Query 000592
Match_columns 1402
No_of_seqs 258 out of 1713
Neff 4.5
Searched_HMMs 29240
Date Tue Mar 26 15:52:34 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000592.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_366-369//hhsearch_pdb/000592hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4b3f_X DNA-binding protein smu 1.0 1 1 330.0 29.0 366 867-1402 2-384 (646)
2 2gk6_A Regulator of nonsense t 1.0 1 1 278.3 28.4 347 861-1401 1-356 (624)
3 2wjy_A Regulator of nonsense t 1.0 1 1 277.0 26.0 353 855-1401 171-532 (800)
4 2xzl_A ATP-dependent helicase 1.0 1 1 274.8 30.2 353 855-1401 173-534 (802)
5 3lfu_A DNA helicase II; SF1 he 1.0 1 1 96.7 8.3 14 1382-1395 564-577 (647)
6 3e1s_A Exodeoxyribonuclease V, 1.0 1 1 94.2 9.5 66 1060-1189 187-252 (574)
7 1w36_D RECD, exodeoxyribonucle 1.0 1 1 89.9 9.0 67 1064-1190 151-217 (608)
8 3upu_A ATP-dependent DNA helic 1.0 1 1 87.4 9.6 71 1061-1189 24-94 (459)
9 1uaa_A REP helicase, protein ( 1.0 1 1 78.8 8.4 25 440-464 179-203 (673)
10 1pjr_A PCRA; DNA repair, DNA r 1.0 1 1 78.2 9.3 48 439-494 187-241 (724)
No 1
>4b3f_X DNA-binding protein smubp-2; hydrolase, helicase; 2.50A {Homo sapiens} PDB: 4b3g_A
Probab=1.00 E-value=1 Score=329.98 Aligned_cols=366 Identities=24% Similarity=0.289 Sum_probs=228.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCC--C-CCCCCC----CEEEEEEEE-ECCEEEEEEEECCC---CCCCCCCC
Q ss_conf 7966799963699999999999842421176--2-212126----148986554-08729999861599---87444578
Q 000592 867 QSPEQFVSIFRPLVLEEFKAQLHSSFLEMSS--W-EDMYYG----SLSVLSVER-VDDFHLVRFVHDDN---DSVTSKIF 935 (1402)
Q Consensus 867 ~SveEYi~tFePLLLEE~rAQL~sSleEiss--~-E~~~~g----~IsVlS~er-vD~F~lV~f~~~~~---~~~k~~~l 935 (1402)
.++++|++.|.+||..|..+++.+...+... . +....| .+.+.+... .++-+.+.|..... ...+...|
T Consensus 2 ~~~~~~~~~~~~Ll~~E~~~e~~~~~~~~~~~~~~~~~~~G~~~~~l~~~~~~~~~~g~~~~~~~~~~~~~~~~l~~~~~ 81 (646)
T 4b3f_X 2 AAVESFVTKQLDLLELERDAEVEERRSWQENISLKELQSRGVCLLKLQVSSQRTGLYGRLLVTFEPRRYGSAAALPSNSF 81 (646)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSCHHHHGGGTSEEEEEEEEEEEECSSSCEEEEEEESCC---CCCCCCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHCCCEECCEEEEEEEECCCCEEEEEEEECCCCCCCCCCCCCC
T ss_conf 11899999999999999999999999998629999999679603264888889657985999998357788777866789
Q ss_pred CCCCEEEEEECCCCCCCCCEEEEEEEEEEECCCCCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCEEEEEECCCCHHHHH
Q ss_conf 99939999723999999850199999854135788852999999830785111688764310353234321350388999
Q 000592 936 SENDLVLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLRE 1015 (1402)
Q Consensus 936 sEgDLVLLSke~P~~s~~~~h~LG~Ver~e~d~~k~~~~L~IRi~l~n~s~rLnq~~~~L~~rs~w~ltKL~SLTTi~RE 1015 (1402)
..||+|+++...+.. ...+.|.|.++..+ .+.+++.... .....+.....|.+.++.|.+|+.|+
T Consensus 82 ~~Gd~v~~~~~~~~~---~~~~~g~v~~~~~~------~i~v~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~r~ 146 (646)
T 4b3f_X 82 TSGDIVGLYDAANEG---SQLATGILTRVTQK------SVTVAFDESH------DFQLSLDRENSYRLLKLANDVTYRRL 146 (646)
T ss_dssp CTTCEEEEEETTTTS---CCCEEEEEEEEETT------EEEEECC-------------CCCSSCCEEEEEECCHHHHHHH
T ss_pred CCCCEEEEEECCCCC---CCEEEEEEEEEECC------EEEEEECCCC------CCCCCCCCCCCEEEEEECCCHHHHHH
T ss_conf 989989999668998---71489999999499------9999988865------33335578984799980660689999
Q ss_pred HHHHCCCCCCC------CCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCEEE
Q ss_conf 98520278899------833324788877898885323336424888885017999999999999703899867876289
Q 000592 1016 FHALSSLKSIP------LLPIILNPVNVSRGYNESRELDLGKLSQLQQILKTSFNESQLQAISVAIGLSSSWKKDCELSL 1089 (1402)
Q Consensus 1016 y~AL~sL~~lP------L~~~ILsPs~~~~~~~e~~~~~l~ki~~L~~~Lk~~LNeSQlqAI~sAL~~s~~~~k~~~iTL 1089 (1402)
+.||..+...+ +.+.|++..++.... .... ...+..+||++|.+||..|+... +++|
T Consensus 147 ~~al~~l~~~~~~~~~~l~~~l~~~~~p~~~~-~~~~---------~~~~~~~LN~~Q~~AV~~al~~~-------~~~l 209 (646)
T 4b3f_X 147 KKALIALKKYHSGPASSLIEVLFGRSAPSPAS-EIHP---------LTFFNTCLDTSQKEAVLFALSQK-------ELAI 209 (646)
T ss_dssp HHHHHHHHTCCSSTTHHHHHHHTTSSCCCCCC-CCCC---------CCCSSTTCCHHHHHHHHHHHHCS-------SEEE
T ss_pred HHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCC-CCCC---------CCCCCCCCCHHHHHHHHHHHCCC-------CCEE
T ss_conf 99999852124672577999874999999765-5576---------53257888999999999996589-------9659
Q ss_pred EECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf 97689998056899999999971289975445576655578876650389998988799874312332112356556578
Q 000592 1090 IQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVR 1169 (1402)
Q Consensus 1090 IQGPPGTGKTkTIvgLIsaLL~~~~~~~s~~~p~~ss~~~~Rp~~s~~~~var~W~d~a~arql~~d~~~~~~~s~~~~k 1169 (1402)
||||||||||+||+.+|..++.. +
T Consensus 210 I~GPPGTGKT~ti~~~I~~l~~~--------------------------------------------------------~ 233 (646)
T 4b3f_X 210 IHGPPGTGKTTTVVEIILQAVKQ--------------------------------------------------------G 233 (646)
T ss_dssp EECCTTSCHHHHHHHHHHHHHHT--------------------------------------------------------T
T ss_pred EECCCCCCHHHHHHHHHHHHHHC--------------------------------------------------------C
T ss_conf 98899988899999999999848--------------------------------------------------------9
Q ss_pred CEEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 72999927438999999999825877899986689388966644326888543179999999888530259976311222
Q 000592 1170 ARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKTVHPNSLPFFIDTLVDHRLAEERMHLTDPKNEFCTR 1249 (1402)
Q Consensus 1170 ~RILVCAPSNAAVDEIV~RLl~~GI~d~dGk~y~p~IVRIG~~~aIhs~v~dvsLD~LV~qrLs~~~~~~~~~k~~~~~~ 1249 (1402)
.+||||||||.||||++.||...+ .+++|+|+..+++..+..+++|..+... +. ...
T Consensus 234 ~~ILv~a~TN~AvD~i~erL~~~~----------~~ilRlG~~~r~~~~~~~~~l~~~~~~~---------~~----~~~ 290 (646)
T 4b3f_X 234 LKVLCCAPSNIAVDNLVERLALCK----------QRILRLGHPARLLESIQQHSLDAVLARS---------DS----AQI 290 (646)
T ss_dssp CCEEEEESSHHHHHHHHHHHHHTT----------CCEEECSCCSSCCHHHHTTBHHHHHTTT---------TC----SST
T ss_pred CEEEEECCCHHHHHHHHHHHHHCC----------CCEEEECCHHHHHHHHHHHHHHHHHHHC---------HH----HHH
T ss_conf 829999185188879999998627----------7658823656520255430188898504---------17----889
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 06899999999988999999650346899999875422223599876765999999999899999999999899998766
Q 000592 1250 SSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEAKLRKLYEQKKQIYRELGVAQVQEKK 1329 (1402)
Q Consensus 1250 ss~LrseLe~L~~~i~~~eA~R~~l~~~~~~~k~~L~~e~~k~d~~~ls~~eL~~kL~kL~eqR~qL~~EL~~~~~~ek~ 1329 (1402)
...++.+++.+. ... +.. .. +.....+ ..++..
T Consensus 291 ~~~~~~~~~~~~----------~~~-------~~~-~~---~~~~~~~-----~~~~~~--------------------- 323 (646)
T 4b3f_X 291 VADIRKDIDQVF----------VKN-------KKT-QD---KREKSNF-----RNEIKL--------------------- 323 (646)
T ss_dssp HHHHHHHHTTSS----------TTT-------TC----------CCSS-----HHHHHH---------------------
T ss_pred HHHHHHHHHHHH----------HHH-------HHH-HH---HHHHHHH-----HHHHHH---------------------
T ss_conf 999998889999----------863-------432-23---7888777-----889999---------------------
Q ss_pred HHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCC
Q ss_conf 7999999999999987413839999188887675334445556654589998999998999268422002479
Q 000592 1330 SYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHEL 1402 (1402)
Q Consensus 1330 ~~re~e~~Rrkir~~IL~eAdIVCSTLSGSGhell~~~set~aa~k~~~~~~~~~FDtVIIDEAAQAVElS~L 1402 (1402)
..++.+..++....++|..|+|||+|++++++..+.. ......||+||||||+|+.|+++|
T Consensus 324 l~~~l~~~~~~~~~~~l~~~~vv~~t~~~a~~~~~~~------------~~~~~~Fd~vIIDEAsQ~~e~~~l 384 (646)
T 4b3f_X 324 LRKELKEREEAAMLESLTSANVVLATNTGASADGPLK------------LLPESYFDVVVIDECAQALEASCW 384 (646)
T ss_dssp HHHHHHHHHHHHHHHHHHHCSEEEEETTTTCSSSGGG------------GSCTTCCSEEEETTGGGSCHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHH------------HHHHCCCCEEEECCCCCCCHHHHH
T ss_conf 9999988888888988763354222201222335887------------643126888997175444557887
No 2
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A
Probab=1.00 E-value=1 Score=278.35 Aligned_cols=347 Identities=22% Similarity=0.259 Sum_probs=211.8
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCEEEEEEEECCCCCCCCCCCCCCCE
Q ss_conf 46864379667999636999999999998424211762212126148986554087299998615998744457899939
Q 000592 861 EVPVCFQSPEQFVSIFRPLVLEEFKAQLHSSFLEMSSWEDMYYGSLSVLSVERVDDFHLVRFVHDDNDSVTSKIFSENDL 940 (1402)
Q Consensus 861 kIP~TF~SveEYi~tFePLLLEE~rAQL~sSleEiss~E~~~~g~IsVlS~ervD~F~lV~f~~~~~~~~k~~~lsEgDL 940 (1402)
+|+.+|.|+.+|.++|.|||.+|.+++... .|... ...+.+......++.+.+.|..+. ......+..||.
T Consensus 1 ~~~~~~~~~~~y~~~~~~ll~~E~~~~~~~--~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~Gd~ 71 (624)
T 2gk6_A 1 PLGSRYEDAYQYQNIFGPLVKLEADYDKKL--KESQT-----QDNITVRWDLGLNKKRIAYFTLPK--TDSDMRLMQGDE 71 (624)
T ss_dssp --CCCCSSHHHHHHHHHHHHHHHHHHHHHH--HHHTC-----EEEECEEEEECTTSCEEEEEECC---------CCTTCE
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHH--HHHHH-----CCCCEEEEEECCCCCEEEEEEECC--CCCCCCCCCCCE
T ss_conf 967765999999999999999999997888--76540-----458258766347881699997064--335796899998
Q ss_pred EEEEECCCCCCCCCEEEEEEEEEEECCCCCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCEEEEEECCCCHHHHHHHHHC
Q ss_conf 99972399999985019999985413578885299999983078511168876431035323432135038899998520
Q 000592 941 VLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLREFHALS 1020 (1402)
Q Consensus 941 VLLSke~P~~s~~~~h~LG~Ver~e~d~~k~~~~L~IRi~l~n~s~rLnq~~~~L~~rs~w~ltKL~SLTTi~REy~AL~ 1020 (1402)
|+++...+.. ....+.|.|.+..... ...+.+.+... ..... .....+.+.++.+.+|+.|++.||+
T Consensus 72 v~l~~~~~~~--~~~~~~g~v~~~~~~~---~~~v~v~~~~~-~~~~~-------~~~~~~~~~~~~~~~~~~r~~~al~ 138 (624)
T 2gk6_A 72 ICLRYKGDLA--PLWKGIGHVIKVPDNY---GDEIAIELRSS-VGAPV-------EVTHNFQVDFVWKSTSFDRMQSALK 138 (624)
T ss_dssp EEEEECSSSS--CCCEEEEEEEECSCSS---CSEEEEEESCC-TTCCC-------SCCSSEEEEECCCCHHHHHHHHHHH
T ss_pred EEEEECCCCC--CCCEEEEEEEEECCCC---CCEEEEEECCC-CCCCC-------CCCCCEEEEEEECCCHHHHHHHHHH
T ss_conf 9999788888--8747899999964778---87899998268-88863-------3566558999957726999999999
Q ss_pred CCCCC--C----CCCCCCCCCCCCCCCCCCCCCCCCCHHH-HHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCEEEEECC
Q ss_conf 27889--9----8333247888778988853233364248-888850179999999999997038998678762899768
Q 000592 1021 SLKSI--P----LLPIILNPVNVSRGYNESRELDLGKLSQ-LQQILKTSFNESQLQAISVAIGLSSSWKKDCELSLIQGP 1093 (1402)
Q Consensus 1021 sL~~l--P----L~~~ILsPs~~~~~~~e~~~~~l~ki~~-L~~~Lk~~LNeSQlqAI~sAL~~s~~~~k~~~iTLIQGP 1093 (1402)
.+... + +...+++.......... .++. +.......+|++|.+||..++.. +++|||||
T Consensus 139 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~-------~~~~~~~~~~~~~ln~~Q~~av~~~l~~--------~~~li~Gp 203 (624)
T 2gk6_A 139 TFAVDETSVSGYIYHKLLGHEVEDVIIKC-------QLPKRFTAQGLPDLNHSQVYAVKTVLQR--------PLSLIQGP 203 (624)
T ss_dssp HHHHCTTSBCSHHHHHHTTCCCCCCCCCC-------CCCSCCSCTTSCCCCHHHHHHHHHHHTC--------SEEEEECC
T ss_pred HHHHCCCCCHHHHHHHHCCCCCCCCCCCC-------CCCCCCCCCCCCCCCHHHHHHHHHHHCC--------CCEEEECC
T ss_conf 98760455127789986188876421245-------6752125445678999999999999628--------97699899
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEE
Q ss_conf 99980568999999999712899754455766555788766503899989887998743123321123565565787299
Q 000592 1094 PGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESSVRARVL 1173 (1402)
Q Consensus 1094 PGTGKTkTIvgLIsaLL~~~~~~~s~~~p~~ss~~~~Rp~~s~~~~var~W~d~a~arql~~d~~~~~~~s~~~~k~RIL 1173 (1402)
||||||+|+..++..++.. .+.+||
T Consensus 204 pGTGKT~~~~~~i~~l~~~-------------------------------------------------------~~~~il 228 (624)
T 2gk6_A 204 PGTGKTVTSATIVYHLARQ-------------------------------------------------------GNGPVL 228 (624)
T ss_dssp TTSCHHHHHHHHHHHHHTS-------------------------------------------------------SSCCEE
T ss_pred CCCCHHHHHHHHHHHHHHC-------------------------------------------------------CCCEEE
T ss_conf 9987899999999999974-------------------------------------------------------898099
Q ss_pred EEECCHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCC--CCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCH
Q ss_conf 99274389999999998258778999866893889666443--2688854317999999988853025997631122206
Q 000592 1174 ICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKT--VHPNSLPFFIDTLVDHRLAEERMHLTDPKNEFCTRSS 1251 (1402)
Q Consensus 1174 VCAPSNAAVDEIV~RLl~~GI~d~dGk~y~p~IVRIG~~~a--Ihs~v~dvsLD~LV~qrLs~~~~~~~~~k~~~~~~ss 1251 (1402)
+|||||.|+|++..|+.+.|+ +++|+|...+ +...+..+++..++.. .+.
T Consensus 229 v~a~tn~A~~~l~~~l~~~~~----------~~~R~~~~~r~~~~~~~~~~tl~~~~~~---------~~~--------- 280 (624)
T 2gk6_A 229 VCAPSNIAVDQLTEKIHQTGL----------KVVRLCAKSREAIDSPVSFLALHNQIRN---------MDS--------- 280 (624)
T ss_dssp EEESSHHHHHHHHHHHHTTTC----------CEEECCCTGGGSCCCTTTTTBHHHHHTS---------CSS---------
T ss_pred EEECCHHHHHHHHHHHHHCCC----------EEEEECCCCCHHHCCCHHHHHHHHHHHH---------CCC---------
T ss_conf 992718999999999986197----------5896053220111130456659999980---------523---------
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 89999999998899999965034689999987542222359987676599999999989999999999989999876679
Q 000592 1252 TLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEAKLRKLYEQKKQIYRELGVAQVQEKKSY 1331 (1402)
Q Consensus 1252 ~LrseLe~L~~~i~~~eA~R~~l~~~~~~~k~~L~~e~~k~d~~~ls~~eL~~kL~kL~eqR~qL~~EL~~~~~~ek~~~ 1331 (1402)
..++.++. ..+ ...+.++... .
T Consensus 281 --~~~l~~l~-------~~~--------------------~~~~~~~~~~-----------------------------~ 302 (624)
T 2gk6_A 281 --MPELQKLQ-------QLK--------------------DETGELSSAD-----------------------------E 302 (624)
T ss_dssp --CHHHHHHH-------TTC--------------------C----CCHHH-----------------------------H
T ss_pred --HHHHHHHH-------HHH--------------------HHHCCCCHHH-----------------------------H
T ss_conf --69999999-------998--------------------7642137778-----------------------------9
Q ss_pred HHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCC
Q ss_conf 9999999999998741383999918888767533444555665458999899999899926842200247
Q 000592 1332 EETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHE 1401 (1402)
Q Consensus 1332 re~e~~Rrkir~~IL~eAdIVCSTLSGSGhell~~~set~aa~k~~~~~~~~~FDtVIIDEAAQAVElS~ 1401 (1402)
+..+..++++...+|++++|||+|++++++..+. ...||+||||||+|+.|+.+
T Consensus 303 ~~~~~~~~~~~~~~l~~~~vI~~T~~~~~~~~l~----------------~~~fd~viIDEAsQ~~e~~~ 356 (624)
T 2gk6_A 303 KRYRALKRTAERELLMNADVICCTCVGAGDPRLA----------------KMQFRSILIDESTQATEPEC 356 (624)
T ss_dssp HHHHHHHHHHHHHHHHTCSEEEEETGGGGCGGGT----------------TCCCSEEEETTGGGSCHHHH
T ss_pred HHHHHHHHHHHHHHHHCCCEEEECCHHHCCHHHH----------------CCCCCEEEEECCCCCCCHHH
T ss_conf 9999999988999871499999927011514664----------------67988799963014675899
No 3
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay, zinc-finger, ATP-binding, metal-BIN UPF2, UPF1, helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A 2iyk_A
Probab=1.00 E-value=1 Score=276.95 Aligned_cols=353 Identities=22% Similarity=0.262 Sum_probs=214.3
Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCEEEEEEEECCCCCCCCCC
Q ss_conf 01455646864379667999636999999999998424211762212126148986554087299998615998744457
Q 000592 855 VHCKLKEVPVCFQSPEQFVSIFRPLVLEEFKAQLHSSFLEMSSWEDMYYGSLSVLSVERVDDFHLVRFVHDDNDSVTSKI 934 (1402)
Q Consensus 855 ~~~kLkkIP~TF~SveEYi~tFePLLLEE~rAQL~sSleEiss~E~~~~g~IsVlS~ervD~F~lV~f~~~~~~~~k~~~ 934 (1402)
....+.+|+++|.|+.+|.++|.||+.+|.+++... .|.... ..+.+......++.....|.... ......
T Consensus 171 ~~~~~~~v~~~y~~~~~Y~~~~~~l~~lE~~~~~~~--~e~~~~-----~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~ 241 (800)
T 2wjy_A 171 VDEEPQHVLLRYEDAYQYQNIFGPLVKLEADYDKKL--KESQTQ-----DNITVRWDLGLNKKRIAYFTLPK--TDSDMR 241 (800)
T ss_dssp ---CCCCCCSCCSCHHHHHHHHHHHHHHHHHHHHHH--HHHTCE-----EEECCEEEECTTCCEEEEECCCB--CCC--C
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH--HHHHHC-----CCEEEEEEECCCCEEEEEEEECC--CCCCCC
T ss_conf 544546634445999999999999999999761434--455422-----66289877268980689999536--557887
Q ss_pred CCCCCEEEEEECCCCCCCCCEEEEEEEEEEECCCCCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCEEEEEECCCCHHHH
Q ss_conf 89993999972399999985019999985413578885299999983078511168876431035323432135038899
Q 000592 935 FSENDLVLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLR 1014 (1402)
Q Consensus 935 lsEgDLVLLSke~P~~s~~~~h~LG~Ver~e~d~~k~~~~L~IRi~l~n~s~rLnq~~~~L~~rs~w~ltKL~SLTTi~R 1014 (1402)
+..||+|.++..++.. ....+.|.|.+..... ...+.+.+... ..... .....+.+.++.+.+|+.|
T Consensus 242 l~~GD~v~l~~~~~~~--~~~~~~g~V~~v~~~~---~~~v~l~~~~~-~~~p~-------~~~~~~~v~~~~~~~~~~r 308 (800)
T 2wjy_A 242 LMQGDEICLRYKGDLA--PLWKGIGHVIKVPDNY---GDEIAIELRSS-VGAPV-------EVTHNFQVDFVWKSTSFDR 308 (800)
T ss_dssp CCTTCEEEEEECSSSS--CCEEEEEEEEECSBTT---BSCEEEEESCC-TTCCT-------TCCSCEEEEECCCCHHHHH
T ss_pred CCCCCEEEEEECCCCC--CCCEEEEEEEEECCCC---CCEEEEEECCC-CCCCC-------CCCCCCEEEEEECCCHHHH
T ss_conf 8999989999788878--8734589999976788---88899998268-88840-------0377704999606875999
Q ss_pred HHHHHCCCCCC--C----CCCCCCCCCCCCCCCCCCCCCCCCCHHH-HHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCE
Q ss_conf 99852027889--9----8333247888778988853233364248-888850179999999999997038998678762
Q 000592 1015 EFHALSSLKSI--P----LLPIILNPVNVSRGYNESRELDLGKLSQ-LQQILKTSFNESQLQAISVAIGLSSSWKKDCEL 1087 (1402)
Q Consensus 1015 Ey~AL~sL~~l--P----L~~~ILsPs~~~~~~~e~~~~~l~ki~~-L~~~Lk~~LNeSQlqAI~sAL~~s~~~~k~~~i 1087 (1402)
++.||..+... . +...+++.......... .++. +.......||++|.+||..++.. ++
T Consensus 309 ~~~aL~~~~~~e~~~~~~l~~~ll~~~~~~~~~~~-------~l~~~~~~~~~~~Ln~~Q~~Av~~~l~~--------~~ 373 (800)
T 2wjy_A 309 MQSALKTFAVDETSVSGYIYHKLLGHEVEDVIIKC-------QLPKRFTAQGLPDLNHSQVYAVKTVLQR--------PL 373 (800)
T ss_dssp HHHHHHHHHHCTTSBCHHHHHHHTTCCCCCCCCCC-------CCCSCCSCTTSCCCCHHHHHHHHHHHTS--------SE
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHCCCCCCCHHHCC-------CCCCCCCCCCCCCCCHHHHHHHHHHCCC--------CE
T ss_conf 99999999874001168999985188887133224-------5720036434667799999999874259--------91
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 89976899980568999999999712899754455766555788766503899989887998743123321123565565
Q 000592 1088 SLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESS 1167 (1402)
Q Consensus 1088 TLIQGPPGTGKTkTIvgLIsaLL~~~~~~~s~~~p~~ss~~~~Rp~~s~~~~var~W~d~a~arql~~d~~~~~~~s~~~ 1167 (1402)
+|||||||||||+|+..++..++..
T Consensus 374 ~lI~GppGTGKT~ti~~~i~~l~~~------------------------------------------------------- 398 (800)
T 2wjy_A 374 SLIQGPPGTGKTVTSATIVYHLARQ------------------------------------------------------- 398 (800)
T ss_dssp EEEECCTTSCHHHHHHHHHHHHHTT-------------------------------------------------------
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC-------------------------------------------------------
T ss_conf 7998699999899999999999974-------------------------------------------------------
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCC--CCCCCCCCCHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 78729999274389999999998258778999866893889666443--2688854317999999988853025997631
Q 000592 1168 VRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKT--VHPNSLPFFIDTLVDHRLAEERMHLTDPKNE 1245 (1402)
Q Consensus 1168 ~k~RILVCAPSNAAVDEIV~RLl~~GI~d~dGk~y~p~IVRIG~~~a--Ihs~v~dvsLD~LV~qrLs~~~~~~~~~k~~ 1245 (1402)
.+.+||+|||||.|+|++..|+.+.|+ +++|+|...+ +...+...++..++... +.
T Consensus 399 ~~~~ilv~a~tn~A~~~l~~~l~~~g~----------~vvRlg~~~r~~i~~~~~~~tlh~~~~~~---------~~--- 456 (800)
T 2wjy_A 399 GNGPVLVCAPSNIAVDQLTEKIHQTGL----------KVVRLCAKSREAIDSPVSFLALHNQIRNM---------DS--- 456 (800)
T ss_dssp CSSCEEEEESSHHHHHHHHHHHHTTTC----------CEEECCCGGGGGCCCTTGGGBHHHHHHTC---------TT---
T ss_pred CCCCEEEECCCHHHHHHHHHHHHHHCC----------CEEEECCCCHHHHCCHHHHHHHHHHHHCC---------CC---
T ss_conf 898199986968999999999987275----------41762332143313615565399999727---------64---
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 12220689999999998899999965034689999987542222359987676599999999989999999999989999
Q 000592 1246 FCTRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEAKLRKLYEQKKQIYRELGVAQV 1325 (1402)
Q Consensus 1246 ~~~~ss~LrseLe~L~~~i~~~eA~R~~l~~~~~~~k~~L~~e~~k~d~~~ls~~eL~~kL~kL~eqR~qL~~EL~~~~~ 1325 (1402)
. .++.++. ..+.. .+.++... +
T Consensus 457 ----~----~~l~~l~-------~~~~~--------------------~~~~~~~~-~---------------------- 478 (800)
T 2wjy_A 457 ----M----PELQKLQ-------QLKDE--------------------TGELSSAD-E---------------------- 478 (800)
T ss_dssp ----C----HHHHHHH-------HHHTT--------------------TSCCCHHH-H----------------------
T ss_pred ----H----HHHHHHH-------HHHHH--------------------HCCCCHHH-H----------------------
T ss_conf ----9----9999999-------99875--------------------33468678-9----------------------
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCC
Q ss_conf 8766799999999999998741383999918888767533444555665458999899999899926842200247
Q 000592 1326 QEKKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHE 1401 (1402)
Q Consensus 1326 ~ek~~~re~e~~Rrkir~~IL~eAdIVCSTLSGSGhell~~~set~aa~k~~~~~~~~~FDtVIIDEAAQAVElS~ 1401 (1402)
+..+..++++..++|++++|||+|++++++..+ ....||+||||||+|+.|+.+
T Consensus 479 ------~~~~~~~~~~~~~~l~~a~VI~~T~~~~~~~~l----------------~~~~fd~viIDEAsQ~~e~~~ 532 (800)
T 2wjy_A 479 ------KRYRALKRTAERELLMNADVICCTCVGAGDPRL----------------AKMQFRSILIDESTQATEPEC 532 (800)
T ss_dssp ------HHHHHHHHHHHHHHHHHCSEEEEETGGGGCTTT----------------TTCCCSEEEETTGGGSCHHHH
T ss_pred ------HHHHHHHHHHHHHHHCCCCEEEECHHHHCCHHH----------------HCCCCCEEEEECCCCCCCHHH
T ss_conf ------999999987777543369899974045287245----------------458989899989778776999
No 4
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA degradation, allosteric REGU; HET: ADP 1PE; 2.40A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=274.78 Aligned_cols=353 Identities=24% Similarity=0.262 Sum_probs=216.4
Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCEEEEEEEECCCCCCCCCC
Q ss_conf 01455646864379667999636999999999998424211762212126148986554087299998615998744457
Q 000592 855 VHCKLKEVPVCFQSPEQFVSIFRPLVLEEFKAQLHSSFLEMSSWEDMYYGSLSVLSVERVDDFHLVRFVHDDNDSVTSKI 934 (1402)
Q Consensus 855 ~~~kLkkIP~TF~SveEYi~tFePLLLEE~rAQL~sSleEiss~E~~~~g~IsVlS~ervD~F~lV~f~~~~~~~~k~~~ 934 (1402)
...++.+||++|.|+.+|.++|.||+..|.+++... .+... ...+.+......++.+.+.|..+.. ......
T Consensus 173 ~~~~~~~v~~~y~~~~~Y~~~~~~ll~lE~~~~~~~--~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 244 (802)
T 2xzl_A 173 EQEAIPPLLLRYQDAYEYQRSYGPLIKLEADYDKQL--KESQA-----LEHISVSWSLALNNRHLASFTLSTF-ESNELK 244 (802)
T ss_dssp -----CCCCSSCSSHHHHHHHHHHHHHHHHHHHHHH--HCCC-------CCBCEEEEECTTSCEEEEEC----------C
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHH--HHHHH-----CCCCEEEEECCCCCEEEEEEEECCC-CCCCCC
T ss_conf 655646666556999999999989999999762234--66764-----4482675440679838999980664-557898
Q ss_pred CCCCCEEEEEECCCCCCCCCEEEEEEEEEEECCCCCCCEEEEEEEEECCCCCCHHHHHHHHHCCCCEEEEEECCCCHHHH
Q ss_conf 89993999972399999985019999985413578885299999983078511168876431035323432135038899
Q 000592 935 FSENDLVLLTRVSPQKTPHDVHMVGKVERRERDNNRRSSILLIRFYLQNGSVRLNQARRNLLERSKWHATLIMSITPQLR 1014 (1402)
Q Consensus 935 lsEgDLVLLSke~P~~s~~~~h~LG~Ver~e~d~~k~~~~L~IRi~l~n~s~rLnq~~~~L~~rs~w~ltKL~SLTTi~R 1014 (1402)
+..||.|+++...+.. ......|.|.+..... ...+.+++......... .....+.+.++.+.+|+.|
T Consensus 245 ~~~GD~v~l~~~~~~~--~~~~~~g~V~~v~~~~---~~~v~v~~~~~~~~~p~-------~~~~~~~v~~~~~~~~~~r 312 (802)
T 2xzl_A 245 VAIGDEMILWYSGMQH--PDWEGRGYIVRLPNSF---QDTFTLELKPSKTPPPT-------HLTTGFTAEFIWKGTSYDR 312 (802)
T ss_dssp CCTTCEEEEEECSSSS--SCEEEEEEEEECCC------CCEEEEECCCSSCCCT-------TCCSSEEEEECCCCHHHHH
T ss_pred CCCCCEEEEEECCCCC--CCEEEEEEEEEECCCC---CCEEEEEEECCCCCCCC-------CCCCCEEEEEEECCCHHHH
T ss_conf 9999989999789888--9515789999987888---87899999678889960-------0277748999756861899
Q ss_pred HHHHHCCCCC--CC----CCCCCCCCCCCCCCCCCCCCCCCCCHHH-HHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCE
Q ss_conf 9985202788--99----8333247888778988853233364248-888850179999999999997038998678762
Q 000592 1015 EFHALSSLKS--IP----LLPIILNPVNVSRGYNESRELDLGKLSQ-LQQILKTSFNESQLQAISVAIGLSSSWKKDCEL 1087 (1402)
Q Consensus 1015 Ey~AL~sL~~--lP----L~~~ILsPs~~~~~~~e~~~~~l~ki~~-L~~~Lk~~LNeSQlqAI~sAL~~s~~~~k~~~i 1087 (1402)
++.||..+.. .. +.+.+++.......... .++. +.......||++|.+||..++.. ++
T Consensus 313 ~~~AL~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~-------~lp~~~~~~~~~~Ln~~Q~~Av~~~l~~--------~~ 377 (802)
T 2xzl_A 313 MQDALKKFAIDKKSISGYLYYKILGHQVVDISFDV-------PLPKEFSIPNFAQLNSSQSNAVSHVLQR--------PL 377 (802)
T ss_dssp HHHHHHHHHHCTTSBCHHHHHHHHTCCCCCCCCCC-------CCCSCCSCTTSCCCCHHHHHHHHHHTTC--------SE
T ss_pred HHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCC-------CCCCCCCCCCCCCCCHHHHHHHHHHHCC--------CC
T ss_conf 99999998751334036788876077656543465-------6851115434556899999999998639--------97
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 89976899980568999999999712899754455766555788766503899989887998743123321123565565
Q 000592 1088 SLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARAWQDAALARQINEDSERDKKSSESS 1167 (1402)
Q Consensus 1088 TLIQGPPGTGKTkTIvgLIsaLL~~~~~~~s~~~p~~ss~~~~Rp~~s~~~~var~W~d~a~arql~~d~~~~~~~s~~~ 1167 (1402)
+|||||||||||+||+.++..++..
T Consensus 378 ~lI~GppGTGKT~~i~~~i~~l~~~------------------------------------------------------- 402 (802)
T 2xzl_A 378 SLIQGPPGTGKTVTSATIVYHLSKI------------------------------------------------------- 402 (802)
T ss_dssp EEEECSTTSSHHHHHHHHHHHHHHH-------------------------------------------------------
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHC-------------------------------------------------------
T ss_conf 7998789977899999999999867-------------------------------------------------------
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCC--CCCCCCCCCHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 78729999274389999999998258778999866893889666443--2688854317999999988853025997631
Q 000592 1168 VRARVLICAQSNAAVDELVSRISKEGLYGSDGKTYKPYLVRVGNVKT--VHPNSLPFFIDTLVDHRLAEERMHLTDPKNE 1245 (1402)
Q Consensus 1168 ~k~RILVCAPSNAAVDEIV~RLl~~GI~d~dGk~y~p~IVRIG~~~a--Ihs~v~dvsLD~LV~qrLs~~~~~~~~~k~~ 1245 (1402)
.+.+||||||||.|+|++..||.+.|+ +++|+|...+ +...+...+++.++... +.
T Consensus 403 ~~~~ILv~a~tn~A~d~l~~rL~~~g~----------~ilR~g~~~r~~i~~~~~~~tl~~~~~~~---------~~--- 460 (802)
T 2xzl_A 403 HKDRILVCAPSNVAVDHLAAKLRDLGL----------KVVRLTAKSREDVESSVSNLALHNLVGRG---------AK--- 460 (802)
T ss_dssp HCCCEEEEESSHHHHHHHHHHHHHTTC----------CEEECCCGGGTTSCCTTGGGBHHHHHHTT---------CC---
T ss_pred CCCEEEEECCCHHHHHHHHHHHHHHCC----------CEEEECCCCHHHHCCHHHHHHHHHHHHHH---------CH---
T ss_conf 997299984857999999999986275----------07862223222103156564299999851---------68---
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 12220689999999998899999965034689999987542222359987676599999999989999999999989999
Q 000592 1246 FCTRSSTLRSNLEKLVDRIRFFEAKRANTKDGNSDPKNMLDDEVHKGDDVKLSDVELEAKLRKLYEQKKQIYRELGVAQV 1325 (1402)
Q Consensus 1246 ~~~~ss~LrseLe~L~~~i~~~eA~R~~l~~~~~~~k~~L~~e~~k~d~~~ls~~eL~~kL~kL~eqR~qL~~EL~~~~~ 1325 (1402)
.++.++.... . .. +.++..+.
T Consensus 461 ---------~~l~~l~~~~----~---~~--------------------~~ls~~~~----------------------- 481 (802)
T 2xzl_A 461 ---------GELKNLLKLK----D---EV--------------------GELSASDT----------------------- 481 (802)
T ss_dssp ---------THHHHHHHHH----H---HH--------------------SCCCHHHH-----------------------
T ss_pred ---------HHHHHHHHHH----H---HH--------------------CCCCHHHH-----------------------
T ss_conf ---------9999999998----8---64--------------------45788899-----------------------
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCC
Q ss_conf 8766799999999999998741383999918888767533444555665458999899999899926842200247
Q 000592 1326 QEKKSYEETKALKHKLRKSILKEAEIVVTTLSGCGGDLYGVCSESVSGFKFGNPSENTLFDAVVIDEAAQVVLVHE 1401 (1402)
Q Consensus 1326 ~ek~~~re~e~~Rrkir~~IL~eAdIVCSTLSGSGhell~~~set~aa~k~~~~~~~~~FDtVIIDEAAQAVElS~ 1401 (1402)
+.....+++....+|+.++|||+|++++++..+ .. .||.||||||+|+.|+.+
T Consensus 482 ------~~~~~~~~~~~~~~l~~a~VI~~T~~~~~~~~L----------------~~-~fd~viIDEA~q~~e~~~ 534 (802)
T 2xzl_A 482 ------KRFVKLVRKTEAEILNKADVVCCTCVGAGDKRL----------------DT-KFRTVLIDESTQASEPEC 534 (802)
T ss_dssp ------HHHHHHHHHHHHHHHHTCSEEEEETTGGGCTTC----------------CS-CCSEEEETTGGGSCHHHH
T ss_pred ------HHHHHHHHHHHHHHHCCCCEEEECHHHCCHHHH----------------HC-CCCEEEEECCCCCCHHHH
T ss_conf ------888999999999875239999833233172777----------------55-699999988503244789
No 5
>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*
Probab=1.00 E-value=1 Score=96.68 Aligned_cols=14 Identities=21% Similarity=0.173 Sum_probs=9.5
Q ss_pred CCCCCEEEEECCCC
Q ss_conf 99999899926842
Q 000592 1382 NTLFDAVVIDEAAQ 1395 (1402)
Q Consensus 1382 ~~~FDtVIIDEAAQ 1395 (1402)
..+|++|+|=-..+
T Consensus 564 GLEf~~Vfl~gl~e 577 (647)
T 3lfu_A 564 GLEFPQVFIVGMEE 577 (647)
T ss_dssp TCCEEEEEECCCBT
T ss_pred CCCCCEEEEECCCC
T ss_conf 76677799927767
No 6
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein, ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus radiodurans} PDB: 3gp8_A 3gpl_A*
Probab=1.00 E-value=1 Score=94.20 Aligned_cols=66 Identities=26% Similarity=0.375 Sum_probs=54.5
Q ss_pred HCCCCHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHH
Q ss_conf 01799999999999970389986787628997689998056899999999971289975445576655578876650389
Q 000592 1060 KTSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAA 1139 (1402)
Q Consensus 1060 k~~LNeSQlqAI~sAL~~s~~~~k~~~iTLIQGPPGTGKTkTIvgLIsaLL~~~~~~~s~~~p~~ss~~~~Rp~~s~~~~ 1139 (1402)
...||+.|.+|+..++.. ++.+|+||||||||+|+.+++..+...
T Consensus 187 ~~~L~~~Q~~Av~~~~~~--------~~~~I~G~pGTGKTt~i~~l~~~l~~~--------------------------- 231 (574)
T 3e1s_A 187 RKGLSEEQASVLDQLAGH--------RLVVLTGGPGTGKSTTTKAVADLAESL--------------------------- 231 (574)
T ss_dssp TTTCCHHHHHHHHHHTTC--------SEEEEECCTTSCHHHHHHHHHHHHHHT---------------------------
T ss_pred CCCCCHHHHHHHHHHHHC--------CEEEEECCCCCCHHHHHHHHHHHHHHC---------------------------
T ss_conf 379999999999999768--------879999599998899999999999856---------------------------
Q ss_pred HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHH
Q ss_conf 99898879987431233211235655657872999927438999999999
Q 000592 1140 IARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRI 1189 (1402)
Q Consensus 1140 var~W~d~a~arql~~d~~~~~~~s~~~~k~RILVCAPSNAAVDEIV~RL 1189 (1402)
+.+|++||||+.|.+++..++
T Consensus 232 -----------------------------g~~Vl~~ApT~~Aa~~L~e~~ 252 (574)
T 3e1s_A 232 -----------------------------GLEVGLCAPTGKAARRLGEVT 252 (574)
T ss_dssp -----------------------------TCCEEEEESSHHHHHHHHHHH
T ss_pred -----------------------------CCEEEEECCCHHHHHHHHHHH
T ss_conf -----------------------------982999648589999767663
No 7
>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase, hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*
Probab=1.00 E-value=1 Score=89.85 Aligned_cols=67 Identities=31% Similarity=0.459 Sum_probs=53.3
Q ss_pred CHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 99999999999703899867876289976899980568999999999712899754455766555788766503899989
Q 000592 1064 NESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAIARA 1143 (1402)
Q Consensus 1064 NeSQlqAI~sAL~~s~~~~k~~~iTLIQGPPGTGKTkTIvgLIsaLL~~~~~~~s~~~p~~ss~~~~Rp~~s~~~~var~ 1143 (1402)
++.|..||..++.. ++.+|+||||||||+|+..++..+.....
T Consensus 151 ~~~Q~~Ai~~~l~~--------~~~vi~G~pGTGKTt~l~~ll~~l~~~~~----------------------------- 193 (608)
T 1w36_D 151 INWQKVAAAVALTR--------RISVISGGPGTGKTTTVAKLLAALIQMAD----------------------------- 193 (608)
T ss_dssp CCHHHHHHHHHHTB--------SEEEEECCTTSTHHHHHHHHHHHHHHTCS-----------------------------
T ss_pred CHHHHHHHHHHHCC--------CCEEEEECCCCCHHHHHHHHHHHHHHHHH-----------------------------
T ss_conf 99999999999629--------98999949999789999999999998630-----------------------------
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHHH
Q ss_conf 88799874312332112356556578729999274389999999998
Q 000592 1144 WQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRIS 1190 (1402)
Q Consensus 1144 W~d~a~arql~~d~~~~~~~s~~~~k~RILVCAPSNAAVDEIV~RLl 1190 (1402)
..+.+|++||||+.|.+++...+.
T Consensus 194 -----------------------~~~~~vll~APTg~AA~~L~e~~~ 217 (608)
T 1w36_D 194 -----------------------GERCRIRLAAPTGKAAARLTESLG 217 (608)
T ss_dssp -----------------------SCCCCEEEEBSSHHHHHHHHHHHT
T ss_pred -----------------------CCCCEEEEEECCHHHHHHHHHHHH
T ss_conf -----------------------579759999187368999999999
No 8
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain, PIN-tower interface, coupling hydrolysis to DNA unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Probab=1.00 E-value=1 Score=87.41 Aligned_cols=71 Identities=27% Similarity=0.361 Sum_probs=53.7
Q ss_pred CCCCHHHHHHHHHHHCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHH
Q ss_conf 17999999999999703899867876289976899980568999999999712899754455766555788766503899
Q 000592 1061 TSFNESQLQAISVAIGLSSSWKKDCELSLIQGPPGTGKTRTIVAIVSALLATRTSPKSHLKQNYSSCINSRPKIGQSAAI 1140 (1402)
Q Consensus 1061 ~~LNeSQlqAI~sAL~~s~~~~k~~~iTLIQGPPGTGKTkTIvgLIsaLL~~~~~~~s~~~p~~ss~~~~Rp~~s~~~~v 1140 (1402)
..||+.|.+|+..++..- ....++.||+||||||||+++..++..+....
T Consensus 24 ~~Ln~~Q~~av~~~~~~i---~~~~~~~li~G~aGTGKT~ll~~~~~~l~~~~--------------------------- 73 (459)
T 3upu_A 24 DDLTEGQKNAFNIVMKAI---KEKKHHVTINGPAGTGATTLTKFIIEALISTG--------------------------- 73 (459)
T ss_dssp SCCCHHHHHHHHHHHHHH---HSSSCEEEEECCTTSCHHHHHHHHHHHHHHTT---------------------------
T ss_pred CCCCHHHHHHHHHHHHHH---HCCCCEEEEEECCCCCHHHHHHHHHHHHHHCC---------------------------
T ss_conf 348999999999999987---36897799996999989999999999998649---------------------------
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCHHHHHHHHHHH
Q ss_conf 9898879987431233211235655657872999927438999999999
Q 000592 1141 ARAWQDAALARQINEDSERDKKSSESSVRARVLICAQSNAAVDELVSRI 1189 (1402)
Q Consensus 1141 ar~W~d~a~arql~~d~~~~~~~s~~~~k~RILVCAPSNAAVDEIV~RL 1189 (1402)
..+|++|||||.|.+++..|+
T Consensus 74 ----------------------------~~~il~~a~T~~Aa~~l~~~~ 94 (459)
T 3upu_A 74 ----------------------------ETGIILAAPTHAAKKILSKLS 94 (459)
T ss_dssp ----------------------------CCCEEEEESSHHHHHHHHHHH
T ss_pred ----------------------------CCEEEEECCCHHHHHHHHHHH
T ss_conf ----------------------------960999667578999887661
No 9
>1uaa_A REP helicase, protein (ATP-dependent DNA helicase REP.); complex (helicase/DNA), DNA unwinding, hydrolase/DNA complex; HET: DNA; 3.00A {Escherichia coli} SCOP: c.37.1.19 c.37.1.19
Probab=1.00 E-value=1 Score=78.77 Aligned_cols=25 Identities=16% Similarity=0.085 Sum_probs=14.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHCC
Q ss_conf 4234444322267776211243202
Q 000592 440 TFLDYSLCQMTCIRVLEILPVVFGK 464 (1402)
Q Consensus 440 ~~~~~~~~~~~c~r~~e~lp~~~~~ 464 (1402)
..+|+.-+..-+.++|+-.|-+.++
T Consensus 179 ~~lDfdDll~~~~~lL~~~~~~~~~ 203 (673)
T 1uaa_A 179 NVLDFDDLILLPTLLLQANEEVRKR 203 (673)
T ss_dssp TCEEHHHHHHHHHHHHHHCHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHCHHHHHH
T ss_conf 9998899999999998749689999
No 10
>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP- binding, DNA-binding; 2.50A {Geobacillus stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB: 1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C* 2pjr_B*
Probab=1.00 E-value=1 Score=78.16 Aligned_cols=48 Identities=21% Similarity=0.227 Sum_probs=27.4
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHCCC-----CCCCCCCCCCCCCCCCCCCCH--HHHHHHHH
Q ss_conf 542344443222677762112432022-----321111446544333545751--44688985
Q 000592 439 KTFLDYSLCQMTCIRVLEILPVVFGKV-----CPLLAEHSGYSATTTQNVFDF--KWLHDLMD 494 (1402)
Q Consensus 439 ~~~~~~~~~~~~c~r~~e~lp~~~~~~-----~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~ 494 (1402)
...+|+.-+-+-+.++|+-.|-+.++. ...+++ + +|.+.. .|+.-|..
T Consensus 187 ~~~lDf~Dll~~~~~ll~~~~~v~~~~~~rf~~IlVDE--f------QDtn~~Q~~ll~~L~~ 241 (724)
T 1pjr_A 187 NHSLDFDDLIMTTIQLFDRVPDVLHYYQYKFQYIHIDE--Y------QDTNRAQYTLVKKLAE 241 (724)
T ss_dssp TTEECTTHHHHHHHHHHHHCHHHHHHHHHHCSEEEESS--G------GGCCHHHHHHHHHHHT
T ss_pred CCCCCHHHHHHHHHHHHHHCHHHHHHHHHHCCEEEEEH--H------HCCCHHHHHHHHHHHC
T ss_conf 59999999999999998659799999986398999876--7------6089999999999976
Done!