Query 003721
Match_columns 800
No_of_seqs 604 out of 3849
Neff 7.7
Searched_HMMs 29240
Date Tue Mar 26 18:17:59 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/003721.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1769-1773//hhsearch_pdb/003721hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2xau_A PRE-mRNA-splicing facto 1.0 1 1 756.8 52.6 522 279-800 83-617 (773)
2 2va8_A SSO2462, SKI2-type heli 1.0 1 1 499.8 31.8 494 290-797 30-612 (715)
3 2p6r_A Afuhel308 helicase; pro 1.0 1 1 482.9 35.7 491 290-797 25-591 (702)
4 2zj8_A DNA helicase, putative 1.0 1 1 471.3 30.1 489 288-794 21-598 (720)
5 4f92_B U5 small nuclear ribonu 1.0 1 1 381.3 34.2 453 291-751 927-1467(1724)
6 4f92_B U5 small nuclear ribonu 1.0 1 1 377.0 35.2 496 257-780 63-669 (1724)
7 3l9o_A ATP-dependent RNA helic 1.0 1 1 368.0 22.8 328 285-630 179-597 (1108)
8 4a4z_A Antiviral helicase SKI2 1.0 1 1 364.1 14.1 324 288-628 37-490 (997)
9 2db3_A ATP-dependent RNA helic 1.0 1 1 349.6 21.2 311 287-630 75-407 (434)
10 2v1x_A ATP-dependent DNA helic 1.0 1 1 341.9 23.9 311 290-632 44-376 (591)
No 1
>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase, ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET: ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*
Probab=1.00 E-value=1 Score=756.82 Aligned_cols=522 Identities=53% Similarity=0.918 Sum_probs=490.2
Q ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHCCC--CCEEEEECCHHHHHHHHHHHHHH
Q ss_conf 3679999812895289999999998099399991689846999999999950018--99699943258999999999999
Q 003721 279 KLSIQEQRRSLPIFKLKNELIQAVHDNQVLILIGETGSGKTTQLAQYLAEAGYTT--KGKIGCTQPRRVAATSVAKRVAE 356 (800)
Q Consensus 279 ~~~~~~~r~~lPi~~~Q~~~i~~i~~~~~vii~apTGSGKTt~~~~~lle~~~~~--~~~il~~~P~r~la~qva~rva~ 356 (800)
...+...|..+|++..|..+..++..+++++++||||||||+++++++++..... +.+++|++|+|+++.+++.++++
T Consensus 83 ~~~~l~~r~~lP~~~q~~~i~~~l~~~~~vii~gpTGSGKTtllp~ll~~~~~~~~~g~~ilvl~P~r~La~q~~~~l~~ 162 (773)
T 2xau_A 83 YVDILKIRRELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHLENTQVACTQPRRVAAMSVAQRVAE 162 (773)
T ss_dssp HHHHHHHHTTSGGGGGHHHHHHHHHHCSEEEEECCTTSSHHHHHHHHHHHHHCGGGGTCEEEEEESCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCEEEECCCHHHHHHHHHHHHHH
T ss_conf 99999986618959999999999967983999889988999999999997400158996588618569999999999999
Q ss_pred HHCCCCCCEEEEEEECCCCCCCCCEEEEECHHHHHHHHHCCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCE
Q ss_conf 95994462310012001136998169995508899998308799998129983468679780169999999985099933
Q 003721 357 EFGCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDENLSQYSVIMLDEAHERTINTDVLFGLLKQLVKRRPDLR 436 (800)
Q Consensus 357 ~~g~~~g~~vG~~ir~~~~~~~~~~I~~~T~g~Ll~~l~~~~~l~~~~~IIiDEaHer~~~~d~l~~llk~l~~~~~~~k 436 (800)
+++..++..+||.++++......+.|+++|+|++++.+..+..+.++++||+||+|+|+++.+.++++++.+...+++.+
T Consensus 163 ~~~~~v~~~vG~~i~~~~~~~~~~~I~v~T~G~l~r~l~~~~~l~~~~~lIlDEah~R~ld~d~~~~~l~~l~~~~~~~~ 242 (773)
T 2xau_A 163 EMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLREAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLK 242 (773)
T ss_dssp HTTCCBTTTEEEEETTEEECCTTCSEEEEEHHHHHHHHHHSTTCTTEEEEEECSGGGCCHHHHHHHHHHHHHHHHCTTCE
T ss_pred HHCCCHHHEECCEECCCCCCCCCCCEEEECHHHHHHHHHHCCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCE
T ss_conf 84884532566222445455889877998999999997428443577889954701036455899999999987487862
Q ss_pred EEEECCCCCHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECCCHHHHHHHHHH
Q ss_conf 99961578958896363289865689972121577404650005999999999975129998899992999999999999
Q 003721 437 LIVTSATLDAERFSGYFFNCNIFSIPGRTFPVDINYSRQEVTDYLDSALITVLQIHVDEPEGDILLFLTGQEEIDFACES 516 (800)
Q Consensus 437 iI~lSATl~~~~~~~~f~~~~~~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVF~~s~~~i~~l~~~ 516 (800)
+|+||||++.+.+..+|.+++++.++++.+|+++.|...+..++.+..+..+.+++....++++||||+++++++.+++.
T Consensus 243 iIl~SAT~~~~~l~~~~~~~~vi~v~gr~~pv~~~~~~~~~~~~~~~~l~~l~~~~~~~~~g~iLVF~~~~~~i~~l~~~ 322 (773)
T 2xau_A 243 IIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELYYTPEFQRDYLDSAIRTVLQIHATEEAGDILLFLTGEDEIEDAVRK 322 (773)
T ss_dssp EEEEESCSCCHHHHHHTTSCCEEECCCCCCCEEEECCSSCCSCHHHHHHHHHHHHHHHSCSCEEEEECSCHHHHHHHHHH
T ss_pred EEEEECCCCHHHHHHHHCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHH
T ss_conf 99994335689999984689854536865553889806882459999999999999726899989989989999999999
Q ss_pred HHHHHHHH--CCCCCCEEEEEECCCCCHHHHHHHCCCCC-----CCCCEEEEECCCHHHCCCCCCEEEEEECCCCCCEEE
Q ss_conf 99999960--89999818999739999999986517499-----999539995641100389899569990898554000
Q 003721 517 LCEKIKAL--GKDVPELVVLPVYSALPSEIQSRIFEPAP-----PGGRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVY 589 (800)
Q Consensus 517 L~~~l~~~--~~~~~~~~i~~lhs~l~~~~r~~i~~~f~-----~g~~kVlVAT~iae~GIdIp~v~~VId~g~~k~~~y 589 (800)
|.+.+..+ .....++.+.++||++++++|..+++.|+ +|.++|||||+++++|||||+|++|||+|+.+.+.|
T Consensus 323 L~~~~~~l~~~~~~~~~~v~~lhg~l~~~eR~~v~~~f~~~~~~~g~~kVlVAT~iae~GidIp~v~~VId~g~~k~~~y 402 (773)
T 2xau_A 323 ISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPESHNGRPGRKVVISTNIAETSLTIDGIVYVVDPGFSKQKVY 402 (773)
T ss_dssp HHHHHHHHHHHHCCCCEEEEEECTTCCHHHHGGGGSCCCCCSSSSCCEEEEEECTHHHHTCCCTTEEEEEECSEEEEEEE
T ss_pred HHHHHHHHCCCCCCCCEEEEEECCCCCHHHHHHHHHHCCCCCCCCCCEEEEEECCHHHHCCCCCCEEEEEECCCCCCEEE
T ss_conf 99988763134567975999807899999999998526434578883499996767984767687379994797221222
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCEEEECCCHHHHHHHCCCCCCCCHHCCCCHHHHHHHHHCCCCCCCCCCC
Q ss_conf 67789654343205998699883613999997699903837764208999982012148146999999839987655568
Q 003721 590 NPKQRLDSLVITPISQASALQRAGRAGRTGPGKCYRLYTESAYRSEMSPTTIPEIQRINLVHTTLTMKAMGINNLLSFDF 669 (800)
Q Consensus 590 ~~~~~~~~l~~~p~S~~~~~QR~GRaGR~g~G~~~~L~t~~~~~~~l~~~~~pei~r~~L~~~~L~lk~~gi~~~~~f~~ 669 (800)
|++.|++.|...|+|.++|.||+|||||.++|.||+||++.++...+..+..|||++.+|.+++|.++++|+.++..|+|
T Consensus 403 d~~~g~~~L~~~p~S~~s~~QR~GRaGR~~~G~~~~l~~~~~~~~~l~~~~~pEi~r~~L~~~~L~l~~~gi~~~~~f~~ 482 (773)
T 2xau_A 403 NPRIRVESLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDF 482 (773)
T ss_dssp ETTTTEEEEEEEECCHHHHHHHHHGGGSSSSEEEEESSCHHHHHHTSCSSCCCGGGGSCCHHHHHHHHHTTCCCGGGCCC
T ss_pred CCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCEEEEEECHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCHHHCCC
T ss_conf 56668320330017999998653444789998799996378840123016897533475899999999849997232435
Q ss_pred CCCCCHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCCCCHHHH
Q ss_conf 89999678999999999829964478643434443138999688999999752099799999998705899876845689
Q 003721 670 VDPPSPQALISAMEQLYSLGALDEEGLLTKLGKKMAEFPLDPPLSKMLLASVDLGCSDEILTIIAMIQTGHIFTRPRERQ 749 (800)
Q Consensus 670 ~~~p~~~~i~~al~~L~~lgald~~g~lT~lG~~~a~lpl~p~~~k~l~~~~~~~c~~~~l~i~a~ls~~~~f~~p~~~~ 749 (800)
++||+.+.+..|++.|..+||||++|++|++|+.|+.||++|.+|+||+.+..++|++++++|+|||+++++|++|.+++
T Consensus 483 ~~~p~~~~i~~a~~~L~~lgald~~~~lT~lG~~~a~~pl~p~~~~~l~~~~~~~c~~~~l~i~a~ls~~~~f~~~~~~~ 562 (773)
T 2xau_A 483 MDPPAPETMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVAMLSVPNVFIRPTKDK 562 (773)
T ss_dssp SSCCCHHHHHHHHHHHHHTTSBCTTSCBCHHHHHHTTSSSCHHHHHHHHHGGGGTCHHHHHHHHHHHTSCCCBCCCTTCH
T ss_pred CCCCCHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCCHHHH
T ss_conf 57985999999999999768765578868305642433688899999986212474168999999603688551874789
Q ss_pred HHHHHHHHHCCCCCCCHHHHHHHHHHHHHCC---CC-HHHHHHHCCCHHHHHHCC
Q ss_conf 9999999631799988999999999999729---99-447985049956662109
Q 003721 750 AKADEKRARFFQPEGDHLTLLAVYEAWKAKN---FS-LPWCGENFVNSRSLKKTA 800 (800)
Q Consensus 750 ~~~~~~~~~f~~~~~D~lt~l~~~~~~~~~~---~~-~~~c~~~~~~~~~~~~a~ 800 (800)
++++.++.+|.++.|||++++|+|++|..+. .+ ..||.+|||++++|++++
T Consensus 563 ~~~~~~~~~f~~~~~D~~~~l~~~~~~~~~~~~~~~~~~~c~~~~l~~~~l~~~~ 617 (773)
T 2xau_A 563 KRADDAKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHYLNYRSLSAAD 617 (773)
T ss_dssp HHHHHHHHTTCCTTBHHHHHHHHHHHHTSHHHHHHCHHHHHHHTTBCHHHHHHHH
T ss_pred HHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCHHHHHHHH
T ss_conf 9999999850688985999999999998702221068999998388999999999
No 2
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Probab=1.00 E-value=1 Score=499.78 Aligned_cols=494 Identities=17% Similarity=0.153 Sum_probs=374.3
Q ss_pred CCHHHHHHHHHH-HHCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHH--HHHCCCCCCEE
Q ss_conf 952899999999-980993999916898469999999999500189969994325899999999999--99599446231
Q 003721 290 PIFKLKNELIQA-VHDNQVLILIGETGSGKTTQLAQYLAEAGYTTKGKIGCTQPRRVAATSVAKRVA--EEFGCRLGEEV 366 (800)
Q Consensus 290 Pi~~~Q~~~i~~-i~~~~~vii~apTGSGKTt~~~~~lle~~~~~~~~il~~~P~r~la~qva~rva--~~~g~~~g~~v 366 (800)
.++++|.++++. +.++++++++||||||||+++++++++.....+++++|++|+|++|.|+++++. ..+|..++..+
T Consensus 30 ~l~~~Q~~~i~~~~~~~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~il~i~P~r~La~q~~~~~~~~~~~g~~v~~~~ 109 (715)
T 2va8_A 30 KLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNGGKAIYVTPLRALTNEKYLTFKDWELIGFKVAMTS 109 (715)
T ss_dssp BCCHHHHHHHHTTTTTTCCEEEECCTTSCHHHHHHHHHHHHHHHSCSEEEEECSCHHHHHHHHHHHGGGGGGTCCEEECC
T ss_pred CCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHHCCCCEEEEEE
T ss_conf 79999999999986489948998489875999999999999997798499990859999999999987652798899984
Q ss_pred EEEEECCCCCCCCCEEEEECHHHHHHHHHCCCC-CCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCC
Q ss_conf 001200113699816999550889999830879-9998129983468679780169999999985099933999615789
Q 003721 367 GYAIRFEDCTGPDTVIKYMTDGMLLREILIDEN-LSQYSVIMLDEAHERTINTDVLFGLLKQLVKRRPDLRLIVTSATLD 445 (800)
Q Consensus 367 G~~ir~~~~~~~~~~I~~~T~g~Ll~~l~~~~~-l~~~~~IIiDEaHer~~~~d~l~~llk~l~~~~~~~kiI~lSATl~ 445 (800)
|+..+.+... ..+.|+++|||++.+.+..++. ++++++||+||+|+.. +.+ ....+..+..+.++.++|+||||++
T Consensus 110 G~~~~~~~~~-~~~~Iiv~Tpe~l~~~~~~~~~~l~~~~~vIiDE~H~l~-~~~-~~~~l~~i~~~~~~~~ii~lSATl~ 186 (715)
T 2va8_A 110 GDYDTDDAWL-KNYDIIITTYEKLDSLWRHRPEWLNEVNYFVLDELHYLN-DPE-RGPVVESVTIRAKRRNLLALSATIS 186 (715)
T ss_dssp SCSSSCCGGG-GGCSEEEECHHHHHHHHHHCCGGGGGEEEEEECSGGGGG-CTT-THHHHHHHHHHHHTSEEEEEESCCT
T ss_pred CCCCCCHHHC-CCCCEEEECHHHHHHHHHCCHHHHHCCCEEEEECHHHCC-CCC-CCHHHHHHHHHCCCCCEEEECCCCC
T ss_conf 8977762013-799999985899999996785576436989995355527-866-2229999998653672899717879
Q ss_pred -HHHHHHHHCCCCCCCCCCCCCCEEEEECCCC--------------CHHH--HHHHHHHHHHHHHCCCCCCEEEECCCHH
Q ss_conf -5889636328986568997212157740465--------------0005--9999999999751299988999929999
Q 003721 446 -AERFSGYFFNCNIFSIPGRTFPVDINYSRQE--------------VTDY--LDSALITVLQIHVDEPEGDILLFLTGQE 508 (800)
Q Consensus 446 -~~~~~~~f~~~~~~~i~gr~~pv~~~~~~~~--------------~~~~--~~~~l~~v~~i~~~~~~g~iLVF~~s~~ 508 (800)
...++.|+ +++.+...++++|+...+.... ...+ .+.....+.+.+. .++++||||++++
T Consensus 187 n~~~~~~~l-~~~~~~~~~r~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~LVF~~s~~ 263 (715)
T 2va8_A 187 NYKQIAKWL-GAEPVATNWRPVPLIEGVIYPERKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLS--KNGQVLVFRNSRK 263 (715)
T ss_dssp THHHHHHHH-TCEEEECCCCSSCEEEEEEEECSSTTEEEEEETTSCEEEEESSSHHHHHHHHHHT--TTCCEEEECSSHH
T ss_pred CHHHHHHHH-CCCCCCCCCCCCCCEEEEEECCCCCCCEEEECCCCHHHHCCCCHHHHHHHHHHHH--CCCCEEEEECCHH
T ss_conf 999999984-9974579999887468888358766540465276044321344389999999986--6997799979889
Q ss_pred HHHHHHHHHHHHHHH-------------HCCCC--------------CCEEEEEECCCCCHHHHHHHCCCCCCCCCEEEE
Q ss_conf 999999999999996-------------08999--------------981899973999999998651749999953999
Q 003721 509 EIDFACESLCEKIKA-------------LGKDV--------------PELVVLPVYSALPSEIQSRIFEPAPPGGRKVVV 561 (800)
Q Consensus 509 ~i~~l~~~L~~~l~~-------------~~~~~--------------~~~~i~~lhs~l~~~~r~~i~~~f~~g~~kVlV 561 (800)
+++.++..|.+.+.. ..... ....+.++||++++++|..+++.|++|.++|||
T Consensus 264 ~~~~~a~~L~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~v~~~h~~l~~~~r~~v~~~f~~g~~~vlv 343 (715)
T 2va8_A 264 MAESTALKIANYMNFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGFRQRKIKVIV 343 (715)
T ss_dssp HHHHHHHHHHHTTTSSCCCHHHHHHHHHHHHTCCSSCHHHHHHHHHHHTTTEEEECTTSCHHHHHHHHHHHHTTCSCEEE
T ss_pred HHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHCCCCEEEE
T ss_conf 99999999999876542886778999999998663455322999999966878878999999999999999869985999
Q ss_pred ECCCHHHCCCCCCEEEEEECCCCCCEEECCCCCCCCCCCCCCCHHHHHHHHCCCCCCC---CCEEEECCCHHHH----HH
Q ss_conf 5641100389899569990898554000677896543432059986998836139999---9769990383776----42
Q 003721 562 ATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQRLDSLVITPISQASALQRAGRAGRTG---PGKCYRLYTESAY----RS 634 (800)
Q Consensus 562 AT~iae~GIdIp~v~~VId~g~~k~~~y~~~~~~~~l~~~p~S~~~~~QR~GRaGR~g---~G~~~~L~t~~~~----~~ 634 (800)
||+++++|||+|++++||+. ...||++.+.. ..|.|.++|.||+|||||.| +|.||+++++.+. ..
T Consensus 344 aT~~l~~Gidip~~~~VI~~----~~~~d~~~~~~---~~~~s~~~~~Qr~GRaGR~g~~~~G~~~~l~~~~~~~~~~~~ 416 (715)
T 2va8_A 344 ATPTLAAGVNLPARTVIIGD----IYRFNKKIAGY---YDEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFK 416 (715)
T ss_dssp ECGGGGGSSCCCBSEEEECC----C-----------------CHHHHHHHHTTBCCTTTCSCEEEEEECSCGGGHHHHHH
T ss_pred ECHHHHCCCCCCCEEEEEEC----CEECCCCCCCC---CCCCCHHHHHHHHHHCCCCCCCCCCEEEEEECCCHHHHHHHH
T ss_conf 78087661688854999918----75644667778---775999999998424279988887569999678067999999
Q ss_pred HCCCCCCCCHHCCCCHH------HHHHHHHCCCC----CC---CCCCCCC-CCCHHHHHHHHHHHHHCCCCCCCC---CC
Q ss_conf 08999982012148146------99999983998----76---5556889-999678999999999829964478---64
Q 003721 635 EMSPTTIPEIQRINLVH------TTLTMKAMGIN----NL---LSFDFVD-PPSPQALISAMEQLYSLGALDEEG---LL 697 (800)
Q Consensus 635 ~l~~~~~pei~r~~L~~------~~L~lk~~gi~----~~---~~f~~~~-~p~~~~i~~al~~L~~lgald~~g---~l 697 (800)
.+. ...||+.++++.+ .++.+...|.. ++ +..+|+. +|+...+..+++.|..+|+|+.++ .+
T Consensus 417 ~~l-~~~~e~~~s~l~~~~~l~~~~l~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~~al~~L~~~g~i~~~~~~~~~ 495 (715)
T 2va8_A 417 KYV-LSDVEPIESKLGSERAFYTFLLGILSAEGNLSEKQLENFAYESLLAKQLVDVYFDRAIRWLLEHSFIKEEGNTFAL 495 (715)
T ss_dssp HTT-SSCCCCCCCSCCSHHHHHHHHHHHHHHHCSEEHHHHHHHHTTSSSCHHHHHHHHHHHHHHHHHTTSEEECSSEEEE
T ss_pred HHH-CCCCCCCEECCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHCCCEEECCCEEEE
T ss_conf 997-0899873533786667999999998515668899999999850787642638899999999888497666986866
Q ss_pred CHHHHHHHCCCCCHHHHHHHHHHHHC---CCHHHHHHHHHHCC-CCCCCCCCHHHHHHHHHHH---HHCC--CCCC----
Q ss_conf 34344431389996889999997520---99799999998705-8998768456899999999---6317--9998----
Q 003721 698 TKLGKKMAEFPLDPPLSKMLLASVDL---GCSDEILTIIAMIQ-TGHIFTRPRERQAKADEKR---ARFF--QPEG---- 764 (800)
Q Consensus 698 T~lG~~~a~lpl~p~~~k~l~~~~~~---~c~~~~l~i~a~ls-~~~~f~~p~~~~~~~~~~~---~~f~--~~~~---- 764 (800)
|++|+.|+.+|++|.++++++.++.. .|..+++.|+|+.+ +++++.||.+.....+... ..+. .+..
T Consensus 496 t~lG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~e~~~~~~r~~e~~~l~~~~~~~~~~~~~~~~~~~~~~ 575 (715)
T 2va8_A 496 TNFGKRVADLYINPFTADIIRKGLEGHKASCELAYLHLLAFTPDGPLVSVGRNEEEELIELLEDLDCELLIEEPYEEDEY 575 (715)
T ss_dssp CHHHHHHHHHTCCHHHHHHHHHHHHHSCCCCHHHHHHHHHHSTTSCCCCCCHHHHHHHHHHHTTCSSCCSSCCCSSHHHH
T ss_pred CHHHHHHHHHCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHCCHHHCCCCCCCCCCH
T ss_conf 76899999974898679999998654257878999999526843345764867899999999852111113666543102
Q ss_pred ----CHHHHHHHHHHHHHCCCCHHHHHHHCCCHHHHH
Q ss_conf ----899999999999972999447985049956662
Q 003721 765 ----DHLTLLAVYEAWKAKNFSLPWCGENFVNSRSLK 797 (800)
Q Consensus 765 ----D~lt~l~~~~~~~~~~~~~~~c~~~~~~~~~~~ 797 (800)
.|+-..-+.++|.+...-..+|.++.+....++
T Consensus 576 ~~~~~~~k~~~ll~~~~~~~~~~~i~~~y~~~~gdl~ 612 (715)
T 2va8_A 576 SLYINALKVALIMKDWMDEVDEDTILSKYNIGSGDLR 612 (715)
T ss_dssp HHHHHHHHHHHHHHHHHTTCCHHHHHHHHTCCHHHHH
T ss_pred HHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHH
T ss_conf 3457779999999999849987899999789824499
No 3
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal helicase, DNA repair,, DNA binding protein/DNA complex; 3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2 c.37.1.19 c.37.1.19 PDB: 2p6u_A
Probab=1.00 E-value=1 Score=482.89 Aligned_cols=491 Identities=18% Similarity=0.171 Sum_probs=372.9
Q ss_pred CCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHH--HHHCCCCCCEEE
Q ss_conf 952899999999980993999916898469999999999500189969994325899999999999--995994462310
Q 003721 290 PIFKLKNELIQAVHDNQVLILIGETGSGKTTQLAQYLAEAGYTTKGKIGCTQPRRVAATSVAKRVA--EEFGCRLGEEVG 367 (800)
Q Consensus 290 Pi~~~Q~~~i~~i~~~~~vii~apTGSGKTt~~~~~lle~~~~~~~~il~~~P~r~la~qva~rva--~~~g~~~g~~vG 367 (800)
.++++|.++++.+.++++++++||||||||+++++++++.. ..+++++|++|+|++|.|+++++. ..+|..++..+|
T Consensus 25 ~l~~~Q~~~i~~i~~~~~~lv~apTGsGKT~~~~l~il~~~-~~~~~~l~i~P~r~La~q~~~~~~~~~~~g~~v~~~~G 103 (702)
T 2p6r_A 25 ELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREA-IKGGKSLYVVPLRALAGEKYESFKKWEKIGLRIGISTG 103 (702)
T ss_dssp CCCCCCHHHHHHHTTCSCEEEECSSHHHHHHHHHHHHHHHH-HTTCCEEEEESSHHHHHHHHHHHTTTTTTTCCEEEECS
T ss_pred CCCHHHHHHHHHHHCCCCEEEECCCCCHHHHHHHHHHHHHH-HHCCCEEEEECCHHHHHHHHHHHHHHHHCCCEEEEEEC
T ss_conf 89999999999983899689986896179999999999999-86895999937099999999999977704988999838
Q ss_pred EEEECCCCCCCCCEEEEECHHHHHHHHHCCCC-CCCCCEEEEECCCCCCC--CCCHHHHHHHHHHHCCCCCEEEEECCCC
Q ss_conf 01200113699816999550889999830879-99981299834686797--8016999999998509993399961578
Q 003721 368 YAIRFEDCTGPDTVIKYMTDGMLLREILIDEN-LSQYSVIMLDEAHERTI--NTDVLFGLLKQLVKRRPDLRLIVTSATL 444 (800)
Q Consensus 368 ~~ir~~~~~~~~~~I~~~T~g~Ll~~l~~~~~-l~~~~~IIiDEaHer~~--~~d~l~~llk~l~~~~~~~kiI~lSATl 444 (800)
+..+.+... ..+.|+++|||++.+.+..++. ++++++||+||+|+..- ....+..++..+...+++.++|+||||+
T Consensus 104 ~~~~~~~~~-~~~~Iiv~Tpe~l~~~l~~~~~~l~~~~~vIiDE~H~l~~~~r~~~~~~ll~~l~~~~~~~~ii~lSATl 182 (702)
T 2p6r_A 104 DYESRDEHL-GDCDIIVTTSEKADSLIRNRASWIKAVSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSATA 182 (702)
T ss_dssp SCBCCSSCS-TTCSEEEEEHHHHHHHHHTTCSGGGGCCEEEETTGGGGGCTTTHHHHHHHHHHHHHHCTTCEEEEEECCC
T ss_pred CCCCCHHHC-CCCCEEEECHHHHHHHHHCCHHHHHHCCEEEEEEEEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCC
T ss_conf 877664352-6999999898999999975755776259898850255478776527999999998438676599978876
Q ss_pred C-HHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCHHHHHH---------HHHHHHHHHHCCCCCCEEEECCCHHHHHHHH
Q ss_conf 9-58896363289865689972121577404650005999---------9999999751299988999929999999999
Q 003721 445 D-AERFSGYFFNCNIFSIPGRTFPVDINYSRQEVTDYLDS---------ALITVLQIHVDEPEGDILLFLTGQEEIDFAC 514 (800)
Q Consensus 445 ~-~~~~~~~f~~~~~~~i~gr~~pv~~~~~~~~~~~~~~~---------~l~~v~~i~~~~~~g~iLVF~~s~~~i~~l~ 514 (800)
+ ...++.|+ +++.+..+++++|+...+...+...+.+. ....+.+.+. .++++||||+++++++.++
T Consensus 183 ~n~~~~~~~l-~~~~~~~~~r~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~LVF~~s~~~~~~~a 259 (702)
T 2p6r_A 183 PNVTEIAEWL-DADYYVSDWRPVPLVEGVLCEGTLELFDGAFSTSRRVKFEELVEECVA--ENGGVLVFESTRRGAEKTA 259 (702)
T ss_dssp TTHHHHHHHT-TCEEEECCCCSSCEEEEEECSSEEEEEETTEEEEEECCHHHHHHHHHH--TTCCEEEECSSHHHHHHHH
T ss_pred CCHHHHHHHH-CCCCCCCCCCCCCCEEEEEECCEEECCCCCHHHHHHHHHHHHHHHHHH--CCCCEEEECCCHHHHHHHH
T ss_conf 8999999984-897236888776646888617823105763014445469999999996--6997899838878999999
Q ss_pred HHHHHHHHHHCCCC----------C-----------CEEEEEECCCCCHHHHHHHCCCCCCCCCEEEEECCCHHHCCCCC
Q ss_conf 99999999608999----------9-----------81899973999999998651749999953999564110038989
Q 003721 515 ESLCEKIKALGKDV----------P-----------ELVVLPVYSALPSEIQSRIFEPAPPGGRKVVVATNIAEASLTID 573 (800)
Q Consensus 515 ~~L~~~l~~~~~~~----------~-----------~~~i~~lhs~l~~~~r~~i~~~f~~g~~kVlVAT~iae~GIdIp 573 (800)
..|.+.+....... + ...+.++||++++++|..+++.|++|.++|||||+++++|||+|
T Consensus 260 ~~L~~~~~~~~~~~~~~~~i~~~~~~~~~~~l~~~~~~~v~~~h~~l~~~~R~~v~~~f~~g~~~vlvaT~~l~~Gidip 339 (702)
T 2p6r_A 260 VKLSAITAKYVENEGLEKAILEENEGEMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLP 339 (702)
T ss_dssp HHHHHHHHTTCCCSSHHHHHHTTCCSHHHHHHHHHHHTTCCEECTTSCHHHHHHHHHHHHTTSCCEEEECSTTTSSSCCC
T ss_pred HHHHHHHHHHCCHHHHHHHHHHHCCCCCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCHHHCCCCCC
T ss_conf 99999987646958899999862455321999999846928866999999999999999879984999783886657887
Q ss_pred CEEEEEECCCCCCEEECCCCCCCCCCCCCCCHHHHHHHHCCCCCCC---CCEEEECCCHHHHHHH--CCCCCCCCHHCCC
Q ss_conf 9569990898554000677896543432059986998836139999---9769990383776420--8999982012148
Q 003721 574 GIFYVIDPGFAKQNVYNPKQRLDSLVITPISQASALQRAGRAGRTG---PGKCYRLYTESAYRSE--MSPTTIPEIQRIN 648 (800)
Q Consensus 574 ~v~~VId~g~~k~~~y~~~~~~~~l~~~p~S~~~~~QR~GRaGR~g---~G~~~~L~t~~~~~~~--l~~~~~pei~r~~ 648 (800)
++++||+. ...||+. ..|.|.++|.||+|||||.| +|.||+++++.++... ......||+.+++
T Consensus 340 ~~~~VI~~----~~~yd~~-------~~~~s~~~~~Qr~GRaGR~g~~~~G~~~~l~~~~~~~~~~~~~l~~~~e~~~s~ 408 (702)
T 2p6r_A 340 ARRVIVRS----LYRFDGY-------SKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREIAVKRYIFGEPERITSK 408 (702)
T ss_dssp BSEEEECC----SEEESSS-------EEECCHHHHHHHHTTBSCTTTCSCEEEEEECCGGGHHHHHHTTTSSCCCCCCCC
T ss_pred CEEEEECC----CEEECCC-------CCCCCHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHCCCCCCCEEE
T ss_conf 33999847----6230787-------775899999998433279999987369999557318999999960899884651
Q ss_pred CHH------HHHHHHHCCCC----CCC---CCCCC----CCCCHHHHHHHHHHHHHCCCCCCC--CCCCHHHHHHHCCCC
Q ss_conf 146------99999983998----765---55688----999967899999999982996447--864343444313899
Q 003721 649 LVH------TTLTMKAMGIN----NLL---SFDFV----DPPSPQALISAMEQLYSLGALDEE--GLLTKLGKKMAEFPL 709 (800)
Q Consensus 649 L~~------~~L~lk~~gi~----~~~---~f~~~----~~p~~~~i~~al~~L~~lgald~~--g~lT~lG~~~a~lpl 709 (800)
+.+ .++.+...|.. ++. ..+|+ ++|+.+.+..+++.|...|+|+.+ +.+|++|+.|+.+|+
T Consensus 409 l~~~~~l~~~~l~~~~~g~~~~~~~~~~~l~~t~~~~~~~~~~~~~~~~al~~L~~~g~i~~~~~~~~t~lG~~~~~~~~ 488 (702)
T 2p6r_A 409 LGVETHLRFHSLSIICDGYAKTLEELEDFFADTFFFKQNEISLSYELERVVRQLENWGMVVEAAHLAPTKLGSLVSRLYI 488 (702)
T ss_dssp CCSHHHHHHHHHHHHHHTSCSSHHHHHHHHHTSTTHHHHCCCCHHHHHHHHHHHHHTTSEEESSSEEECHHHHHHHHTTC
T ss_pred CCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEECCEECCCHHHHHHHHHHC
T ss_conf 68605589999999971778889999999985067775017899999999999998859428990664869999999857
Q ss_pred CHHHHHHHHHHHHC--CCHHHHHHHHHHCCC-CCCCCCCHHHHHHHHHH-H--HHC-CCC--CC-------CHHHHHHHH
Q ss_conf 96889999997520--997999999987058-99876845689999999-9--631-799--98-------899999999
Q 003721 710 DPPLSKMLLASVDL--GCSDEILTIIAMIQT-GHIFTRPRERQAKADEK-R--ARF-FQP--EG-------DHLTLLAVY 773 (800)
Q Consensus 710 ~p~~~k~l~~~~~~--~c~~~~l~i~a~ls~-~~~f~~p~~~~~~~~~~-~--~~f-~~~--~~-------D~lt~l~~~ 773 (800)
+|.++++++.++.. .|..+++.|+|+.+. +++++|+.+ ....+.. + ..+ ..+ .. .|.-..-+.
T Consensus 489 ~~~~~~~~~~~~~~~~~~~~~~l~~i~~~~e~~~i~~r~~e-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~lL 567 (702)
T 2p6r_A 489 DPLTGFIFHDVLSRMELSDIGALHLICRTPDMERLTVRKTD-SWVEEEAFRLRKELSYYPSDFSVEYDWFLSEVKTALCL 567 (702)
T ss_dssp CHHHHHHHHHHTTTCCCCHHHHHHHHHHSTTSCCCCCCTTT-HHHHHHHHHHGGGSSCCCCTTSTTHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCCCCCCCH-HHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 89899999997430468789999995377444457778765-99999998654666678630000123456669999999
Q ss_pred HHHHHCCCCHHHHHHHCCCHHHHH
Q ss_conf 999972999447985049956662
Q 003721 774 EAWKAKNFSLPWCGENFVNSRSLK 797 (800)
Q Consensus 774 ~~~~~~~~~~~~c~~~~~~~~~~~ 797 (800)
++|.+...-..+|.++.+....++
T Consensus 568 ~~~~~~~~l~~i~~~~~~~~gdl~ 591 (702)
T 2p6r_A 568 KDWIEEKDEDEICAKYGIAPGDLR 591 (702)
T ss_dssp HHHHTTCCHHHHHHHTTCCHHHHH
T ss_pred HHHHCCCCHHHHHHHHCCCHHHHH
T ss_conf 999827986889988577677599
No 4
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding, hydrolase, nucleotide- binding; 2.00A {Pyrococcus furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Probab=1.00 E-value=1 Score=471.26 Aligned_cols=489 Identities=18% Similarity=0.137 Sum_probs=350.8
Q ss_pred CCCCHHHHHHHHHH-HHCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHH--HHHCCCCCC
Q ss_conf 28952899999999-980993999916898469999999999500189969994325899999999999--995994462
Q 003721 288 SLPIFKLKNELIQA-VHDNQVLILIGETGSGKTTQLAQYLAEAGYTTKGKIGCTQPRRVAATSVAKRVA--EEFGCRLGE 364 (800)
Q Consensus 288 ~lPi~~~Q~~~i~~-i~~~~~vii~apTGSGKTt~~~~~lle~~~~~~~~il~~~P~r~la~qva~rva--~~~g~~~g~ 364 (800)
...++++|.++++. +.++++++++||||||||+++++++++.....+++++|++|+++++.|+++++. ..+|..++.
T Consensus 21 ~~~l~~~Q~~~i~~~~~~~~~~lv~apTGsGKT~~~~l~il~~~~~~~~~~l~i~P~raLa~q~~~~~~~l~~~g~~v~~ 100 (720)
T 2zj8_A 21 IESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGGKAVYIVPLKALAEEKFQEFQDWEKIGLRVAM 100 (720)
T ss_dssp CCBCCHHHHHHHTTTGGGTCEEEEECCGGGCHHHHHHHHHHHHHHHHCSEEEEECSSGGGHHHHHHHTGGGGGGTCCEEE
T ss_pred CCCCCHHHHHHHHHHHCCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHHHHCCCEEEE
T ss_conf 98899999999999855799489986996379999999999999867998999859699999999999988735977999
Q ss_pred EEEEEEECCCCCCCCCEEEEECHHHHHHHHHCCCC-CCCCCEEEEECCCCCCCCCC---HHHHHHHHHHHCCCCCEEEEE
Q ss_conf 31001200113699816999550889999830879-99981299834686797801---699999999850999339996
Q 003721 365 EVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDEN-LSQYSVIMLDEAHERTINTD---VLFGLLKQLVKRRPDLRLIVT 440 (800)
Q Consensus 365 ~vG~~ir~~~~~~~~~~I~~~T~g~Ll~~l~~~~~-l~~~~~IIiDEaHer~~~~d---~l~~llk~l~~~~~~~kiI~l 440 (800)
.+|. ..........+.|+++||+++.+.+..+.. ++++++||+||+|. ..+.+ .+..++..+. .+.++|+|
T Consensus 101 ~~G~-~~~~~~~~~~~~Iiv~Tpe~l~~~~~~~~~~l~~~~~vIiDE~H~-l~~~~r~~~~~~ll~~l~---~~~~ii~l 175 (720)
T 2zj8_A 101 ATGD-YDSKDEWLGKYDIIIATAEKFDSLLRHGSSWIKDVKILVADEIHL-IGSRDRGATLEVILAHML---GKAQIIGL 175 (720)
T ss_dssp ECSC-SSCCCGGGGGCSEEEECHHHHHHHHHHTCTTGGGEEEEEEETGGG-GGCTTTHHHHHHHHHHHB---TTBEEEEE
T ss_pred ECCC-CCCCCCCCCCCCEEEECHHHHHHHHHCCHHHHHCCCEEEEECCCC-CCCCCCCHHHHHHHHHHH---CCCEEEEE
T ss_conf 6389-776412147999999888999999975714665279899989855-678764479999999864---07769997
Q ss_pred CCCCC-HHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCHHH-------HHHHHHHHHHHHHCCCCCCEEEECCCHHHHHH
Q ss_conf 15789-58896363289865689972121577404650005-------99999999997512999889999299999999
Q 003721 441 SATLD-AERFSGYFFNCNIFSIPGRTFPVDINYSRQEVTDY-------LDSALITVLQIHVDEPEGDILLFLTGQEEIDF 512 (800)
Q Consensus 441 SATl~-~~~~~~~f~~~~~~~i~gr~~pv~~~~~~~~~~~~-------~~~~l~~v~~i~~~~~~g~iLVF~~s~~~i~~ 512 (800)
|||++ ...++.|+ +++.+...+++.|+...+...+...+ .......+.+.+. .++++||||+++++++.
T Consensus 176 SATl~n~~~~~~~l-~~~~~~~~~rp~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~LVF~~sr~~~~~ 252 (720)
T 2zj8_A 176 SATIGNPEELAEWL-NAELIVSDWRPVKLRRGVFYQGFVTWEDGSIDRFSSWEELVYDAIR--KKKGALIFVNMRRKAER 252 (720)
T ss_dssp ECCCSCHHHHHHHT-TEEEEECCCCSSEEEEEEEETTEEEETTSCEEECSSTTHHHHHHHH--TTCCEEEECSCHHHHHH
T ss_pred CCCCCCHHHHHHHH-CCCCCCCCCCCCCCEEEEEECCEEECCCCCHHHHHHHHHHHHHHHH--CCCCEEEEECCHHHHHH
T ss_conf 58868999999982-9860378988876368897578131165320001699999999986--79988999658799999
Q ss_pred HHHHHHHHHHHHCC------------CC------------CCEEEEEECCCCCHHHHHHHCCCCCCCCCEEEEECCCHHH
Q ss_conf 99999999996089------------99------------9818999739999999986517499999539995641100
Q 003721 513 ACESLCEKIKALGK------------DV------------PELVVLPVYSALPSEIQSRIFEPAPPGGRKVVVATNIAEA 568 (800)
Q Consensus 513 l~~~L~~~l~~~~~------------~~------------~~~~i~~lhs~l~~~~r~~i~~~f~~g~~kVlVAT~iae~ 568 (800)
++..|.+.+..... .. ....+.++||++++++|..+++.|++|.++|||||+++++
T Consensus 253 ~a~~L~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~l~~~~~~~v~~~h~~l~~~~R~~v~~~f~~g~~~vlvaT~~l~~ 332 (720)
T 2zj8_A 253 VALELSKKVKSLLTKPEIRALNELADSLEENPTNEKLAKAIRGGVAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSA 332 (720)
T ss_dssp HHHHHHHHHGGGSCHHHHHHHHHHHHTSCSCHHHHHHHHHHTTTEEEECTTSCHHHHHHHHHHHHTTSSCEEEECSTTGG
T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCHHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCHHHC
T ss_conf 99999999987459066899999999875166508899998519463248999999999999997799759998818666
Q ss_pred CCCCCCEEEEEECCCCCCEEECCCCCCCCCCCCCCCHHHHHHHHCCCCCCC---CCEEEECCCHHHHHH---HCCCCCCC
Q ss_conf 389899569990898554000677896543432059986998836139999---976999038377642---08999982
Q 003721 569 SLTIDGIFYVIDPGFAKQNVYNPKQRLDSLVITPISQASALQRAGRAGRTG---PGKCYRLYTESAYRS---EMSPTTIP 642 (800)
Q Consensus 569 GIdIp~v~~VId~g~~k~~~y~~~~~~~~l~~~p~S~~~~~QR~GRaGR~g---~G~~~~L~t~~~~~~---~l~~~~~p 642 (800)
|||+|++++||+.+ ..||. .| ..|.|.++|.||+|||||.| +|.||.++++.++.. .+.....+
T Consensus 333 Gvdip~~~~VI~~~----~~yd~-~g-----~~~~s~~~~~Qr~GRaGR~g~~~~G~~~~l~~~~~~~~~~~~~~~~~~~ 402 (720)
T 2zj8_A 333 GINTPAFRVIIRDI----WRYSD-FG-----MERIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIFGKPE 402 (720)
T ss_dssp GCCCCBSEEEECCS----EECCS-SS-----CEECCHHHHHHHHTTBCCTTTCSEEEEEEECSSSCHHHHHHHHTTSCCC
T ss_pred CCCCCCEEEEECCC----EEECC-CC-----CCCCCHHHHHHHHHHCCCCCCCCCCEEEEEECCCCHHHHHHHHHCCCCC
T ss_conf 28888528998487----24068-88-----7608999999987544899888876699996671099999999618998
Q ss_pred CHHCC-----CCHHHHHHHHHCCC-------CCCCCCCCC------CCCCHHHHHHHHHHHHHCCCCC-CCC---CCCHH
Q ss_conf 01214-----81469999998399-------876555688------9999678999999999829964-478---64343
Q 003721 643 EIQRI-----NLVHTTLTMKAMGI-------NNLLSFDFV------DPPSPQALISAMEQLYSLGALD-EEG---LLTKL 700 (800)
Q Consensus 643 ei~r~-----~L~~~~L~lk~~gi-------~~~~~f~~~------~~p~~~~i~~al~~L~~lgald-~~g---~lT~l 700 (800)
++... .+...++.+...|. .+++.++|+ +++..+.+..+++.|...|+|+ .++ .+|++
T Consensus 403 ~i~s~l~~~~~l~~~ll~~i~~~~~~~~~d~~~~l~~~~~~~~~~~~~~~~~~~~~~l~~L~~~~~i~~~~~~~~~~t~l 482 (720)
T 2zj8_A 403 KLFSQLSNESNLRSQVLALIATFGYSTVEEILKFISNTFYAYQRKDTYSLEEKIRNILYFLLENEFIEISLEDKIRPLSL 482 (720)
T ss_dssp CCCCCTTCHHHHHHHHHHHHHHSCCCSHHHHHHHHHTSHHHHHCSCCHHHHHHHHHHHHHHHHTTSEEECTTSCEEECHH
T ss_pred CCEEECCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCHHHHHCCCHHHHHHHHHHHHHHHHHCCCEEECCCCCEEECHH
T ss_conf 71765686043999999999717788999999999827687743645789999999999999887935778982755769
Q ss_pred HHHHHCCCCCHHHHHHHHHHHHC----CCHHHHHHHHHHCCC-CCCCCCCHHHHHHHHHHHH---HCC--CC--CC----
Q ss_conf 44431389996889999997520----997999999987058-9987684568999999996---317--99--98----
Q 003721 701 GKKMAEFPLDPPLSKMLLASVDL----GCSDEILTIIAMIQT-GHIFTRPRERQAKADEKRA---RFF--QP--EG---- 764 (800)
Q Consensus 701 G~~~a~lpl~p~~~k~l~~~~~~----~c~~~~l~i~a~ls~-~~~f~~p~~~~~~~~~~~~---~f~--~~--~~---- 764 (800)
|+.|+.+|++|.++++++.++.. .|..++|+|+|+.+. +++|.||.+.....+.... .+. .| .+
T Consensus 483 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~~~~~e~~~i~~r~~e~~~l~~~~~~~~~~~~~~~p~~~~~~~~ 562 (720)
T 2zj8_A 483 GIRTAKLYIDPYTAKMFKDKMEEVVKDPNPIGIFHLISLTPDITPFNYSKREFERLEEEYYEFKDRLYFDDPYISGYDPY 562 (720)
T ss_dssp HHHHHHHTCCHHHHHHHHHHHHHHHHSCCHHHHHHHHHTSTTCCCCCCCHHHHHHHHHHHHHHGGGCSSCCTTSSCCCHH
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCH
T ss_conf 99999973899999999999876425898889999750585321266377789999999985632012365533444201
Q ss_pred ------CHHHHHHHHHHHHHCCCCHHHHHHHCCCHH
Q ss_conf ------899999999999972999447985049956
Q 003721 765 ------DHLTLLAVYEAWKAKNFSLPWCGENFVNSR 794 (800)
Q Consensus 765 ------D~lt~l~~~~~~~~~~~~~~~c~~~~~~~~ 794 (800)
.|+-..-+.+.|.+...-...+.++.+...
T Consensus 563 ~~~~~~~~~k~~llL~~~i~~~~l~~i~~~~~~~~g 598 (720)
T 2zj8_A 563 LERKFFRAFKTALVLLAWINEVPEGEIVEKYSVEPG 598 (720)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHTCCHH
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHCCCHH
T ss_conf 355677779999999999817987888888388767
No 5
>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B
Probab=1.00 E-value=1 Score=381.28 Aligned_cols=453 Identities=15% Similarity=0.133 Sum_probs=312.6
Q ss_pred CHHHHHHHHHHHH-CCCEEEEECCCCCCHHHHHHHHHHHHHCC-CCCEEEEECCHHHHHHHHHHHHHHHHCCCCCCEEEE
Q ss_conf 5289999999998-09939999168984699999999995001-899699943258999999999999959944623100
Q 003721 291 IFKLKNELIQAVH-DNQVLILIGETGSGKTTQLAQYLAEAGYT-TKGKIGCTQPRRVAATSVAKRVAEEFGCRLGEEVGY 368 (800)
Q Consensus 291 i~~~Q~~~i~~i~-~~~~vii~apTGSGKTt~~~~~lle~~~~-~~~~il~~~P~r~la~qva~rva~~~g~~~g~~vG~ 368 (800)
.+++|.++++.+. .+++++++||||||||+++.+++++.... .+++++|++|+|+||.|+++.+.+.++..+|..|+.
T Consensus 927 fnpiQ~q~~~~l~~~~~nvlv~APTGSGKTliaelail~~l~~~~~~kavyi~P~raLa~q~~~~~~~~f~~~~g~~V~~ 1006 (1724)
T 4f92_B 927 FNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAEQVYMDWYEKFQDRLNKKVVL 1006 (1724)
T ss_dssp CCHHHHHHHHHHHSCCSCEEEECCTTSCCHHHHHHHHHHHHHHCTTCCEEEECSCHHHHHHHHHHHHHHHTTTSCCCEEE
T ss_pred CCHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHCHHCCCEEEE
T ss_conf 99799999999966899689993798874699999999999858998799986829999999999999844220978999
Q ss_pred EEE---CCCCCCCCCEEEEECHHHHHHHHH---CCCCCCCCCEEEEECCCCCCCC-CCHHHHHHHHHH----HCCCCCEE
Q ss_conf 120---011369981699955088999983---0879999812998346867978-016999999998----50999339
Q 003721 369 AIR---FEDCTGPDTVIKYMTDGMLLREIL---IDENLSQYSVIMLDEAHERTIN-TDVLFGLLKQLV----KRRPDLRL 437 (800)
Q Consensus 369 ~ir---~~~~~~~~~~I~~~T~g~Ll~~l~---~~~~l~~~~~IIiDEaHer~~~-~d~l~~llk~l~----~~~~~~ki 437 (800)
... .+........|+++||+.+...+. ....++++++||+||+|...-. ...+..++.++. ...+++|+
T Consensus 1007 ltGd~~~~~~~~~~~~IiV~TPEkld~llr~~~~~~~l~~v~lvViDE~H~l~d~rg~~le~il~rl~~i~~~~~~~~ri 1086 (1724)
T 4f92_B 1007 LTGETSTDLKLLGKGNIIISTPEKWDILSRRWKQRKNVQNINLFVVDEVHLIGGENGPVLEVICSRMRYISSQIERPIRI 1086 (1724)
T ss_dssp CCSCHHHHHHHHHHCSEEEECHHHHHHHHTTTTTCHHHHSCSEEEECCGGGGGSTTHHHHHHHHHHHHHHHHTTSSCCEE
T ss_pred EECCCCCCHHHCCCCCEEEECHHHHHHHHHCCCCCCCCCEEEEEEEECHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCEE
T ss_conf 97997812111589999998879999998384446413523189701011047878763999999999998636888639
Q ss_pred EEECCCCC-HHHHHHHHCCCC----CCCCCCCCCCEEEEECCCCCHHHHHH---HHHHHHH-HHHCCCCCCEEEECCCHH
Q ss_conf 99615789-588963632898----65689972121577404650005999---9999999-751299988999929999
Q 003721 438 IVTSATLD-AERFSGYFFNCN----IFSIPGRTFPVDINYSRQEVTDYLDS---ALITVLQ-IHVDEPEGDILLFLTGQE 508 (800)
Q Consensus 438 I~lSATl~-~~~~~~~f~~~~----~~~i~gr~~pv~~~~~~~~~~~~~~~---~l~~v~~-i~~~~~~g~iLVF~~s~~ 508 (800)
|+||||++ +..+++|++..+ .+....|+.|++.+............ ....+.. +......+++||||++++
T Consensus 1087 I~lSATl~N~~dla~WL~~~~~~~~~~~~~~RPvpL~~~i~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~lVF~~sR~ 1166 (1724)
T 4f92_B 1087 VALSSSLSNAKDVAHWLGCSATSTFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKPVYHAITKHSPKKPVIVFVPSRK 1166 (1724)
T ss_dssp EEEESCBTTHHHHHHHHTCCSTTEEECCGGGCSSCEEEEEEEECCCSHHHHHHTTHHHHHHHHHHHCSSSCEEEEESSHH
T ss_pred EEEECCCCCHHHHHHHHCCCCCCEEEECCCCCCCCEEEEEEECCCCCCHHHHHHHCCHHHHHHHHHCCCCCEEEECCCHH
T ss_conf 99928889999999986799877589488888887089998036777166665320149999998537997215578889
Q ss_pred HHHHHHHHHHHHHHHHCCCC-------------------------CCEEEEEECCCCCHHHHHHHCCCCCCCCCEEEEEC
Q ss_conf 99999999999999608999-------------------------98189997399999999865174999995399956
Q 003721 509 EIDFACESLCEKIKALGKDV-------------------------PELVVLPVYSALPSEIQSRIFEPAPPGGRKVVVAT 563 (800)
Q Consensus 509 ~i~~l~~~L~~~l~~~~~~~-------------------------~~~~i~~lhs~l~~~~r~~i~~~f~~g~~kVlVAT 563 (800)
.|+.++..|...+....... -...|+.|||+|++++|..+++.|++|.++|||||
T Consensus 1167 ~~~~~A~~L~~~~~~~~~~~~~~~~~~~~l~~~l~~~~d~~L~~~l~~GIa~hHagL~~~~R~~VE~lF~~G~i~VLvaT 1246 (1724)
T 4f92_B 1167 QTRLTAIDILTTCAADIQRQRFLHCTEKDLIPYLEKLSDSTLKETLLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVAS 1246 (1724)
T ss_dssp HHHHHHHHHHHHHHHTTCTTTTBCSCHHHHHHHHTTCCCHHHHHHHHTTEEEECTTSCHHHHHHHHHHHHHTSBCEEEEE
T ss_pred HHHHHHHHHHHHHHHCCCHHHHHCCCHHHHHHHHHHCCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEEC
T ss_conf 99999999998876264302220133999999986414288999874788997799999999999999977998499988
Q ss_pred CCHHHCCCCCCEEEEEECCCCCCEEECCCCCCCCCCCCCCCHHHHHHHHCCCCCCC---CCEEEECCCHHH--HHHHCCC
Q ss_conf 41100389899569990898554000677896543432059986998836139999---976999038377--6420899
Q 003721 564 NIAEASLTIDGIFYVIDPGFAKQNVYNPKQRLDSLVITPISQASALQRAGRAGRTG---PGKCYRLYTESA--YRSEMSP 638 (800)
Q Consensus 564 ~iae~GIdIp~v~~VId~g~~k~~~y~~~~~~~~l~~~p~S~~~~~QR~GRaGR~g---~G~~~~L~t~~~--~~~~l~~ 638 (800)
+++++|||+|++.+|| .....||++.+. ..|.+..+|.||+|||||.| .|.|+.++.+.. +...+..
T Consensus 1247 ~tlA~GVnlPa~~VVI----~~~~~~dg~~~~----~~~~s~~~~~Qm~GRAGR~g~d~~G~avll~~~~~~~~~~~ll~ 1318 (1724)
T 4f92_B 1247 RSLCWGMNVAAHLVII----MDTQYYNGKIHA----YVDYPIYDVLQMVGHANRPLQDDEGRCVIMCQGSKKDFFKKFLY 1318 (1724)
T ss_dssp GGGSSSCCCCBSEEEE----ECSEEEETTTTE----EEECCHHHHHHHHTTBCCTTTCSCEEEEEEEEGGGHHHHHHHTT
T ss_pred HHHHCCCCCCCCEEEE----ECCCCCCCCCCC----CCCCCHHHHHHHHCCCCCCCCCCCEEEEEEECCHHHHHHHHHHC
T ss_conf 6997578988618999----567113675556----67799999997615135788788628999965457789999737
Q ss_pred CCCCC--HHCCCCHHHHHHHHHCCC-C------CCCCCCCC-------------CC--------CCHHHHHHHHHHHHHC
Q ss_conf 99820--121481469999998399-8------76555688-------------99--------9967899999999982
Q 003721 639 TTIPE--IQRINLVHTTLTMKAMGI-N------NLLSFDFV-------------DP--------PSPQALISAMEQLYSL 688 (800)
Q Consensus 639 ~~~pe--i~r~~L~~~~L~lk~~gi-~------~~~~f~~~-------------~~--------p~~~~i~~al~~L~~l 688 (800)
.+.|- -....+...++...+.|. . +++..+|+ .. ...+.+..+++.|...
T Consensus 1319 ~~~pveS~L~~~l~~~l~~eI~~~~i~~~~d~~~~l~~Tfl~~r~~~nP~~y~l~~~~~~~~~~~l~~lv~~~l~~L~~~ 1398 (1724)
T 4f92_B 1319 EPLPVESHLDHCMHDHFNAEIVTKTIENKQDAVDYLTWTFLYRRMTQNPNYYNLQGISHRHLSDHLSELVEQTLSDLEQS 1398 (1724)
T ss_dssp SCBCCCCCGGGSCHHHHHHHHHTTSCCBHHHHHHHHTTSSHHHHHHHSGGGTTCSCCSHHHHHHHHHHHHHHHHHHHHHT
T ss_pred CCCCEEEECCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_conf 99703545441117899999985434889999999973079998730732025665335567899999999999999988
Q ss_pred CCCCC--CC--CCCHHHHHHHCCCCCHHHHHHHHHHHHCCC-HHHHHHHHHHCCC-CCCCCCCHHHHHH
Q ss_conf 99644--78--643434443138999688999999752099-7999999987058-9987684568999
Q 003721 689 GALDE--EG--LLTKLGKKMAEFPLDPPLSKMLLASVDLGC-SDEILTIIAMIQT-GHIFTRPRERQAK 751 (800)
Q Consensus 689 gald~--~g--~lT~lG~~~a~lpl~p~~~k~l~~~~~~~c-~~~~l~i~a~ls~-~~~f~~p~~~~~~ 751 (800)
|+|.. ++ .+|++|+.|+.++++|.+++++..++...+ ...+|.++|.... .++..|+.+....
T Consensus 1399 ~~I~~~~~~~l~~T~lG~i~s~~yi~~~t~~~~~~~l~~~~~~~~~L~il~~a~ef~~i~~R~~E~~~l 1467 (1724)
T 4f92_B 1399 KCISIEDEMDVAPLNLGMIAAYYYINYTTIELFSMSLNAKTKVRGLIEIISNAAEYENIPIRHHEDNLL 1467 (1724)
T ss_dssp TSEEEETTTEEEECHHHHHHHHTTCCHHHHHHHHHHCCTTCCHHHHHHHHHTSGGGTTCCCCTTHHHHH
T ss_pred CCEEECCCCCEEECHHHHHHHHHCCCHHHHHHHHHHCCCCCCHHHHHHHHCCCCCCCCCCCCCCHHHHH
T ss_conf 899986998786668999999977899999999985443698888998840784545664360689999
No 6
>4f92_B U5 small nuclear ribonucleoprotein 200 kDa helica; RNP remodeling, PRE-mRNA splicing, spliceosome catalytic ACT DEXD/H-box RNA helicase; HET: SAN; 2.66A {Homo sapiens} PDB: 4f93_B* 4f91_B
Probab=1.00 E-value=1 Score=377.00 Aligned_cols=496 Identities=17% Similarity=0.173 Sum_probs=326.4
Q ss_pred CCCCCHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHH-HCCCEEEEECCCCCCHHHHHHHHHHHHHCC---
Q ss_conf 8985047885203777767587367999981289528999999999-809939999168984699999999995001---
Q 003721 257 ARDMPEWKKNAYGKAFTFGQRSKLSIQEQRRSLPIFKLKNELIQAV-HDNQVLILIGETGSGKTTQLAQYLAEAGYT--- 332 (800)
Q Consensus 257 ~~~~p~w~~~~~~~~~~~~~~~~~~~~~~r~~lPi~~~Q~~~i~~i-~~~~~vii~apTGSGKTt~~~~~lle~~~~--- 332 (800)
-.++|+|.+..|.. + --.+++|.++++.+ .++++++++||||||||+.+.++++.....
T Consensus 63 i~~Lp~~~~~~f~g---~--------------~~ln~iQs~~~~~al~~~~N~lv~APTGsGKTlva~l~il~~l~~~~~ 125 (1724)
T 4f92_B 63 VEKLPKYAQAGFEG---F--------------KTLNRIQSKLYRAALETDENLLLCAPTGAGKTNVALMCMLREIGKHIN 125 (1724)
T ss_dssp TTTSCGGGSTTCTT---C--------------SBCCHHHHHTHHHHHTCCCCEEEECCTTSCCHHHHHHHHHHHHGGGCC
T ss_pred HHHCCHHHHHHCCC---C--------------CCCCHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHCC
T ss_conf 57659988874478---9--------------999999999999997589939999688146999999999999986234
Q ss_pred -------CCCEEEEECCHHHHHHHHHHHHHHHH---CCCCCCEEEEEEECCCCCCCCCEEEEECHHHHHHHHHCC---CC
Q ss_conf -------89969994325899999999999995---994462310012001136998169995508899998308---79
Q 003721 333 -------TKGKIGCTQPRRVAATSVAKRVAEEF---GCRLGEEVGYAIRFEDCTGPDTVIKYMTDGMLLREILID---EN 399 (800)
Q Consensus 333 -------~~~~il~~~P~r~la~qva~rva~~~---g~~~g~~vG~~ir~~~~~~~~~~I~~~T~g~Ll~~l~~~---~~ 399 (800)
.+.+++|++|+|+||.|+++.+.+.+ |..++..+|.... .......+.|+++||+.+...+... ..
T Consensus 126 ~~~~~~~~~~k~lyiaP~kALa~e~~~~l~~~~~~~gi~V~~~tGd~~~-~~~~~~~~~IlVtTpEkld~llr~~~~~~~ 204 (1724)
T 4f92_B 126 MDGTINVDDFKIIYIAPMRSLVQEMVGSFGKRLATYGITVAELTGDHQL-CKEEISATQIIVCTPEKWDIITRKGGERTY 204 (1724)
T ss_dssp TTSSCCTTSCEEEEECSSHHHHHHHHHHHHHHHTTTTCCEEECCSSCSS-CCTTGGGCSEEEECHHHHHHHTTSSTTHHH
T ss_pred CCCCCCCCCCEEEEECCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCC-CCCCCCCCCEEEECHHHHHHHHCCCCCCHH
T ss_conf 3444457998899989979999999999997775479889999799888-714358999999887999999758853044
Q ss_pred CCCCCEEEEECCCCCCCCCC---HHHHHHHHH----HHCCCCCEEEEECCCCCH-HHHHHHHCCCC-----CCCCCCCCC
Q ss_conf 99981299834686797801---699999999----850999339996157895-88963632898-----656899721
Q 003721 400 LSQYSVIMLDEAHERTINTD---VLFGLLKQL----VKRRPDLRLIVTSATLDA-ERFSGYFFNCN-----IFSIPGRTF 466 (800)
Q Consensus 400 l~~~~~IIiDEaHer~~~~d---~l~~llk~l----~~~~~~~kiI~lSATl~~-~~~~~~f~~~~-----~~~i~gr~~ 466 (800)
++.+++||+||+| +++.+ .+..++.++ ....+++|+|+||||+++ +.+++|+...+ .+....|+.
T Consensus 205 l~~v~~vIiDEvH--~l~d~RG~~lE~~l~rl~~~~~~~~~~~riI~LSATl~N~~dvA~wL~~~~~~~~~~~~~~~RPv 282 (1724)
T 4f92_B 205 TQLVRLIILDEIH--LLHDDRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRVDPAKGLFYFDNSFRPV 282 (1724)
T ss_dssp HTTEEEEEETTGG--GGGSTTHHHHHHHHHHHHHHHHHHTCCCEEEEEECSCTTHHHHHHHTTCCHHHHEEECCGGGCSS
T ss_pred HCCCCEEEEECCH--HCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCHHHHHHHHCCCCCCCEEEECCCCCCC
T ss_conf 5475889995554--42995679999999999999973799980999954569999999986788888869979997667
Q ss_pred CEEEEECCCCCHHHH--HHHHHH-HHHHH-HCCCCCCEEEECCCHHHHHHHHHHHHHHHHHHCCC---------------
Q ss_conf 215774046500059--999999-99975-12999889999299999999999999999960899---------------
Q 003721 467 PVDINYSRQEVTDYL--DSALIT-VLQIH-VDEPEGDILLFLTGQEEIDFACESLCEKIKALGKD--------------- 527 (800)
Q Consensus 467 pv~~~~~~~~~~~~~--~~~l~~-v~~i~-~~~~~g~iLVF~~s~~~i~~l~~~L~~~l~~~~~~--------------- 527 (800)
|++..+......... ...+.. +.... .....+++||||++++.|+.+++.|.+........
T Consensus 283 pL~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~LVF~~sR~~~~~~A~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 362 (1724)
T 4f92_B 283 PLEQTYVGITEKKAIKRFQIMNEIVYEKIMEHAGKNQVLVFVHSRKETGKTARAIRDMCLEKDTLGLFLREGSASTEVLR 362 (1724)
T ss_dssp CEEEECCEECCCCHHHHHHHHHHHHHHHHTTCCSSCCEEEECSSTTTTHHHHHHHHHHHHHTTSTTCCSSCCTTCSSHHH
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHHCCCHHHHCCCCHHHHHHHH
T ss_conf 31799965687541456677889999999997569968998788899999999999987645521221333305788877
Q ss_pred -------------CCCEEEEEECCCCCHHHHHHHCCCCCCCCCEEEEECCCHHHCCCCCCEEEEEECCCCCCEEECCCCC
Q ss_conf -------------9981899973999999998651749999953999564110038989956999089855400067789
Q 003721 528 -------------VPELVVLPVYSALPSEIQSRIFEPAPPGGRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQR 594 (800)
Q Consensus 528 -------------~~~~~i~~lhs~l~~~~r~~i~~~f~~g~~kVlVAT~iae~GIdIp~v~~VId~g~~k~~~y~~~~~ 594 (800)
.-...++.|||+|++++|..+++.|++|.++|||||+++++|||+|++++|| ....+||+..|
T Consensus 363 ~~~~~~~~~~l~~~l~~Gva~HHagL~~~~R~~vE~~F~~G~i~vlvaTsTLa~GVNlPa~~vVI----~~~~~~~~~~~ 438 (1724)
T 4f92_B 363 TEAEQCKNLELKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVII----KGTQVYSPEKG 438 (1724)
T ss_dssp HTTSCCSTHHHHHHTTTTEEEECSSSCTHHHHHHHHHHHTTCCCEEEECHHHHHHSCCCBSEEEE----ECCEEEETTTT
T ss_pred HHHCCCCCHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCHHHHHCCCCCCEEEE----ECCEEECCCCC
T ss_conf 66402444889998645778875999999999999998779974999842667138888706998----28877047678
Q ss_pred CCCCCCCCCCHHHHHHHHCCCCCCC---CCEEEECCCHHHH--HHHCCCCCCC-C-HHCCCCHHHHHHHHHCC-CCCC--
Q ss_conf 6543432059986998836139999---9769990383776--4208999982-0-12148146999999839-9876--
Q 003721 595 LDSLVITPISQASALQRAGRAGRTG---PGKCYRLYTESAY--RSEMSPTTIP-E-IQRINLVHTTLTMKAMG-INNL-- 664 (800)
Q Consensus 595 ~~~l~~~p~S~~~~~QR~GRaGR~g---~G~~~~L~t~~~~--~~~l~~~~~p-e-i~r~~L~~~~L~lk~~g-i~~~-- 664 (800)
.. .|.|..+|.||+|||||.| .|.++.+.++.+. +..+.....| | -...++...++....+| +.+.
T Consensus 439 ~~----~~ls~~~~~Qm~GRAGR~g~d~~G~~ii~~~~~~~~~~~~ll~~~~pieS~l~~~l~d~L~aeI~~g~i~~~~~ 514 (1724)
T 4f92_B 439 RW----TELGALDILQMLGRAGRPQYDTKGEGILITSHGELQYYLSLLNQQLPIESQMVSKLPDMLNAEIVLGNVQNAKD 514 (1724)
T ss_dssp EE----EECCHHHHHHHHTTBSCTTTCSCEEEEEEEESTTCCHHHHHTTTCSCCCCCTTTTHHHHHHHHHHHTSCCBHHH
T ss_pred CC----CCCCHHHHHHHHHHCCCCCCCCCCEEEEEECCHHHHHHHHHHCCCCCCHHHCCCCHHHHHHHHHHHHHCCCHHH
T ss_conf 75----63899999876401268888876479998350259999999749985102033107889999998702478999
Q ss_pred --------------------CCC--------CCCCCCCHHHHHHHHHHHHHCCCCCCC---C--CCCHHHHHHHCCCCCH
Q ss_conf --------------------555--------688999967899999999982996447---8--6434344431389996
Q 003721 665 --------------------LSF--------DFVDPPSPQALISAMEQLYSLGALDEE---G--LLTKLGKKMAEFPLDP 711 (800)
Q Consensus 665 --------------------~~f--------~~~~~p~~~~i~~al~~L~~lgald~~---g--~lT~lG~~~a~lpl~p 711 (800)
..+ +.++....+.+..++..|...|+|..+ | ..|++|+.|++++++|
T Consensus 515 a~~~l~~T~~~~r~~~~p~~y~~~~~~~~~d~~l~~~~~~~i~~~~~~L~~~~li~~d~~~~~~~~T~lGr~~s~~yi~~ 594 (1724)
T 4f92_B 515 AVNWLGYAYLYIRMLRSPTLYGISHDDLKGDPLLDQRRLDLVHTAALMLDKNNLVKYDKKTGNFQVTELGRIASHYYITN 594 (1724)
T ss_dssp HHHHHHHSHHHHHHHHCTTTTTCCHHHHHHCTTCHHHHHHHHHHHHHHHHHTTSEEECTTTCBEEECHHHHHHHHTTCCH
T ss_pred HHHHHHCCHHHHHHHHCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCHHHHHHHHHCCCH
T ss_conf 99999643788775327465436710012363789999999999999998879901406778643444879999836899
Q ss_pred HHHHHHHHHHHCCCH-HHHHHHHHHCCC-CCCCCCCHHHHHHHHHH-HHHCCCCC--CCHHHHHHH-HHHHHHCC
Q ss_conf 889999997520997-999999987058-99876845689999999-96317999--889999999-99999729
Q 003721 712 PLSKMLLASVDLGCS-DEILTIIAMIQT-GHIFTRPRERQAKADEK-RARFFQPE--GDHLTLLAV-YEAWKAKN 780 (800)
Q Consensus 712 ~~~k~l~~~~~~~c~-~~~l~i~a~ls~-~~~f~~p~~~~~~~~~~-~~~f~~~~--~D~lt~l~~-~~~~~~~~ 780 (800)
.+++.+...+...+. .+++.++|+.+. .++..|..++....+.. +..+...+ .+...=.|+ .+.|....
T Consensus 595 ~t~~~~~~~l~~~~~~~~ll~~is~s~ef~~i~~R~~E~~~l~~l~~~~~~~~~~~~~~~~~Kv~~Llq~~i~~~ 669 (1724)
T 4f92_B 595 DTVQTYNQLLKPTLSEIELFRVFSLSSEFKNITVREEEKLELQKLLERVPIPVKESIEEPSAKINVLLQAFISQL 669 (1724)
T ss_dssp HHHHHHHHHCCTTCCHHHHHHHHHTCGGGTTCCCCGGGHHHHHHHHHHSSSCCCSCCSSHHHHHHHHHHHHHTTC
T ss_pred HHHHHHHHHCCCCCCHHHHHHHHHCCHHHCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCCC
T ss_conf 999999863588899999999975775216677077899999999823997768878885899999999997699
No 7
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold, winged-helix-turn-helix, antiparallel-coiled-COI domain, ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=368.04 Aligned_cols=328 Identities=16% Similarity=0.202 Sum_probs=252.6
Q ss_pred HHHCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 98128952899999999980993999916898469999999999500189969994325899999999999995994462
Q 003721 285 QRRSLPIFKLKNELIQAVHDNQVLILIGETGSGKTTQLAQYLAEAGYTTKGKIGCTQPRRVAATSVAKRVAEEFGCRLGE 364 (800)
Q Consensus 285 ~r~~lPi~~~Q~~~i~~i~~~~~vii~apTGSGKTt~~~~~lle~~~~~~~~il~~~P~r~la~qva~rva~~~g~~~g~ 364 (800)
....++++++|.++++++.++++++++||||||||+++.++++.. +..+++++|++|+++|+.|+++++.+.++ .+|.
T Consensus 179 ~~~~f~ltp~Q~~AI~~i~~g~dvLV~ApTGSGKTlva~l~i~~~-l~~g~rvlvl~PtraLa~Q~~~~l~~~~~-~Vgl 256 (1108)
T 3l9o_A 179 RTYPFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQS-LKNKQRVIYTSPIKALSNQKYRELLAEFG-DVGL 256 (1108)
T ss_dssp SCCSSCCCHHHHHHHHHHTTTCCEEEECCSSSHHHHHHHHHHHHH-HHTTCEEEEEESSHHHHHHHHHHHHHHTS-SEEE
T ss_pred HHCCCCCCHHHHHHHHHHHCCCCEEEECCCCCCHHHHHHHHHHHH-HHCCCEEEEECCCHHHHHHHHHHHHHHHC-CCCE
T ss_conf 847999999999999999769988998899997199999999999-75597499990849999999999999828-9218
Q ss_pred EEEEEEECCCCCCCCCEEEEECHHHHHHHHHCCCC-CCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCEEEEECCC
Q ss_conf 31001200113699816999550889999830879-99981299834686797801699999999850999339996157
Q 003721 365 EVGYAIRFEDCTGPDTVIKYMTDGMLLREILIDEN-LSQYSVIMLDEAHERTINTDVLFGLLKQLVKRRPDLRLIVTSAT 443 (800)
Q Consensus 365 ~vG~~ir~~~~~~~~~~I~~~T~g~Ll~~l~~~~~-l~~~~~IIiDEaHer~~~~d~l~~llk~l~~~~~~~kiI~lSAT 443 (800)
.+ .+...+++..|+++|||+|++.+..... +.++++||||||| +..+.++...+...+....++.++|+||||
T Consensus 257 lt-----Gd~~~~~~~~IlV~Tpe~L~~~L~~~~~~l~~l~lVVIDEaH-~l~d~~rg~~~e~ii~~l~~~~qvl~lSAT 330 (1108)
T 3l9o_A 257 MT-----GDITINPDAGCLVMTTEILRSMLYRGSEVMREVAWVIFDEVH-YMRDKERGVVWEETIILLPDKVRYVFLSAT 330 (1108)
T ss_dssp EC-----SSCBCCCSCSEEEEEHHHHHHHHHHCSSHHHHEEEEEEETGG-GTTSHHHHHHHHHHHHHSCTTSEEEEEECS
T ss_pred EE-----CCCCCCCCCCEEEECHHHHHHHHHCCCCCCCCCCEEEEHHHH-HCCCCCHHHHHHHHHHHCCCCCEEEEECCC
T ss_conf 96-----765268999989967699999997475432237899870021-202300689999999864777649997288
Q ss_pred CCH-HHHHHHHCC-----CCCCCCCCCCCCEEEEECCCCCH---------------HHH---------------------
Q ss_conf 895-889636328-----98656899721215774046500---------------059---------------------
Q 003721 444 LDA-ERFSGYFFN-----CNIFSIPGRTFPVDINYSRQEVT---------------DYL--------------------- 481 (800)
Q Consensus 444 l~~-~~~~~~f~~-----~~~~~i~gr~~pv~~~~~~~~~~---------------~~~--------------------- 481 (800)
++. ..+..|+.. +.++....++.|+..++...... .+.
T Consensus 331 ipn~~e~a~~l~~~~~~~~~vi~~~~rp~pl~~~~~~~~~~~~~~~vd~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 410 (1108)
T 3l9o_A 331 IPNAMEFAEWICKIHSQPCHIVYTNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASISNQIGDDPNSTDSRG 410 (1108)
T ss_dssp CSSCHHHHHHHHHHTCSCEEEEEECCCSSCEEEEEEETTSSCCEEEEETTTEECHHHHHHHHTTC---------------
T ss_pred CCCHHHHHHHHHHHCCCCEEEEECCCCCCCCEEEEEECCCCCEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCC
T ss_conf 89879999999851589827983478755406898624776425641442201156689999998754113321123433
Q ss_pred ---------------HHHHHHHHHHHHCCCCCCEEEECCCHHHHHHHHHHHHHHHHHH---------------------C
Q ss_conf ---------------9999999997512999889999299999999999999999960---------------------8
Q 003721 482 ---------------DSALITVLQIHVDEPEGDILLFLTGQEEIDFACESLCEKIKAL---------------------G 525 (800)
Q Consensus 482 ---------------~~~l~~v~~i~~~~~~g~iLVF~~s~~~i~~l~~~L~~~l~~~---------------------~ 525 (800)
...+..++..+.....+++||||+++..|+.++..|...--.. .
T Consensus 411 ~~~~~~~~~~~~~~~~~~l~~li~~l~~~~~~~vIVF~~sr~~~e~la~~L~~~~~~~~~e~~~i~~~~~~~~~~l~~~d 490 (1108)
T 3l9o_A 411 KKGQTYKGGSAKGDAKGDIYKIVKMIWKKKYNPVIVFSFSKRDCEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETD 490 (1108)
T ss_dssp --------------CHHHHHHHHHHHHHTTCCCEEEEESCHHHHHHHHHHTCSHHHHCC----CHHHHGGGSCTHHHHHT
T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCHHH
T ss_conf 22223445554432056899999999962899889995848789999999986469977789999999998875046443
Q ss_pred CCCC---------CEEEEEECCCCCHHHHHHHCCCCCCCCCEEEEECCCHHHCCCCCCEEEEEECCCCCCEEECCCCCCC
Q ss_conf 9999---------8189997399999999865174999995399956411003898995699908985540006778965
Q 003721 526 KDVP---------ELVVLPVYSALPSEIQSRIFEPAPPGGRKVVVATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQRLD 596 (800)
Q Consensus 526 ~~~~---------~~~i~~lhs~l~~~~r~~i~~~f~~g~~kVlVAT~iae~GIdIp~v~~VId~g~~k~~~y~~~~~~~ 596 (800)
...+ ...+.++||+|++.+|..+++.|++|.++|||||+++++|||+|++++||+++. .|++...
T Consensus 491 ~~l~~~~~l~~~l~~gV~~~Hg~l~~~~R~~v~~~F~~G~ikVLVAT~vla~GIDiP~v~~VI~~~~----~~d~~~~-- 564 (1108)
T 3l9o_A 491 RELPQIKHILPLLRRGIGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVR----KWDGQQF-- 564 (1108)
T ss_dssp TCCHHHHHHTHHHHHTEEEECSCSCHHHHHHHHHHHHHTCCCEEEEESCCCSCCCC--CEEEESCSE----EESSSCE--
T ss_pred HHHHHHHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEECCHHHCCCCCCCCEEEEECCC----CCCCCCC--
T ss_conf 3005688787765157565258998999999999986799849998727765778787459996576----6686445--
Q ss_pred CCCCCCCCHHHHHHHHCCCCCCC---CCEEEECCCHH
Q ss_conf 43432059986998836139999---97699903837
Q 003721 597 SLVITPISQASALQRAGRAGRTG---PGKCYRLYTES 630 (800)
Q Consensus 597 ~l~~~p~S~~~~~QR~GRaGR~g---~G~~~~L~t~~ 630 (800)
.|+|..+|+||+|||||.| .|.||.++++.
T Consensus 565 ----r~iS~~eyiQr~GRAGR~G~d~~G~~ill~~~~ 597 (1108)
T 3l9o_A 565 ----RWVSGGEYIQMSGRAGRRGLDDRGIVIMMIDEK 597 (1108)
T ss_dssp ----EECCHHHHHHHHHHSCCSSSCSSEEEEEEECCC
T ss_pred ----CCCCHHHHHHHHCCCCCCCCCCCEEEEEEECCC
T ss_conf ----638999999763634778999855999995588
No 8
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation, exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB: 4a4k_A
Probab=1.00 E-value=1 Score=364.12 Aligned_cols=324 Identities=17% Similarity=0.189 Sum_probs=240.8
Q ss_pred CCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHH-CCCCCCEE
Q ss_conf 28952899999999980993999916898469999999999500189969994325899999999999995-99446231
Q 003721 288 SLPIFKLKNELIQAVHDNQVLILIGETGSGKTTQLAQYLAEAGYTTKGKIGCTQPRRVAATSVAKRVAEEF-GCRLGEEV 366 (800)
Q Consensus 288 ~lPi~~~Q~~~i~~i~~~~~vii~apTGSGKTt~~~~~lle~~~~~~~~il~~~P~r~la~qva~rva~~~-g~~~g~~v 366 (800)
+++++++|.++++.+.+++++++++|||||||+++..++... ...+++++|++|+++|+.|++.++.+.+ +..++..+
T Consensus 37 ~f~l~~~Q~~aI~~il~g~~vlv~apTGsGKTlv~~~~i~~~-~~~g~~vlvl~PtraLa~Q~~~~l~~~~~~~~v~~l~ 115 (997)
T 4a4z_A 37 PFELDTFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMA-HRNMTKTIYTSPIKALSNQKFRDFKETFDDVNIGLIT 115 (997)
T ss_dssp SSCCCHHHHHHHHHHHTTCEEEEECCTTSCSHHHHHHHHHHH-HHTTCEEEEEESCGGGHHHHHHHHHTTC--CCEEEEC
T ss_pred CCCCCHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHH-HHCCCEEEEEECCHHHHHHHHHHHHHHCCCCEEEEEE
T ss_conf 999999999999999849989999799985899999999999-8359859999587999999999999976998399996
Q ss_pred EEEEECCCCCCCCCEEEEECHHHHHHHHHCCC-CCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCC-
Q ss_conf 00120011369981699955088999983087-9999812998346867978016999999998509993399961578-
Q 003721 367 GYAIRFEDCTGPDTVIKYMTDGMLLREILIDE-NLSQYSVIMLDEAHERTINTDVLFGLLKQLVKRRPDLRLIVTSATL- 444 (800)
Q Consensus 367 G~~ir~~~~~~~~~~I~~~T~g~Ll~~l~~~~-~l~~~~~IIiDEaHer~~~~d~l~~llk~l~~~~~~~kiI~lSATl- 444 (800)
| +........|+|+||++|.+.+.... .+.++++||||||| +..+.++...+...+...+++.++|++|||+
T Consensus 116 G-----~~~~~~~~~IlV~Tpe~L~~~l~~~~~~l~~l~lvViDEaH-~l~d~~~g~~~e~ii~~l~~~v~iIlLSAT~~ 189 (997)
T 4a4z_A 116 G-----DVQINPDANCLIMTTEILRSMLYRGADLIRDVEFVIFDEVH-YVNDQDRGVVWEEVIIMLPQHVKFILLSATVP 189 (997)
T ss_dssp S-----SCEECTTSSEEEEEHHHHHHHHHHTCSGGGGEEEEEECCTT-CCCTTCTTCCHHHHHHHSCTTCEEEEEECCCT
T ss_pred C-----CCCCCCCCCEEEECHHHHHHHHHHCCHHHCCCCEEEEECCC-CCCCCCHHHHHHHHHHHCCCCCCEEEECCCCC
T ss_conf 8-----98667999989988999999998181120578899998954-66665448999999985466887899769989
Q ss_pred CHHHHHHHHCC-----CCCCCCCCCCCCEEEEECCCCC-------------HHH--------------------------
Q ss_conf 95889636328-----9865689972121577404650-------------005--------------------------
Q 003721 445 DAERFSGYFFN-----CNIFSIPGRTFPVDINYSRQEV-------------TDY-------------------------- 480 (800)
Q Consensus 445 ~~~~~~~~f~~-----~~~~~i~gr~~pv~~~~~~~~~-------------~~~-------------------------- 480 (800)
+...|..|+.. +.++..+.++.|+..++..... ..+
T Consensus 190 n~~ef~~~l~~~~~~~~~vi~~~~r~~pl~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~ 269 (997)
T 4a4z_A 190 NTYEFANWIGRTKQKNIYVISTPKRPVPLEINIWAKKELIPVINQNSEFLEANFRKHKEILNGESAKGAPSKTDNGRGGS 269 (997)
T ss_dssp THHHHHHHHHHHHTCCEEEEECSSCSSCEEEEEEETTEEEEEECTTCCBCHHHHHHHHHHHC------------------
T ss_pred CHHHHHHHHHCCCCCCEEEEECCCCCCCCEEEEECCCCCHHCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCC
T ss_conf 76899999832358865998368887564688854875000004203566777999999863224334321000001222
Q ss_pred --------------------------------------------------HHHHHHHHHHHHHCCCCCCEEEECCCHHHH
Q ss_conf --------------------------------------------------999999999975129998899992999999
Q 003721 481 --------------------------------------------------LDSALITVLQIHVDEPEGDILLFLTGQEEI 510 (800)
Q Consensus 481 --------------------------------------------------~~~~l~~v~~i~~~~~~g~iLVF~~s~~~i 510 (800)
....+..++..+.....+++||||+++++|
T Consensus 270 ~~~~~~~~~~~rg~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~li~~l~~~~~~~~IVF~~sr~~~ 349 (997)
T 4a4z_A 270 TARGGRGGSNTRDGRGGRGNSTRGGANRGGSRGAGAIGSNKRKFFTQDGPSKKTWPEIVNYLRKRELLPMVVFVFSKKRC 349 (997)
T ss_dssp -----------------------------------------------CCCCTTHHHHHHHHHHHTTCCSEEEECSCHHHH
T ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEECCHHHH
T ss_conf 22344443212354333444445554444433444345665422122466666899999999847999789998988899
Q ss_pred HHHHHHHHHH--------------HHHHCCCC----------------CCEEEEEECCCCCHHHHHHHCCCCCCCCCEEE
Q ss_conf 9999999999--------------99608999----------------98189997399999999865174999995399
Q 003721 511 DFACESLCEK--------------IKALGKDV----------------PELVVLPVYSALPSEIQSRIFEPAPPGGRKVV 560 (800)
Q Consensus 511 ~~l~~~L~~~--------------l~~~~~~~----------------~~~~i~~lhs~l~~~~r~~i~~~f~~g~~kVl 560 (800)
+.++..|... +....... ....+.++||+|++.+|..+++.|+.|.++||
T Consensus 350 e~la~~L~~~~~~~~~e~~~i~~~~~~~~~~l~~~d~~l~~~~~l~~~l~~gi~~~H~gl~~~~R~~v~~~F~~G~~kVL 429 (997)
T 4a4z_A 350 EEYADWLEGINFCNNKEKSQIHMFIEKSITRLKKEDRDLPQILKTRSLLERGIAVHHGGLLPIVKELIEILFSKGFIKVL 429 (997)
T ss_dssp HHHHHTTTTCCCCCHHHHHHHHHHHHHHHTTSCHHHHTCHHHHHHHHHHTTTEEEECTTSCHHHHHHHHHHHHTTCCSEE
T ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCHHHHCCHHHHHHHHHHHCCEEEECCCCCHHHHHHHHHHHHCCCCCEE
T ss_conf 99999984579997788999999999999744654421124787888863684662499999999999999977998399
Q ss_pred EECCCHHHCCCCCCEEEEEECCCCCCEEECCCCCCCCCCCCCCCHHHHHHHHCCCCCCC---CCEEEECCC
Q ss_conf 95641100389899569990898554000677896543432059986998836139999---976999038
Q 003721 561 VATNIAEASLTIDGIFYVIDPGFAKQNVYNPKQRLDSLVITPISQASALQRAGRAGRTG---PGKCYRLYT 628 (800)
Q Consensus 561 VAT~iae~GIdIp~v~~VId~g~~k~~~y~~~~~~~~l~~~p~S~~~~~QR~GRaGR~g---~G~~~~L~t 628 (800)
|||+++++|||+|++.+|+ ++. ..||+... .|.|..+|+||+|||||.| .|.||.++.
T Consensus 430 vAT~~~a~GIDiP~~~VVi-~~~---~k~dg~~~------~~~s~~~y~Qr~GRAGR~G~~~~G~vi~l~~ 490 (997)
T 4a4z_A 430 FATETFAMGLNLPTRTVIF-SSI---RKHDGNGL------RELTPGEFTQMAGRAGRRGLDSTGTVIVMAY 490 (997)
T ss_dssp EECTHHHHSCCCCCSEEEE-SCS---EEEETTEE------EECCHHHHHHHHGGGCCTTTCSSEEEEEECC
T ss_pred EECHHHHCCCCCCCCEEEE-ECC---CCCCCCCC------CCCCHHHHHHHHCCCCCCCCCCCEEEEEECC
T ss_conf 9720866779888866999-405---32467667------7799999827741335688776359999648
No 9
>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex, ATPase, riken structural genomics/proteomics initiative, RSGI; HET: ANP; 2.20A {Drosophila melanogaster}
Probab=1.00 E-value=1 Score=349.62 Aligned_cols=311 Identities=20% Similarity=0.262 Sum_probs=236.0
Q ss_pred HCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHCCC-------CCEEEEECCHHHHHHHHHHHHHHHH-
Q ss_conf 12895289999999998099399991689846999999999950018-------9969994325899999999999995-
Q 003721 287 RSLPIFKLKNELIQAVHDNQVLILIGETGSGKTTQLAQYLAEAGYTT-------KGKIGCTQPRRVAATSVAKRVAEEF- 358 (800)
Q Consensus 287 ~~lPi~~~Q~~~i~~i~~~~~vii~apTGSGKTt~~~~~lle~~~~~-------~~~il~~~P~r~la~qva~rva~~~- 358 (800)
....++++|.++++.+.+++++++++|||||||+++..+++...... +.++++++|+|+||.|+++++.+..
T Consensus 75 g~~~pt~iQ~~ai~~i~~g~d~i~~a~TGsGKT~a~~lpil~~l~~~~~~~~~~~~~~lil~PtreLa~Q~~~~~~~~~~ 154 (434)
T 2db3_A 75 GYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRELAIQIFNEARKFAF 154 (434)
T ss_dssp TCCSCCHHHHHHHHHHHTTCCEEEECCTTSSHHHHHHHHHHHHHHHSCCCCCTTCCSEEEECSSHHHHHHHHHHHHHHTT
T ss_pred CCCCCCHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEEECCHHHHHHHHHHHHHHHC
T ss_conf 99999989999999996699889987899982399999999999844532135896489993489999999999999733
Q ss_pred --CCCCCCEEEEEEEC--CCCCCCCCEEEEECHHHHHHHHHCCC-CCCCCCEEEEECCCCCCCCCCHHHHHHHHHHH--C
Q ss_conf --99446231001200--11369981699955088999983087-99998129983468679780169999999985--0
Q 003721 359 --GCRLGEEVGYAIRF--EDCTGPDTVIKYMTDGMLLREILIDE-NLSQYSVIMLDEAHERTINTDVLFGLLKQLVK--R 431 (800)
Q Consensus 359 --g~~~g~~vG~~ir~--~~~~~~~~~I~~~T~g~Ll~~l~~~~-~l~~~~~IIiDEaHer~~~~d~l~~llk~l~~--~ 431 (800)
+..++...|..... ......+..|+++|||+|++.+.... .+.++++||+|||| ++++.++...+.+.+.. .
T Consensus 155 ~~~~~~~~~~gg~~~~~~~~~l~~~~~Ivv~Tp~~l~~~l~~~~~~l~~~~~lVlDEah-~~~~~gf~~~~~~i~~~~~~ 233 (434)
T 2db3_A 155 ESYLKIGIVYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEAD-RMLDMGFSEDMRRIMTHVTM 233 (434)
T ss_dssp TSSCCCCEECTTSCHHHHHHHHTTCCSEEEECHHHHHHHHHTTSCCCTTCCEEEEETHH-HHTSTTTHHHHHHHHHCTTS
T ss_pred CCCCEEEEEECCCCHHHHHHHHHCCCCEEEECHHHHHHHHHHCCCCCCCCCEEEECCHH-HHHCCCCHHHHHHHHHHCCC
T ss_conf 47867999978888789999850699899987489999997288563327768875176-66306719999999972578
Q ss_pred CCCCEEEEECCCCCHH--HHHHHHCCCCCCCCCC----CCCCEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCEEEECC
Q ss_conf 9993399961578958--8963632898656899----721215774046500059999999999751299988999929
Q 003721 432 RPDLRLIVTSATLDAE--RFSGYFFNCNIFSIPG----RTFPVDINYSRQEVTDYLDSALITVLQIHVDEPEGDILLFLT 505 (800)
Q Consensus 432 ~~~~kiI~lSATl~~~--~~~~~f~~~~~~~i~g----r~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~~~~g~iLVF~~ 505 (800)
+++.+++++|||++.. .+...+...+.+...+ ....+...+......... ..+.++.... .+++||||+
T Consensus 234 ~~~~q~l~~SAT~~~~~~~~~~~~l~~~~~i~~~~~~~~~~~i~~~~~~~~~~~k~----~~l~~~l~~~-~~~~lVF~~ 308 (434)
T 2db3_A 234 RPEHQTLMFSATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKR----SKLIEILSEQ-ADGTIVFVE 308 (434)
T ss_dssp CSSCEEEEEESCCCHHHHHHHHTTCSSCEEEEESSTTCCCTTEEEEEEECCGGGHH----HHHHHHHHHC-CTTEEEECS
T ss_pred CCCCEEEEEECCCCHHHHHHHHHHCCCCEEEEECCCCCCCCCCCEEEEEECCHHHH----HHHHHHHHHC-CCCEEEEEE
T ss_conf 98856999955689899999998646988999535666666533699993717779----9999999857-998799994
Q ss_pred CHHHHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHCCCCCCCCCEEEEECCCHHHCCCCCCEEEEEECCCCC
Q ss_conf 99999999999999999608999981899973999999998651749999953999564110038989956999089855
Q 003721 506 GQEEIDFACESLCEKIKALGKDVPELVVLPVYSALPSEIQSRIFEPAPPGGRKVVVATNIAEASLTIDGIFYVIDPGFAK 585 (800)
Q Consensus 506 s~~~i~~l~~~L~~~l~~~~~~~~~~~i~~lhs~l~~~~r~~i~~~f~~g~~kVlVAT~iae~GIdIp~v~~VId~g~~k 585 (800)
+++.++.+++.|... ++.+..+||++++.+|..+++.|++|+.+|||||+++++|+|+|++++||++++
T Consensus 309 t~~~a~~l~~~L~~~---------~~~~~~lhg~~~~~~R~~~l~~F~~g~~~vLvaT~v~~rGlDi~~v~~VI~~d~-- 377 (434)
T 2db3_A 309 TKRGADFLASFLSEK---------EFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDM-- 377 (434)
T ss_dssp SHHHHHHHHHHHHHT---------TCCEEEESTTSCHHHHHHHHHHHHTSSCSEEEECGGGTSSCCCTTCCEEEESSC--
T ss_pred CCHHHHHHHHHHHHC---------CCCEEEEECCCCHHHHHHHHHHHHCCCCCEEEECHHHHCCCCCCCCCEEEEECC--
T ss_conf 718999999999867---------998799849999999999999998599939998206457788324898999789--
Q ss_pred CEEECCCCCCCCCCCCCCCHHHHHHHHCCCCCCC-CCEEEECCCHH
Q ss_conf 4000677896543432059986998836139999-97699903837
Q 003721 586 QNVYNPKQRLDSLVITPISQASALQRAGRAGRTG-PGKCYRLYTES 630 (800)
Q Consensus 586 ~~~y~~~~~~~~l~~~p~S~~~~~QR~GRaGR~g-~G~~~~L~t~~ 630 (800)
|.+..+|+||+||+||.| .|.|+.|+++.
T Consensus 378 ----------------p~~~~~y~qriGR~gR~g~~G~a~~~~~~~ 407 (434)
T 2db3_A 378 ----------------PSKIDDYVHRIGRTGRVGNNGRATSFFDPE 407 (434)
T ss_dssp ----------------CSSHHHHHHHHTTSSCTTCCEEEEEEECTT
T ss_pred ----------------CCCHHHHHHHHCCCCCCCCCCEEEEEEECC
T ss_conf ----------------999889999816065589987799998064
No 10
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch repair, nucleotide-binding, DNA-binding, polymorphism, nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens} PDB: 2wwy_A*
Probab=1.00 E-value=1 Score=341.87 Aligned_cols=311 Identities=15% Similarity=0.119 Sum_probs=228.8
Q ss_pred CCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf 95289999999998099399991689846999999999950018996999432589999999999999599446231001
Q 003721 290 PIFKLKNELIQAVHDNQVLILIGETGSGKTTQLAQYLAEAGYTTKGKIGCTQPRRVAATSVAKRVAEEFGCRLGEEVGYA 369 (800)
Q Consensus 290 Pi~~~Q~~~i~~i~~~~~vii~apTGSGKTt~~~~~lle~~~~~~~~il~~~P~r~la~qva~rva~~~g~~~g~~vG~~ 369 (800)
..+++|.++++++.+++++++++|||+|||+++..+++.. .+.+++++|+++|+.|+...+... |..++...|..
T Consensus 44 ~~rp~Q~~~i~~il~g~d~lv~~pTGsGKTl~~~lpal~~----~g~~lVisP~~~L~~q~~~~l~~~-gi~~~~l~~~~ 118 (591)
T 2v1x_A 44 KFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPALCS----DGFTLVICPLISLMEDQLMVLKQL-GISATMLNASS 118 (591)
T ss_dssp SCCTTHHHHHHHHHTTCCEEEECCTTSCTTHHHHHHHHTS----SSEEEEECSCHHHHHHHHHHHHHH-TCCEEECCSSC
T ss_pred CCCHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHC----CCCEEEEECHHHHHHHHHHHHHHC-CCCEEEEECCC
T ss_conf 9999999999999849998999799870999999999976----992999968799999999999966-99589996899
Q ss_pred EECCC--------CCCCCCEEEEECHHHHH------HHHHCCCCCCCCCEEEEECCCCCCCC-CCHHH--HHHHHHHHCC
Q ss_conf 20011--------36998169995508899------99830879999812998346867978-01699--9999998509
Q 003721 370 IRFED--------CTGPDTVIKYMTDGMLL------REILIDENLSQYSVIMLDEAHERTIN-TDVLF--GLLKQLVKRR 432 (800)
Q Consensus 370 ir~~~--------~~~~~~~I~~~T~g~Ll------~~l~~~~~l~~~~~IIiDEaHer~~~-~d~l~--~llk~l~~~~ 432 (800)
...+. .......|+|+||++|. +.+.....+.++++|||||||+.+-. .++.. ..+..+....
T Consensus 119 ~~~~~~~~~~~l~~~~~~~~Ilv~Tpe~L~~~~~~~~~l~~~~~~~~i~~iViDEAH~is~~g~dfr~~~~~l~~l~~~~ 198 (591)
T 2v1x_A 119 SKEHVKWVHAEMVNKNSELKLIYVTPEKIAKSKMFMSRLEKAYEARRFTRIAVDEVHCCSQWGHDFRPDYKALGILKRQF 198 (591)
T ss_dssp CHHHHHHHHHHHHCTTCCCCEEEECHHHHHSCHHHHHHHHHHHHTTCEEEEEEETGGGGSTTCTTCCGGGGGGGHHHHHC
T ss_pred CHHHHHHHHHHHHCCCCCCCEEEECHHHHHCCHHHHHHHHHHHHCCCCCEEEEECCCCCCCCCCCCHHHHHHHHHHHHHC
T ss_conf 99999999998651268887899884675441999999984442068768999884224424654189999999999858
Q ss_pred CCCEEEEECCCCCHH---HHHHHHCCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHHHHC-CCCCCEEEECCCHH
Q ss_conf 993399961578958---89636328986568997212157740465000599999999997512-99988999929999
Q 003721 433 PDLRLIVTSATLDAE---RFSGYFFNCNIFSIPGRTFPVDINYSRQEVTDYLDSALITVLQIHVD-EPEGDILLFLTGQE 508 (800)
Q Consensus 433 ~~~kiI~lSATl~~~---~~~~~f~~~~~~~i~gr~~pv~~~~~~~~~~~~~~~~l~~v~~i~~~-~~~g~iLVF~~s~~ 508 (800)
++.+++++|||++.. .+..++.......+........+.|............+..+...... ..++++||||++++
T Consensus 199 ~~~~ii~lSAT~~~~v~~~i~~~l~~~~~~~~~~~~~r~nl~~~v~~~~~~~~~~~~~l~~~l~~~~~~~~~IVf~~sr~ 278 (591)
T 2v1x_A 199 PNASLIGLTATATNHVLTDAQKILCIEKCFTFTASFNRPNLYYEVRQKPSNTEDFIEDIVKLINGRYKGQSGIIYCFSQK 278 (591)
T ss_dssp TTSEEEEEESSCCHHHHHHHHHHTTCCSCEEEECCCCCTTEEEEEEECCSSHHHHHHHHHHHHTTTTTTCEEEEECSSHH
T ss_pred CCCCEEEEECCCCHHHHHHHHHHHCCCCCEEEECCCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHCCCCCEEEEECCHH
T ss_conf 99868999457988999999998389986898467777665799996787579999999999997445887699967689
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCHHHHHHHCCCCCCCCCEEEEECCCHHHCCCCCCEEEEEECCCCCCEE
Q ss_conf 99999999999999608999981899973999999998651749999953999564110038989956999089855400
Q 003721 509 EIDFACESLCEKIKALGKDVPELVVLPVYSALPSEIQSRIFEPAPPGGRKVVVATNIAEASLTIDGIFYVIDPGFAKQNV 588 (800)
Q Consensus 509 ~i~~l~~~L~~~l~~~~~~~~~~~i~~lhs~l~~~~r~~i~~~f~~g~~kVlVAT~iae~GIdIp~v~~VId~g~~k~~~ 588 (800)
+++.+++.|... ++.+.++||+|++++|..+++.|..|..+|||||+++++|||+|+|++||++++
T Consensus 279 ~~e~la~~L~~~---------g~~~~~~h~~l~~~~R~~~~~~F~~g~~~VlVAT~a~~~GID~p~V~~VI~~~~----- 344 (591)
T 2v1x_A 279 DSEQVTVSLQNL---------GIHAGAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSM----- 344 (591)
T ss_dssp HHHHHHHHHHHT---------TCCEEEECTTSCHHHHHHHHHHHHTTSSSEEEECTTSCTTCCCSCEEEEEESSC-----
T ss_pred HHHHHHHHHHHC---------CCCEEEECCCCCHHHHHHHHHHHHCCCCEEEEEECHHHCCCCCCCCCEEEEECC-----
T ss_conf 999999999977---------997898469879999999999997699839998453306877436658999699-----
Q ss_pred ECCCCCCCCCCCCCCCHHHHHHHHCCCCCCC-CCEEEECCCHHHH
Q ss_conf 0677896543432059986998836139999-9769990383776
Q 003721 589 YNPKQRLDSLVITPISQASALQRAGRAGRTG-PGKCYRLYTESAY 632 (800)
Q Consensus 589 y~~~~~~~~l~~~p~S~~~~~QR~GRaGR~g-~G~~~~L~t~~~~ 632 (800)
|.|.++|+||+|||||.| +|.|+.+|+..+.
T Consensus 345 -------------p~s~~~y~Qr~GRaGR~G~~g~~i~l~~~~D~ 376 (591)
T 2v1x_A 345 -------------SKSMENYYQESGRAGRDDMKADCILYYGFGDI 376 (591)
T ss_dssp -------------CSSHHHHHHHHTTSCTTSSCEEEEEEECHHHH
T ss_pred -------------CCCHHHHHHHHCCCCCCCCCCEEEEEECHHHH
T ss_conf -------------99999998985407769998659999776888
Done!