQHLQNNIFSIKTQKTGTIITVELPDGFM-------K 243 (348)
Q Consensus 172 ~~~t~~ei~~~~~~~~~~~-~~~~~~~l~~~TG~R~~Ei~~L~~~did~~~i~~~~~Kt~~~~~vpl~~~l~-------~ 243 (348)
.++|.||+.++++++.... ..++++.|+++||||.+|+++|+|+||+++...+...|++..+.+|+.+... .
T Consensus 2 ~~lt~ee~~~l~~~~~~~~~~~~~~~~l~~~tG~R~~El~~L~~~di~~~~~~i~~~K~~~~~~~~~~~~~~~~~~~~~~ 81 (179)
T d1ae9a_ 2 SRLTADEYLKIYQAAESSPCWLRLAMELAVVTGQRVGDLCEMKWSDIVDGYLYVEQSKTGVKIAIPTALHIDALGISMKE 81 (179)
T ss_dssp CCCCHHHHHHHHHHGGGSCHHHHHHHHHHHHHCCCHHHHHHCBGGGEETTEEEEECTTTCCEEEEETTCEEGGGTEEHHH
T ss_pred CCCCHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEECCEEEEECCCCCCCCCCCCHHHHHHHHHHHH
T ss_conf 98999999999998756889999999999996799876466620266301114641133332346674156778877655
Q ss_pred HHHH--HCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCC-----CCCCHHHHHHHHHHHHCCCCHHHHHHHHCCCCH
Q ss_conf 9964--201332211222457758778999999999983889-----981402699999999848998899999649998
Q gi|254780134|r 244 LLAM--TPIGKETFFINNDKQKMNATQFSIWFKAKATKAGVN-----KSAHGVRKFSATISADAGATAHELMATYGWKTV 316 (348)
Q Consensus 244 ~l~~--~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~-----~~~H~lRht~at~l~~~G~~~~~i~~~lGHss~ 316 (348)
.... .......++....|.++....+...+..+.+.++.. .++|++||+ +|.++++|+++.+|+.+|||+|.
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~h~lR~~-~t~~~~~g~~~~~i~~~lGH~s~ 160 (179)
T d1ae9a_ 82 TLDKCKEILGGETIIASTRREPLSSGTVSRYFMRARKASGLSFEGDPPTFHELRSL-SARLYEKQISDKFAQHLLGHKSD 160 (179)
T ss_dssp HHHHHHHHTCCSBSSCCTTSCCCCHHHHHHHHHHHHHHHTCCCSSSCCCTTHHHHH-HHHHHHHHTCHHHHHHHHTC---
T ss_pred HHHHHCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHCCCCCCCCCCHHHHHHHH-HHHHHHCCCCHHHHHHHHCCCCH
T ss_conf 44331135776521333047763345303466666531134433231037788888-88999849999999999589999
Q ss_pred HHHHHHHH
Q ss_conf 99999999
Q gi|254780134|r 317 DQAETYTK 324 (348)
Q Consensus 317 ~~t~~Y~~ 324 (348)
.||++|.+
T Consensus 161 ~~t~~Y~~ 168 (179)
T d1ae9a_ 161 TMASQFRD 168 (179)
T ss_dssp -----CEE
T ss_pred HHHHHHHH
T ss_conf 99999873
No 4
>d1f44a2 d.163.1.1 (A:130-343) Cre recombinase {Bacteriophage P1 [TaxId: 10678]}
Probab=99.83 E-value=4.7e-20 Score=145.91 Aligned_cols=158 Identities=19% Similarity=0.208 Sum_probs=106.9
Q ss_pred CCCCCCHHHHHHHHHHHCCC-----CHHHHHHHHHHHCCCCCCCCCCCCCCEEEEE-----CCCCCCCCCH---HHHHHC
Q ss_conf 42116523445666640378-----0899998989861887310025664014430-----2332113310---243311
Q gi|254780134|r 170 GIRPWTKEDMQQFKSFWSEG-----SQPRLAFEFLLYSGLRCSDSCRAGVQHLQNN-----IFSIKTQKTG---TIITVE 236 (348)
Q Consensus 170 ~~~~~t~~ei~~~~~~~~~~-----~~~~~~~~l~~~TG~R~~Ei~~L~~~did~~-----~i~~~~~Kt~---~~~~vp 236 (348)
...+++.+|++.+....... .+.++++.|+++||||.+|+++|+|+||+.. .+.+...|+. ....++
T Consensus 4 ~~~~~~~~e~~~~~~~~~~~~~~~~~R~~ali~l~~~tGlR~~Ei~~L~~~di~~~~~~~~~i~i~~~k~~~~~~~~~~~ 83 (214)
T d1f44a2 4 QALAFERTDFDQVRSLMENSDRCQDIRNLAFLGIAYNTLLRIAEIARIRVKDISRTDGGRMLIHIGRTKTLVSTAGVEKA 83 (214)
T ss_dssp CCCCCCHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHCCCHHHHHHCBGGGEEECGGGCEEEEECC--------CEEEE
T ss_pred CCCCCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCHHHHHHCCCCEEECCCCCCEEEEEEECCCCCCCEECCCC
T ss_conf 46779999999999998624722638999999999998107777875123112023331036666302456433001024
Q ss_pred CHHHHHHHHHHHC-------CCCCC---------CCCCCCCCCCCHHHHHHHHHHH---HHHCC----C---CCCCCHHH
Q ss_conf 2168999996420-------13322---------1122245775877899999999---99838----8---99814026
Q gi|254780134|r 237 LPDGFMKLLAMTP-------IGKET---------FFINNDKQKMNATQFSIWFKAK---ATKAG----V---NKSAHGVR 290 (348)
Q Consensus 237 l~~~l~~~l~~~~-------~~~~~---------~~~~~~g~~~~~~~~~~~~~~~---~~~ag----i---~~~~H~lR 290 (348)
+++.....|.... ..... .+....+.+++...+...++.. ...++ . ..++|+||
T Consensus 84 ~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~HslR 163 (214)
T d1f44a2 84 LSLGVTKLVERWISVSGVADDPNNYLFCRVRKNGVAAPSATSQLSTRALEGIFEATHRLIYGAKDDSGQRYLAWSGHSAR 163 (214)
T ss_dssp CCHHHHHHHHHHHHHHCGGGSTTSBSSCCBCTTSCBCCCSSCCCCHHHHHHHHHHHHHHHHCSCCTTCCTTSSCCTTHHH
T ss_pred CCHHHHHHHHHHHHHHCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHH
T ss_conf 53668887754455423332322133211001244456433334433233332223222222222011356678666641
Q ss_pred HHHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHHHH
Q ss_conf 9999999984899889999964999899999999998
Q gi|254780134|r 291 KFSATISADAGATAHELMATYGWKTVDQAETYTKGAD 327 (348)
Q Consensus 291 ht~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~~~~~ 327 (348)
|||||.|+++|+++.+||.+|||+|..|+++|.+..+
T Consensus 164 ht~at~l~~~G~~~~~i~~~~GH~s~~~~~~Y~~~~~ 200 (214)
T d1f44a2 164 VGAARDMARAGVSIPEIMQAGGWTNVNIVMNFIRNLD 200 (214)
T ss_dssp HHHHHHHHHTTCCHHHHHHHHTCCCHHHHHHHTTTCC
T ss_pred CCCCHHHHHCCCCHHHHHHHHCCCCHHHHHHHHHCCH
T ss_conf 3300279777999999999968999899999860334
No 5
>d1a0pa1 a.60.9.1 (A:3-100) Recombinase XerD {Escherichia coli [TaxId: 562]}
Probab=98.88 E-value=3.5e-09 Score=75.26 Aligned_cols=88 Identities=14% Similarity=0.271 Sum_probs=73.6
Q ss_pred HHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHC--CCCHHHCCHHHHHHHHHHHC---CCHHHHHHHHHHHHHHHHHH
Q ss_conf 99999983554-35697889999999999999956--99958969999999887515---99789999999999999644
Q gi|254780134|r 74 LISEYRKSAHW-GSLAVNSRISFESYFDQIIRKSG--DFDYRKITTKHIRSGVESRK---HTPSSAIQFLTSMRVLFKWA 147 (348)
Q Consensus 74 l~~~y~~~~~~-~~l~~~T~~~~~~~~~~~~~~~g--~~~l~~it~~~i~~~~~~~~---~~~~t~n~~~~~l~~~~~~a 147 (348)
.++.|+..... +++++.|+..|+..++.|...+. +..+.+|+..+|..|+..+. .+++|.++.++.|+.||+|+
T Consensus 5 ~ie~fl~~l~~erg~S~~Ti~aY~~dl~~f~~~l~~~~~~~~~i~~~~i~~yl~~l~~~g~s~~Ti~r~lsalr~ff~~l 84 (98)
T d1a0pa1 5 RIEQFLDALWLEKNLAENTLNAYRRDLSMMVEWLHHRGLTLATAQSDDLQALLAERLEGGYKATSSARLLSAVRRLFQYL 84 (98)
T ss_dssp HHHHHHHHHHHTTCSCHHHHHHHHHHHHHHHHHHHHTSCCTTTCCHHHHHHHHHSCC-------CHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 99999999998849599999999999999999887616441115589999999999852455105999999999999999
Q ss_pred HHHHHHHHHHHHCC
Q ss_conf 55200105665103
Q gi|254780134|r 148 VRQEYVAINPCLSV 161 (348)
Q Consensus 148 ~~~~~i~~NP~~~v 161 (348)
.++|+++.||+..|
T Consensus 85 ~~~~~i~~nP~~~i 98 (98)
T d1a0pa1 85 YREKFREDDPSAHL 98 (98)
T ss_dssp HHTTSSSSCTTSCC
T ss_pred HHCCCCCCCCCCCC
T ss_conf 99789376833419
No 6
>d1f44a1 a.60.9.1 (A:20-129) Cre recombinase {Bacteriophage P1 [TaxId: 10678]}
Probab=97.31 E-value=0.00039 Score=42.42 Aligned_cols=78 Identities=6% Similarity=-0.037 Sum_probs=57.5
Q ss_pred HHHHHHHHHH-HCCCCHHHHHHHHHHHHHHHHHHC--CCCHHHCCHHHHHHHHHHH---CCCHHHHHHHHHHHHHHHHHH
Q ss_conf 9999998355-435697889999999999999956--9995896999999988751---599789999999999999644
Q gi|254780134|r 74 LISEYRKSAH-WGSLAVNSRISFESYFDQIIRKSG--DFDYRKITTKHIRSGVESR---KHTPSSAIQFLTSMRVLFKWA 147 (348)
Q Consensus 74 l~~~y~~~~~-~~~l~~~T~~~~~~~~~~~~~~~g--~~~l~~it~~~i~~~~~~~---~~~~~t~n~~~~~l~~~~~~a 147 (348)
+.+.|+...+ -+.++++|...|...++.|..++. ...+-.+++.+|..|+..+ +.+++|+++.++.|+.++.++
T Consensus 4 ~~~~~~~~l~~~~~~S~nT~~aY~~dl~~f~~w~~~~~~~~l~~~~~~v~~yl~~l~~~g~s~sTi~R~lsair~f~r~~ 83 (110)
T d1f44a1 4 VRKNLMDMFRDRQAFSEHTWKMLLSVCRSWAAWCKLNNRKWFPAEPEDVRDYLLYLQARGLAVKTIQQHLGQLNMLHRRS 83 (110)
T ss_dssp THHHHHSCCSCGGGSCHHHHHHHHHHHHHHHHHHHHTTCCTTTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHC
T ss_conf 99999999999865389899999999999999886511234623453789999999863888408999999999999986
Q ss_pred HHHH
Q ss_conf 5520
Q gi|254780134|r 148 VRQE 151 (348)
Q Consensus 148 ~~~~ 151 (348)
-...
T Consensus 84 g~~~ 87 (110)
T d1f44a1 84 GLPR 87 (110)
T ss_dssp TCCC
T ss_pred CCCC
T ss_conf 9999
No 7
>d1a41a_ d.163.1.2 (A:) Eukaryotic DNA topoisomerase I, catalytic core {Vaccinia virus [TaxId: 10245]}
Probab=92.54 E-value=0.16 Score=25.38 Aligned_cols=120 Identities=13% Similarity=0.094 Sum_probs=70.5
Q ss_pred HHHHHHHCCCCCC-----------CCCCCCCCEEE--EECCCCC-CCCCHHHHHHCC--HHHHHHHHHHHCC---CCCCC
Q ss_conf 9898986188731-----------00256640144--3023321-133102433112--1689999964201---33221
Q gi|254780134|r 195 AFEFLLYSGLRCS-----------DSCRAGVQHLQ--NNIFSIK-TQKTGTIITVEL--PDGFMKLLAMTPI---GKETF 255 (348)
Q Consensus 195 ~~~l~~~TG~R~~-----------Ei~~L~~~did--~~~i~~~-~~Kt~~~~~vpl--~~~l~~~l~~~~~---~~~~~ 255 (348)
++.|+-.|.+|+| -+..|+..||. ++.+.+. ..|.|....+-+ .+.+...|..... .+..+
T Consensus 40 vv~Lld~~~iRvGne~Ya~~n~SyGltTLr~~Hv~i~~~~i~f~F~GKsGv~~~~~i~~d~~l~~~l~~~~~~~~~~~~l 119 (230)
T d1a41a_ 40 FMLMETMFFIRFGKMKYLKENETVGLLTLKNKHIEISPDEIVIKFVGKDKVSHEFVVHKSNRLYKPLLKLTDDSSPEEFL 119 (230)
T ss_dssp HHHHHHCCC---------CCHHHHHHHTCBGGGEEEETTEEEECEEETTTEEECCEEETTSSSHHHHHHHCCTTCTTSBS
T ss_pred HHHHHHHHCEECCCHHHHHHCCCCCEEEEEHHHEEEECCEEEEEEECCCCCEEEEEEECCHHHHHHHHHHHHCCCCCCCC
T ss_conf 99999973651688656762598351220131067718926998755877348998833789999999998666952000
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH--------CCC-----------CHHHHHHHHCCCCH
Q ss_conf 12224577587789999999999838899814026999999998--------489-----------98899999649998
Q gi|254780134|r 256 FINNDKQKMNATQFSIWFKAKATKAGVNKSAHGVRKFSATISAD--------AGA-----------TAHELMATYGWKTV 316 (348)
Q Consensus 256 ~~~~~g~~~~~~~~~~~~~~~~~~agi~~~~H~lRht~at~l~~--------~G~-----------~~~~i~~~lGHss~ 316 (348)
| .....+.++..++. .| .+..+||-..||.++. ... .+.+++..|||+..
T Consensus 120 f-----~~v~~~~vn~yl~~----~~--~taKdFRTw~at~~~~~~l~~~~~~~~~~~~~kk~i~~~i~~vA~~LgNTpa 188 (230)
T d1a41a_ 120 F-----NKLSERKVYECIKQ----FG--IRIKDLRTYGVNYTFLYNFWTNVKSISPLPSPKKLIALTIKQTAEVVGHTPS 188 (230)
T ss_dssp S-----TTCCHHHHHHHHHH----TT--CCHHHHHHHHHHHHHHHHHHHHHHHSSSCCCHHHHHHHHHHHHHHHHSSCCC
T ss_pred C-----CCCCCHHHHHHHHH----CC--CCHHHHHHHCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCHH
T ss_conf 0-----02563377888887----37--6099999865289999999850687787778899999999999999589766
Q ss_pred HHHHHHHHH
Q ss_conf 999999999
Q gi|254780134|r 317 DQAETYTKG 325 (348)
Q Consensus 317 ~~t~~Y~~~ 325 (348)
-.-.-|++-
T Consensus 189 V~rksYI~P 197 (230)
T d1a41a_ 189 ISKRAYMAT 197 (230)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHCCCH
T ss_conf 678865799
No 8
>d1k4ta2 d.163.1.2 (A:431-640,A:713-765) Eukaryotic DNA topoisomerase I, catalytic core {Human (Homo sapiens) [TaxId: 9606]}
Probab=87.02 E-value=0.7 Score=21.24 Aligned_cols=97 Identities=18% Similarity=0.281 Sum_probs=61.3
Q ss_pred HHHHHHHHCCCCCC------------CCCCCCCCEEE--------EECCCCC-CCCCHHHH--HHCCHHHHHHHHHHHC-
Q ss_conf 99898986188731------------00256640144--------3023321-13310243--3112168999996420-
Q gi|254780134|r 194 LAFEFLLYSGLRCS------------DSCRAGVQHLQ--------NNIFSIK-TQKTGTII--TVELPDGFMKLLAMTP- 249 (348)
Q Consensus 194 ~~~~l~~~TG~R~~------------Ei~~L~~~did--------~~~i~~~-~~Kt~~~~--~vpl~~~l~~~l~~~~- 249 (348)
+++.|+-.|.+|+| -++.|+..||. ++.+.+. .+|.|... .|+..+.+...|....
T Consensus 47 ~al~LiD~~~lRvGneky~~en~dT~G~tTLr~eHv~l~~~~~~~~~~i~~~F~GK~gvr~~~~v~~~~~v~~~l~~~~~ 126 (263)
T d1k4ta2 47 VALYFIDKLALRAGNEKEEGETADTVGCCSLRVEHINLHPELDGQEYVVEFDFLGKDSIRYYNKVPVEKRVFKNLQLFME 126 (263)
T ss_dssp HHHHHHHHSCCCCCCCCCTTTSCCCCCGGGCBGGGEEEEEEETTEEEEEEEEEECGGGCEEEEEEECCHHHHHHHHHHTT
T ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCEEEEECCHHHEEECCCCCCCCCEEEEEEECCCCEEEEEEEECCHHHHHHHHHHHH
T ss_conf 99999997373168800132358976020022211576146567785589997447763899998358899999999987
Q ss_pred --CCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHH
Q ss_conf --13322112224577587789999999999838899814026999999998
Q gi|254780134|r 250 --IGKETFFINNDKQKMNATQFSIWFKAKATKAGVNKSAHGVRKFSATISAD 299 (348)
Q Consensus 250 --~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~agi~~~~H~lRht~at~l~~ 299 (348)
..+..+| ..+++..++..++.. |-..|..+||-..||.++.
T Consensus 127 ~k~~~d~LF-----~~i~s~~vN~yLk~~----~~g~TaKdFRTw~As~~~~ 169 (263)
T d1k4ta2 127 NKQPEDDLF-----DRLNTGILNKHLQDL----MEGLTAKVFRTYNASITLQ 169 (263)
T ss_dssp TCCTTSBSS-----TTCCHHHHHHHHHHH----STTCCTTHHHHHHHHHHHH
T ss_pred CCCCCHHHC-----CCCCHHHHHHHHHHH----CCCCCEEECCCCCHHHHHH
T ss_conf 669821111-----668889999999996----6997213021344699999
No 9
>d1z1ba1 d.10.1.4 (A:11-59) lambda integrase N-terminal domain {Bacteriophage lambda [TaxId: 10710]}
Probab=82.01 E-value=0.69 Score=21.30 Aligned_cols=28 Identities=29% Similarity=0.551 Sum_probs=19.7
Q ss_pred CCCCCCEEEECCCCCEEEEEE-ECCCCEEECCC
Q ss_conf 887981896228993899997-08956575588
Q gi|254780134|r 6 RLPPFVTKERTRHGKIIYYFR-KGHGRRIRLPY 37 (348)
Q Consensus 6 ~~p~~v~~~~~r~G~~~~~~r-~~~~~~~~~~~ 37 (348)
.|||++|++.+ | ||++| +..|+...++.
T Consensus 1 ~LPpNLY~k~~--~--y~~yr~P~tGk~~~LG~ 29 (49)
T d1z1ba1 1 DLPPNLYIRNN--G--YYCYRDPRTGKEFGLGR 29 (49)
T ss_dssp CCCTTEEEETT--T--EEEEECTTTCCEEEEES
T ss_pred CCCCCCEECCC--C--EEEEECCCCCCEECCCC
T ss_conf 98914102368--7--68852689886312773
No 10
>d1p4ea2 d.163.1.1 (A:136-422) Flp recombinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=45.46 E-value=6.4 Score=15.00 Aligned_cols=130 Identities=17% Similarity=0.168 Sum_probs=71.2
Q ss_pred HHHHHHHHCCCCCCCCCCCCCCEEE---E----ECC--CCCCCCCHHHHHH---CCH---HHHH---HHHHHH-CCCCCC
Q ss_conf 9989898618873100256640144---3----023--3211331024331---121---6899---999642-013322
Q gi|254780134|r 194 LAFEFLLYSGLRCSDSCRAGVQHLQ---N----NIF--SIKTQKTGTIITV---ELP---DGFM---KLLAMT-PIGKET 254 (348)
Q Consensus 194 ~~~~l~~~TG~R~~Ei~~L~~~did---~----~~i--~~~~~Kt~~~~~v---pl~---~~l~---~~l~~~-~~~~~~ 254 (348)
.++.+.++-+||.+|+-.+...-++ + ..+ .++.+||++++.| |+. +.|. .+|... |... .
T Consensus 45 ~lll~tf~NCcR~sDLkN~DP~tFeiv~nk~lG~ilra~V~eTKTr~~R~IyFfPv~g~~DpllaL~~~l~~~~P~~K-~ 123 (287)
T d1p4ea2 45 FLFLATFINCGRFSDIKNVDPKSFKLVQNKYLGVIIQCLVTETKTSVSRHIYFFSARGRIDPLVYLDEFLRNSEPVLK-R 123 (287)
T ss_dssp HHHHHHHHHTCCHHHHHTBCGGGCEEEEETTTEEEEEEEECSCTTSCCEEEEECCCSSSCCHHHHHHHHHTTCCCEEC-C
T ss_pred HHHHHHHHHHHCHHHCCCCCCCCEEEECCCCHHHHHEEEEECCCCCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCC-C
T ss_conf 999999983411010145893324651453022252024303556653149997458987636889999873488654-3
Q ss_pred C--CCCC----CCCCCCHHHHHHHHHHHH-HHC-----CCCCC--CCHHHHHHHHHHHHCCCCHHHHHHHHCCCCHH---
Q ss_conf 1--1222----457758778999999999-983-----88998--14026999999998489988999996499989---
Q gi|254780134|r 255 F--FINN----DKQKMNATQFSIWFKAKA-TKA-----GVNKS--AHGVRKFSATISADAGATAHELMATYGWKTVD--- 317 (348)
Q Consensus 255 ~--~~~~----~g~~~~~~~~~~~~~~~~-~~a-----gi~~~--~H~lRht~at~l~~~G~~~~~i~~~lGHss~~--- 317 (348)
+ ..+. ..-.+-.+++-.-+.+.. +.+ +|++. .|=-||..+|.|...+.+ ..+..+..|++..
T Consensus 124 ~sRts~~~s~~q~~Qllrdsl~~~YdrF~~k~~~~~iF~I~~GPKSHlGRHLM~SyLs~~~~~-~~~s~~GNWs~~reS~ 202 (287)
T d1p4ea2 124 VNRTGNSSSNKQEYQLLKDNLVRSYNKALKKNAPYPIFAIKNGPKSHIGRHLMTSFLSMKGLT-ELTNVVGNFSDKRASA 202 (287)
T ss_dssp CCBSCCCCSSSCSEESSCTTHHHHHHHHHHHTCSSGGGGSTTCCSSTHHHHHHHHHHHHTTCH-HHHHHHHTCCCC----
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCEEECCCCCHHHHHHHHHHHHHHHCCCC-CEECCCCCCHHHHHHH
T ss_conf 444456631267899889888888999997378886340578967788789999885205677-5001456620235666
Q ss_pred HH-HHHHHH
Q ss_conf 99-999999
Q gi|254780134|r 318 QA-ETYTKG 325 (348)
Q Consensus 318 ~t-~~Y~~~ 325 (348)
++ .+|++.
T Consensus 203 vAr~~Y~H~ 211 (287)
T d1p4ea2 203 VARTTYTHQ 211 (287)
T ss_dssp --------C
T ss_pred HHHHHCCCC
T ss_conf 665302434
No 11
>d1hmja_ d.78.1.1 (A:) RNA polymerase subunit RBP5 (RNA polymerase subunit H) {Archaeon Methanococcus jannaschii [TaxId: 2190]}
Probab=41.47 E-value=4.9 Score=15.76 Aligned_cols=45 Identities=13% Similarity=0.078 Sum_probs=29.2
Q ss_pred CCCCCHHHHHHHHHHHCCCCHHHHHH-----HHHHHCCCCCCCCCCCCCCE
Q ss_conf 21165234456666403780899998-----98986188731002566401
Q gi|254780134|r 171 IRPWTKEDMQQFKSFWSEGSQPRLAF-----EFLLYSGLRCSDSCRAGVQH 216 (348)
Q Consensus 171 ~~~~t~~ei~~~~~~~~~~~~~~~~~-----~l~~~TG~R~~Ei~~L~~~d 216 (348)
+..++++|...++....... ..+.. -++.+.|++.|+++.+.+..
T Consensus 3 H~il~~eE~~~ll~~y~i~~-~qLP~I~~~DPva~~~g~k~GdvvkI~R~S 52 (68)
T d1hmja_ 3 HEIVPKEEVEEILKRYNIKI-QQLPKIYEDDPVIQEIGAKEGDVVRVIRKS 52 (68)
T ss_pred CEECCHHHHHHHHHHHCCCH-HHCCCCCCCCHHHHHHCCCCCCEEEEEECC
T ss_conf 77879999999999929898-899912251987898199999589999758
No 12
>d1dzfa2 d.78.1.1 (A:144-215) Eukaryotic RPB5 C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}
Probab=28.37 E-value=4.2 Score=16.21 Aligned_cols=46 Identities=11% Similarity=0.142 Sum_probs=28.8
Q ss_pred CCCCCCHHHHHHHHHHHCCCCHHHHHH-----HHHHHCCCCCCCCCCCCCCE
Q ss_conf 421165234456666403780899998-----98986188731002566401
Q gi|254780134|r 170 GIRPWTKEDMQQFKSFWSEGSQPRLAF-----EFLLYSGLRCSDSCRAGVQH 216 (348)
Q Consensus 170 ~~~~~t~~ei~~~~~~~~~~~~~~~~~-----~l~~~TG~R~~Ei~~L~~~d 216 (348)
.+..++++|...++........ .+.. -++.+.|++.|+++.+.+..
T Consensus 9 kH~~l~~eE~~~il~~y~i~~~-qLP~I~~~DPva~~~g~~~GdvikI~R~s 59 (72)
T d1dzfa2 9 KHIRLSSDEKRELLKRYRLKES-QLPRIQRADPVALYLGLKRGEVVKIIRKS 59 (72)
T ss_dssp EEEECCHHHHHHHHHHTTCCGG-GSCEECTTCHHHHHHTCCTTCEEEEECTT
T ss_pred CEEECCHHHHHHHHHHHCCCHH-HCCEECCCCHHHHHCCCCCCCEEEEEECC
T ss_conf 8088599999999999598975-79954363973561188889789999758
No 13
>d2dw4a1 a.4.1.18 (A:172-273) Lysine-specific histone demethylase 1, LSD1 {Human (Homo sapiens) [TaxId: 9606]}
Probab=27.13 E-value=12 Score=13.11 Aligned_cols=66 Identities=8% Similarity=-0.009 Sum_probs=46.8
Q ss_pred CHHHHHHHHHHHHHHHHHHCCCCHHHCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 978899999999999999569995896999999988751599789999999999999644552001056651
Q gi|254780134|r 88 AVNSRISFESYFDQIIRKSGDFDYRKITTKHIRSGVESRKHTPSSAIQFLTSMRVLFKWAVRQEYVAINPCL 159 (348)
Q Consensus 88 ~~~T~~~~~~~~~~~~~~~g~~~l~~it~~~i~~~~~~~~~~~~t~n~~~~~l~~~~~~a~~~~~i~~NP~~ 159 (348)
...|...|...=+.++..|-.-|-..+|..++...+.....+ .+..++.+++|...+|+|.--.+.
T Consensus 32 ~~~~~~~Yl~iRN~Il~~w~~np~~~Lt~~~~~~~l~~~~~~------d~~li~ri~~FL~~~G~INfGv~~ 97 (102)
T d2dw4a1 32 PQQTQKVFLFIRNRTLQLWLDNPKIQLTFEATLQQLEAPYNS------DTVLVHRVHSYLERHGLINFGIYK 97 (102)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHCTTBCCCHHHHHHHSCTTGGG------CHHHHHHHHHHHHHTTSSSCSSCB
T ss_pred CCCCHHHHHHHHHHHHHHHHHCCCEEEEHHHHHHHCCCCCCC------CHHHHHHHHHHHHHCCCEEECCCC
T ss_conf 997789999999999999981978565099999665555555------599999999999982954117676
No 14
>d1eika_ d.78.1.1 (A:) RNA polymerase subunit RBP5 (RNA polymerase subunit H) {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}
Probab=21.74 E-value=4.9 Score=15.74 Aligned_cols=45 Identities=7% Similarity=-0.057 Sum_probs=28.6
Q ss_pred CCCCCHHHHHHHHHHHCCCCHHHHH-----HHHHHHCCCCCCCCCCCCCCE
Q ss_conf 2116523445666640378089999-----898986188731002566401
Q gi|254780134|r 171 IRPWTKEDMQQFKSFWSEGSQPRLA-----FEFLLYSGLRCSDSCRAGVQH 216 (348)
Q Consensus 171 ~~~~t~~ei~~~~~~~~~~~~~~~~-----~~l~~~TG~R~~Ei~~L~~~d 216 (348)
+..++++|...++........+ +. =-++.|.|++.|+++.+.+..
T Consensus 14 H~il~~ee~~~~l~~~~i~~~q-LP~I~~~DPva~~~g~k~GdvvkI~R~S 63 (77)
T d1eika_ 14 HVILNESEAKRVLKELDAHPEQ-LPKIKTTDPVAKAIGAKRGDIVKIIRKS 63 (77)
T ss_dssp EEEECHHHHHHHHHHTTCCTTT-SCCCBTTSHHHHGGGCCTTCEEEEEEEE
T ss_pred EEECCHHHHHHHHHHHCCCHHH-CCEECCCCHHHHHHCCCCCCEEEEEECC
T ss_conf 1986999999999985699878-9940362972451078688579999758
No 15
>d1ijwc_ a.4.1.2 (C:) HIN recombinase (DNA-binding domain) {Synthetic}
Probab=21.17 E-value=16 Score=12.38 Aligned_cols=31 Identities=16% Similarity=0.191 Sum_probs=22.5
Q ss_pred HHHHHHHHCCCCHHHHHHHHCCCCHHHHHHHH
Q ss_conf 99999998489988999996499989999999
Q gi|254780134|r 292 FSATISADAGATAHELMATYGWKTVDQAETYT 323 (348)
Q Consensus 292 t~at~l~~~G~~~~~i~~~lGHss~~~t~~Y~ 323 (348)
..+-.|.++|.+..+|+..+| -|..|.-+|.
T Consensus 12 ~~a~~l~~~G~s~~~iA~~~g-VSr~TiYry~ 42 (47)
T d1ijwc_ 12 EQISRLLEKGHPRQQLAIIFG-IGVSTLYRYF 42 (47)
T ss_dssp HHHHHHHHTTCCHHHHHHHHT-CCHHHHHHHS
T ss_pred HHHHHHHHCCCCHHHHHHHHC-CCHHHHHHHC
T ss_conf 999999988997999999979-6999998557
No 16
>d1j09a1 a.97.1.1 (A:306-468) C-terminal domain of glutamyl-tRNA synthetase (GluRS) {Thermus thermophilus [TaxId: 274]}
Probab=20.65 E-value=17 Score=12.31 Aligned_cols=49 Identities=18% Similarity=0.216 Sum_probs=38.1
Q ss_pred CCCHHHHHHHHHHHHHHCCCCC--CCCHHHHHHHHHHHHCCCCHHHHHHHHCC
Q ss_conf 7587789999999999838899--81402699999999848998899999649
Q gi|254780134|r 263 KMNATQFSIWFKAKATKAGVNK--SAHGVRKFSATISADAGATAHELMATYGW 313 (348)
Q Consensus 263 ~~~~~~~~~~~~~~~~~agi~~--~~H~lRht~at~l~~~G~~~~~i~~~lGH 313 (348)
.++...+...++..++..|+.. -++-+|- |..-...|-++..++.++|=
T Consensus 101 ~~~~~~i~~~i~~~~~~~~ik~~~v~~plR~--altG~~~gP~l~~~i~llGk 151 (163)
T d1j09a1 101 EWTEAALEALLRGFAAEKGVKLGQVAQPLRA--ALTGSLETPGLFEILALLGK 151 (163)
T ss_dssp CCSHHHHHHHHHHHHHHHTSCHHHHHHHHHH--HHHSCSCCSCHHHHHHHTCH
T ss_pred CCCHHHHHHHHHHHHHHHCCCCCCCCCCHHH--HHCCCCCCCCHHHHHHHHCH
T ss_conf 2228889889999999808773334340575--41489989799999999289
Done!