Query 000228
Match_columns 1825
No_of_seqs 385 out of 2395
Neff 5.2
Searched_HMMs 29240
Date Tue Mar 26 19:34:51 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000228.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_4-8//hhsearch_pdb/000228hhsearch_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 1 741.1 51.2 607 57-865 2-639 (646)
2 2xzl_A ATP-dependent helicase 1.0 1 1 662.3 51.2 615 35-865 164-791 (802)
3 2wjy_A Regulator of nonsense t 1.0 1 1 652.8 53.1 605 45-865 171-789 (800)
4 2gk6_A Regulator of nonsense t 1.0 1 1 649.0 49.1 600 51-865 1-613 (624)
5 3e1s_A Exodeoxyribonuclease V, 1.0 1 1 256.9 16.3 201 589-841 278-545 (574)
6 3lfu_A DNA helicase II; SF1 he 1.0 1 1 252.1 21.4 156 589-773 212-370 (647)
7 1w36_D RECD, exodeoxyribonucle 1.0 1 1 230.3 17.7 240 589-840 261-586 (608)
8 1pjr_A PCRA; DNA repair, DNA r 1.0 1 1 229.5 23.3 157 589-773 215-374 (724)
9 3upu_A ATP-dependent DNA helic 1.0 1 1 224.7 17.5 72 253-326 22-94 (459)
10 1uaa_A REP helicase, protein ( 1.0 1 1 219.4 22.3 156 589-773 206-365 (673)
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=741.12 Aligned_cols=607 Identities=24% Similarity=0.289 Sum_probs=433.5
Q ss_pred CCHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCCCEE-------E--EEEE--ECCCCCCCEEEEEEEEECCCCCCCCCCC
Q ss_conf 795689953345689999999998422115888337-------8--8434--1278987229999942014456899988
Q 000228 57 QSVKQYFGSFVFPLLEETRMQLRSGLEAMRRAPYAQ-------V--IAFE--ELKPYGTNQYGIEVDYWRNTISNSGKEP 125 (1825)
Q Consensus 57 ~S~~eYl~SF~PlLLEEtrAdL~SSle~is~Ap~~e-------I--isie--~~~~~~~~~ydI~v~~~~~~~~~~~~e~ 125 (1825)
.|+++|++-|..||-.|-.+++....+.....+..+ + +.+. .....+..++.+....... ......
T Consensus 2 ~~~~~~~~~~~~Ll~~E~~~e~~~~~~~~~~~~~~~~~~~G~~~~~l~~~~~~~~~~g~~~~~~~~~~~~~---~~~l~~ 78 (646)
T 4b3f_X 2 AAVESFVTKQLDLLELERDAEVEERRSWQENISLKELQSRGVCLLKLQVSSQRTGLYGRLLVTFEPRRYGS---AAALPS 78 (646)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSCHHHHGGGTSEEEEEEEEEEEECSSSCEEEEEEESCC------CCCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHCCCEECCEEEEEEEECCCCEEEEEEEECCCCC---CCCCCC
T ss_conf 11899999999999999999999999998629999999679603264888889657985999998357788---777866
Q ss_pred CCCCCCCEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCEEEEEE--CCCCCCCCCCCCEEEEEEEECCCH
Q ss_conf 779999899994158998632224893169999982168986556431599975--588332357774299999604404
Q 000228 126 YKTLPGDILVLADFKPEKVSDLRRVGRTWTFVSVTTVPDDEDENKKENRYKVKA--RNNMQVHDKTKKSFFFIYLTNILP 203 (1825)
Q Consensus 126 y~p~~GDIVlLt~~KP~~~sDL~r~g~~~~ia~V~kv~~~~~~~~~~~~i~I~~--sk~i~~~~~~~~~~~~v~L~Nl~T 203 (1825)
+.+++||+|++++..+.. .....|.|.++..+. +.|.. +.+..........+.+.++.|.+|
T Consensus 79 ~~~~~Gd~v~~~~~~~~~--------~~~~~g~v~~~~~~~--------i~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 142 (646)
T 4b3f_X 79 NSFTSGDIVGLYDAANEG--------SQLATGILTRVTQKS--------VTVAFDESHDFQLSLDRENSYRLLKLANDVT 142 (646)
T ss_dssp CCCCTTCEEEEEETTTTS--------CCCEEEEEEEEETTE--------EEEECC-------CCCSSCCEEEEEECCHHH
T ss_pred CCCCCCCEEEEEECCCCC--------CCEEEEEEEEEECCE--------EEEEECCCCCCCCCCCCCCCEEEEEECCCHH
T ss_conf 789989989999668998--------714899999994999--------9999888653333557898479998066068
Q ss_pred HHHHHHHHHCC------CCCHHHHHHCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCC
Q ss_conf 69999988116------984567541088876310000001235799776679888999999999999984430147889
Q 000228 204 NKRIWNSLHMC------GNWKVITQVLGTDSVVDERCELCSVQRKGQWDEKFGPSFSSTLNESQVGAMLACLRRLDCGHR 277 (1825)
Q Consensus 204 ~~Ri~~AL~~~------~n~~li~~IL~~~~~~~~~c~~c~~~~~~~~~~i~~~~~s~~LNeSQ~eAV~saLsa~~c~~~ 277 (1825)
+.|++.||..+ +...+.+.++...++... ... ......+.+||++|++||..+++.
T Consensus 143 ~~r~~~al~~l~~~~~~~~~~l~~~l~~~~~p~~~---------~~~---~~~~~~~~~LN~~Q~~AV~~al~~------ 204 (646)
T 4b3f_X 143 YRRLKKALIALKKYHSGPASSLIEVLFGRSAPSPA---------SEI---HPLTFFNTCLDTSQKEAVLFALSQ------ 204 (646)
T ss_dssp HHHHHHHHHHHHTCCSSTTHHHHHHHTTSSCCCCC---------CCC---CCCCCSSTTCCHHHHHHHHHHHHC------
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCC---------CCC---CCCCCCCCCCCHHHHHHHHHHHCC------
T ss_conf 99999999985212467257799987499999976---------555---765325788899999999999658------
Q ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEECCCC
Q ss_conf 97399995799983699999999999749938998577699999999999986532016899988878887658843678
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLRIKCRTLACTPTNVAITELASRVLKLVKESYKRDSRSNTPICPLGDILLFGNKD 357 (1825)
Q Consensus 278 ~~IsLIqGPPGTGKTkTIaaLI~~LLk~g~RILVCAPTN~AVDeIaeRL~klv~es~e~~~~~~~~~~~lGdIVRiGn~~ 357 (1825)
++++|||||||||||+||+.++..++..+.+||+|||||.|||++++||.... .+++|+|++.
T Consensus 205 ~~~~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~TN~AvD~i~erL~~~~-----------------~~ilRlG~~~ 267 (646)
T 4b3f_X 205 KELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNIAVDNLVERLALCK-----------------QRILRLGHPA 267 (646)
T ss_dssp SSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHHHTT-----------------CCEEECSCCS
T ss_pred CCCEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHCC-----------------CCEEEECCHH
T ss_conf 99659988999888999999999998489829999185188879999998627-----------------7658823656
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCC
Q ss_conf 77768215898699999998641068878401167567776516989999999985321025560246887642017768
Q 000228 358 RLKVNPGFEEIYLNYRIKKLRECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNVNQSEEKECRKETEGSKG 437 (1825)
Q Consensus 358 rmkI~~eL~eV~LD~RVe~L~~cf~~~~gWk~~L~Sli~lLE~~~sqY~~yleei~~~e~~de~~~kr~~i~~~~~~~kk 437 (1825)
++ .+.+....++..+.+... ...+..+ ++++.......+.
T Consensus 268 r~--~~~~~~~~l~~~~~~~~~--------~~~~~~~------------------------------~~~~~~~~~~~~~ 307 (646)
T 4b3f_X 268 RL--LESIQQHSLDAVLARSDS--------AQIVADI------------------------------RKDIDQVFVKNKK 307 (646)
T ss_dssp SC--CHHHHTTBHHHHHTTTTC--------SSTHHHH------------------------------HHHHTTSSTTTTC
T ss_pred HH--HHHHHHHHHHHHHHHCHH--------HHHHHHH------------------------------HHHHHHHHHHHHH
T ss_conf 52--025543018889850417--------8899999------------------------------9888999986343
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCC
Q ss_conf 98455899999889879999887998720499788896459999999999999975420178666999998500011262
Q 000228 438 ERKPFLKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQEMVALKSLLDSFGNLLFQDNVVSKELEKLFSHSVDEGI 517 (1825)
Q Consensus 438 ~~~sf~efvker~~~l~~~L~~~i~~L~t~LP~s~is~~~~~~l~~ll~lL~~le~LL~~~~i~~eeL~~~l~~~~~~~k 517 (1825)
.. .+ .....
T Consensus 308 ~~--------~~---------------------------------------------------------------~~~~~ 316 (646)
T 4b3f_X 308 TQ--------DK---------------------------------------------------------------REKSN 316 (646)
T ss_dssp -----------------------------------------------------------------------------CCS
T ss_pred HH--------HH---------------------------------------------------------------HHHHH
T ss_conf 22--------37---------------------------------------------------------------88877
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCEEEECCCCCCCC---CCCCCCCCCEE
Q ss_conf 268999989899799999999999998854200268776403578898611473999826542111---22358896799
Q 000228 518 SWAFVRKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLVLEDFCFKRASLFFSTASSSYKL---HSVEIKPLNFL 594 (1825)
Q Consensus 518 s~~~~~~~~~~kL~~~R~ecl~~Lk~L~~~lk~l~lP~~~~r~~I~~~iL~~A~VI~sT~Sss~~L---~~l~~~~fD~V 594 (1825)
- ...+...+. .++. .+.......+..+++|++|+++++.. .......||+|
T Consensus 317 ~--------~~~~~~l~~----~l~~--------------~~~~~~~~~l~~~~vv~~t~~~a~~~~~~~~~~~~~Fd~v 370 (646)
T 4b3f_X 317 F--------RNEIKLLRK----ELKE--------------REEAAMLESLTSANVVLATNTGASADGPLKLLPESYFDVV 370 (646)
T ss_dssp S--------HHHHHHHHH----HHHH--------------HHHHHHHHHHHHCSEEEEETTTTCSSSGGGGSCTTCCSEE
T ss_pred H--------HHHHHHHHH----HHHH--------------HHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHCCCCEE
T ss_conf 7--------889999999----9988--------------8888889887633542222012223358876431268889
Q ss_pred EEECCCCCCHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCC--CCCEECCCCCCCCCCCCC
Q ss_conf 998689999468978777319883999726899884031432000277533899975148--872311002255855666
Q 000228 595 VIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLN--HSKHLLNIQYRMHPSISL 672 (1825)
Q Consensus 595 IIDEAaQi~E~esLIPL~l~~~kkiVLVGDpkQLPPtV~S~~a~~~gl~~SLFERL~~~g--~~~~~L~~QYRMhP~Is~ 672 (1825)
|||||+|+.|+++++|+. .++++||||||+||||++.+..+...+++.|+|+|+.... .+.++|++||||||.|+.
T Consensus 371 IIDEAsQ~~e~~~lipL~--~~~~~ILVGD~~QLpP~v~~~~a~~~gl~~SlferL~~~~~~~~v~~L~~qYRmhp~I~~ 448 (646)
T 4b3f_X 371 VIDECAQALEASCWIPLL--KARKCILAGDHKQLPPTTVSHKAALAGLSLSLMERLAEEYGARVVRTLTVQYRMHQAIMR 448 (646)
T ss_dssp EETTGGGSCHHHHTTTGG--GSSEEEEEECTTSCCCCCSCHHHHHTTTTCCHHHHHHHHHGGGTEEECCEESSSCHHHHH
T ss_pred EECCCCCCCHHHHHHHCC--CCCEEEECCCCCCCCCEECCHHHHHCCCCCHHHHHHHHHCCCCEEEECCCCCCCCHHHHH
T ss_conf 971754445578875203--554289707865568501243666605411299999986698615535201277688886
Q ss_pred CCCHHCCCCCCCCCCCCCCCCCHHCC---CCCCCCCCEEEEEECCCC----CCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 64100012433567644562000001---248988825999805872----23445666779999999999999999411
Q 000228 673 FPNLQFYRNQILDGANVKSKSYEKQY---LTGTEFGTYSFINIIGGR----EDFIYHSCRNIVEVSAVIKILQKLYKAWV 745 (1825)
Q Consensus 673 fpNk~FY~gkL~d~~sv~~~~~~~~~---l~~~~~~p~~FIdV~~G~----Ee~~~~S~~N~~EA~~V~~lV~~Llk~~~ 745 (1825)
|+|+.||+|+|.+++++..+...... .......|+.|+|+.++. ++..+.|+.|..||.+|.++++.|++.+.
T Consensus 449 f~n~~fY~g~L~~~~~~~~~~~~~lp~~~~~~~~~~p~~f~d~~g~~~~~~~~~~~~s~~N~~EA~~V~~~v~~L~~~gv 528 (646)
T 4b3f_X 449 WASDTMYLGQLTAHSSVARHLLRDLPGVAATEETGVPLLLVDTAGCGLFELEEEDEQSKGNPGEVRLVSLHIQALVDAGV 528 (646)
T ss_dssp HHHHHHSTTCCEECTTTTTCCGGGSTTCCCCTTTTCSEEEEECTTSSCCCCC-----CCCCHHHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC
T ss_conf 55776318845458406655420366666664568852788548876432202688664678999999999999996698
Q ss_pred CCCCCCEEEEEEECHHHHHHHHHHHCHHHCCCCCCCEEECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCEEECC
Q ss_conf 89898409999204899999999960110389998189914558988400399999321279997556899871000011
Q 000228 746 GSKQKVSIGVVSPYTAQVVAIRKKIGFEYENKDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNVALT 825 (1825)
Q Consensus 746 ~~~~~~sIgIISPY~AQv~~Ik~~L~k~~~~~~~~~I~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNVALT 825 (1825)
. +.+|||||||++|+..|++.|...+ ..++|+|||+|||+|+||||+|+||+|..+.+||+.|+||+|||+|
T Consensus 529 ~---~~dIgVItpYraQ~~~l~~~l~~~~-----~~i~v~TVd~fQG~E~dvII~S~vrsn~~~~iGFl~~~rRlNVAlT 600 (646)
T 4b3f_X 529 P---ARDIAVVSPYNLQVDLLRQSLVHRH-----PELEIKSVDGFQGREKEAVILSFVRSNRKGEVGFLAEDRRINVAVT 600 (646)
T ss_dssp C---GGGEEEEESCHHHHHHHHHHHTTTC-----TTCEEEEGGGGTTCCEEEEEEECCCCCTTCCCCSTTCHHHHHHHHH
T ss_pred C---CCCEEEECCCHHHHHHHHHHHHHHC-----CCCEECCHHHCCCCCCCEEEEEECCCCCCCCCCCCCCCCCEEEEHH
T ss_conf 9---6849998997999999999999759-----9979878431664547889999506799999664489684872745
Q ss_pred CCCCCEEEEECHHHHCCCCHHHHHHHHHHHHCCCEECCCC
Q ss_conf 0123279992001220363079999999864592435720
Q 000228 826 RARHCLWILGSERTLISSESIWGALVCDAKARQCFFNADE 865 (1825)
Q Consensus 826 RAR~~LiIIGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~~~ 865 (1825)
|||++||||||..+|.+ +++|++++++++++|+++.+-+
T Consensus 601 RAk~~liivGn~~~l~~-~~~~~~li~~~~~~g~~~~~~e 639 (646)
T 4b3f_X 601 RARRHVAVICDSRTVNN-HAFLKTLVEYFTQHGEVRTAFE 639 (646)
T ss_dssp TEEEEEEEEECHHHHTT-SHHHHHHHHHHHHSSEEEEGGG
T ss_pred HHHCEEEEEECHHHHCC-CHHHHHHHHHHHHCCCEEEHHH
T ss_conf 66180899972689647-8799999999998798965888
No 2
>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=662.30 Aligned_cols=615 Identities=25% Similarity=0.346 Sum_probs=432.8
Q ss_pred CHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCEEEEEEEEE
Q ss_conf 53310271102232243553357956899533456899999999984221158883378843412789872299999420
Q 000228 35 SLEDIFSQSFFKDQVEKIPESFQSVKQYFGSFVFPLLEETRMQLRSGLEAMRRAPYAQVIAFEELKPYGTNQYGIEVDYW 114 (1825)
Q Consensus 35 Sl~DilN~dL~k~kVkkIP~TF~S~~eYl~SF~PlLLEEtrAdL~SSle~is~Ap~~eIisie~~~~~~~~~ydI~v~~~ 114 (1825)
+++|+.+.+ .++++++||++|.|+.+|.+.|.|+|..|.+++.. +.+.....-..+.+. ....+..++.+.+...
T Consensus 164 ~l~d~~~~~-~~~~~~~v~~~y~~~~~Y~~~~~~ll~lE~~~~~~--~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ 238 (802)
T 2xzl_A 164 TINDIDAPE-EQEAIPPLLLRYQDAYEYQRSYGPLIKLEADYDKQ--LKESQALEHISVSWS--LALNNRHLASFTLSTF 238 (802)
T ss_dssp CC-------------CCCCSSCSSHHHHHHHHHHHHHHHHHHHHH--HHCCC--CCBCEEEE--ECTTSCEEEEEC----
T ss_pred CHHHHHCCC-CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH--HHHHHHCCCCEEEEE--CCCCCEEEEEEEECCC
T ss_conf 566653346-65564666655699999999998999999976223--466764448267544--0679838999980664
Q ss_pred CCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCEEEEEECCCC-CCCCCCCCEE
Q ss_conf 144568999887799998999941589986322248931699999821689865564315999755883-3235777429
Q 000228 115 RNTISNSGKEPYKTLPGDILVLADFKPEKVSDLRRVGRTWTFVSVTTVPDDEDENKKENRYKVKARNNM-QVHDKTKKSF 193 (1825)
Q Consensus 115 ~~~~~~~~~e~y~p~~GDIVlLt~~KP~~~sDL~r~g~~~~ia~V~kv~~~~~~~~~~~~i~I~~sk~i-~~~~~~~~~~ 193 (1825)
. ...+.+.+||+|.++...|.. ......|.|.++.+...+ .+.+...... .........+
T Consensus 239 ~-------~~~~~~~~GD~v~l~~~~~~~-------~~~~~~g~V~~v~~~~~~-----~v~v~~~~~~~~~p~~~~~~~ 299 (802)
T 2xzl_A 239 E-------SNELKVAIGDEMILWYSGMQH-------PDWEGRGYIVRLPNSFQD-----TFTLELKPSKTPPPTHLTTGF 299 (802)
T ss_dssp ------------CCCTTCEEEEEECSSSS-------SCEEEEEEEEECCC---C-----CEEEEECCCSSCCCTTCCSSE
T ss_pred C-------CCCCCCCCCCEEEEEECCCCC-------CCEEEEEEEEEECCCCCC-----EEEEEEECCCCCCCCCCCCCE
T ss_conf 5-------578989999989999789888-------951578999998788887-----899999678889960027774
Q ss_pred EEEEEECCCHHHHHHHHHHCCC--C---C-HHHHHHCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf 9999604404699999881169--8---4-56754108887631000000123579977667988899999999999998
Q 000228 194 FFIYLTNILPNKRIWNSLHMCG--N---W-KVITQVLGTDSVVDERCELCSVQRKGQWDEKFGPSFSSTLNESQVGAMLA 267 (1825)
Q Consensus 194 ~~v~L~Nl~T~~Ri~~AL~~~~--n---~-~li~~IL~~~~~~~~~c~~c~~~~~~~~~~i~~~~~s~~LNeSQ~eAV~s 267 (1825)
.+.++.|.+|+.|++.||+... . . .+...++......... . ...+..+.......||++|++||..
T Consensus 300 ~v~~~~~~~~~~r~~~AL~~~~~~~~~~~~~l~~~ll~~~~~~~~~-------~-~~lp~~~~~~~~~~Ln~~Q~~Av~~ 371 (802)
T 2xzl_A 300 TAEFIWKGTSYDRMQDALKKFAIDKKSISGYLYYKILGHQVVDISF-------D-VPLPKEFSIPNFAQLNSSQSNAVSH 371 (802)
T ss_dssp EEEECCCCHHHHHHHHHHHHHHHCTTSBCHHHHHHHHTCCCCCCCC-------C-CCCCSCCSCTTSCCCCHHHHHHHHH
T ss_pred EEEEEECCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCC-------C-CCCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf 8999756861899999999987513340367888760776565434-------6-5685111543455689999999999
Q ss_pred HHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 4430147889973999957999836999999999997-499389985776999999999999865320168999888788
Q 000228 268 CLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLR-IKCRTLACTPTNVAITELASRVLKLVKESYKRDSRSNTPICP 346 (1825)
Q Consensus 268 aLsa~~c~~~~~IsLIqGPPGTGKTkTIaaLI~~LLk-~g~RILVCAPTN~AVDeIaeRL~klv~es~e~~~~~~~~~~~ 346 (1825)
++. .++.+|+||||||||+|++.++..++. .+.+||+|||||.|+|++.+||.+..
T Consensus 372 ~l~-------~~~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a~tn~A~d~l~~rL~~~g---------------- 428 (802)
T 2xzl_A 372 VLQ-------RPLSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAAKLRDLG---------------- 428 (802)
T ss_dssp HTT-------CSEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEESSHHHHHHHHHHHHHTT----------------
T ss_pred HHC-------CCCEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHC----------------
T ss_conf 863-------997799878997789999999999986799729998485799999999998627----------------
Q ss_pred CCCEEEECCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf 87658843678777682158986999999986410688784011675677765169899999999853210255602468
Q 000228 347 LGDILLFGNKDRLKVNPGFEEIYLNYRIKKLRECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNVNQSEEK 426 (1825)
Q Consensus 347 lGdIVRiGn~~rmkI~~eL~eV~LD~RVe~L~~cf~~~~gWk~~L~Sli~lLE~~~sqY~~yleei~~~e~~de~~~kr~ 426 (1825)
.+++|+|++.+..+.+.+....++..+...
T Consensus 429 -~~ilR~g~~~r~~i~~~~~~~tl~~~~~~~------------------------------------------------- 458 (802)
T 2xzl_A 429 -LKVVRLTAKSREDVESSVSNLALHNLVGRG------------------------------------------------- 458 (802)
T ss_dssp -CCEEECCCGGGTTSCCTTGGGBHHHHHHTT-------------------------------------------------
T ss_pred -CCEEEECCCCHHHHCCHHHHHHHHHHHHHH-------------------------------------------------
T ss_conf -507862223222103156564299999851-------------------------------------------------
Q ss_pred HHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
Q ss_conf 87642017768984558999998898799998879987204997888964599999999999999754201786669999
Q 000228 427 ECRKETEGSKGERKPFLKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQEMVALKSLLDSFGNLLFQDNVVSKELE 506 (1825)
Q Consensus 427 ~i~~~~~~~kk~~~sf~efvker~~~l~~~L~~~i~~L~t~LP~s~is~~~~~~l~~ll~lL~~le~LL~~~~i~~eeL~ 506 (1825)
+. ...+.+... ..... .+...+
T Consensus 459 ------------------------------------------~~-----~~l~~l~~~---~~~~~------~ls~~~-- 480 (802)
T 2xzl_A 459 ------------------------------------------AK-----GELKNLLKL---KDEVG------ELSASD-- 480 (802)
T ss_dssp ------------------------------------------CC-----THHHHHHHH---HHHHS------CCCHHH--
T ss_pred ------------------------------------------CH-----HHHHHHHHH---HHHHC------CCCHHH--
T ss_conf ------------------------------------------68-----999999999---88644------578889--
Q ss_pred HHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCEEEECCCCCCCCCCC
Q ss_conf 98500011262268999989899799999999999998854200268776403578898611473999826542111223
Q 000228 507 KLFSHSVDEGISWAFVRKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLVLEDFCFKRASLFFSTASSSYKLHSV 586 (1825)
Q Consensus 507 ~~l~~~~~~~ks~~~~~~~~~~kL~~~R~ecl~~Lk~L~~~lk~l~lP~~~~r~~I~~~iL~~A~VI~sT~Sss~~L~~l 586 (1825)
... + +.+ .......+++.++||++|+.+++.. .+
T Consensus 481 --------------------~~~-------~----~~~--------------~~~~~~~~l~~a~VI~~T~~~~~~~-~L 514 (802)
T 2xzl_A 481 --------------------TKR-------F----VKL--------------VRKTEAEILNKADVVCCTCVGAGDK-RL 514 (802)
T ss_dssp --------------------HHH-------H----HHH--------------HHHHHHHHHHTCSEEEEETTGGGCT-TC
T ss_pred --------------------HHH-------H----HHH--------------HHHHHHHHHCCCCEEEECHHHCCHH-HH
T ss_conf --------------------988-------8----999--------------9999998752399998332331727-77
Q ss_pred CCCCCCEEEEECCCCCCHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEECCCCCCC
Q ss_conf 58896799998689999468978777319883999726899884031432000277533899975148872311002255
Q 000228 587 EIKPLNFLVIDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLNHSKHLLNIQYRM 666 (1825)
Q Consensus 587 ~~~~fD~VIIDEAaQi~E~esLIPL~l~~~kkiVLVGDpkQLPPtV~S~~a~~~gl~~SLFERL~~~g~~~~~L~~QYRM 666 (1825)
.. .||+||||||+|+.|++.++|+. .+.+++|+||||+||||++.+..+...+++.|+|+|+...+...++|++||||
T Consensus 515 ~~-~fd~viIDEA~q~~e~~~li~l~-~~~~~lilvGD~~QL~pvv~s~~a~~~gl~~slferl~~~~~~~~~L~~qYRm 592 (802)
T 2xzl_A 515 DT-KFRTVLIDESTQASEPECLIPIV-KGAKQVILVGDHQQLGPVILERKAADAGLKQSLFERLISLGHVPIRLEVQYRM 592 (802)
T ss_dssp CS-CCSEEEETTGGGSCHHHHHHHHT-TTBSEEEEEECTTSCCCCCCCHHHHHTTTTCCHHHHHHHTTCCCEECCEECSS
T ss_pred HC-CCCEEEEECCCCCCHHHHHHHHH-HCCCEEEEEECCCCCCCEECHHHHHHCCCCHHHHHHHHHCCCCCEEEEEECCC
T ss_conf 55-69999998850324478999998-57998999807611387141054656587435999998669983475200488
Q ss_pred CCCCCCCCCHHCCCCCCCCCCCCCCCCCHHC--CCCCCCCCCEEEEEECCCCCC-CCCCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 8556666410001243356764456200000--124898882599980587223-4456667799999999999999994
Q 000228 667 HPSISLFPNLQFYRNQILDGANVKSKSYEKQ--YLTGTEFGTYSFINIIGGRED-FIYHSCRNIVEVSAVIKILQKLYKA 743 (1825)
Q Consensus 667 hP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~--~l~~~~~~p~~FIdV~~G~Ee-~~~~S~~N~~EA~~V~~lV~~Llk~ 743 (1825)
||+|++|+|..||+|++.+++.+..+..... ..+. ...|+.|+++.+..+. ..+.|+.|..||+.|.+++..+.+.
T Consensus 593 ~p~I~~f~n~~fY~g~L~~~~~~~~r~~~~~~~~~~~-~~~p~~f~~~~g~~~~~~~~~s~~N~~EA~~V~~~v~~L~~~ 671 (802)
T 2xzl_A 593 NPYLSEFPSNMFYEGSLQNGVTIEQRTVPNSKFPWPI-RGIPMMFWANYGREEISANGTSFLNRIEAMNCERIITKLFRD 671 (802)
T ss_dssp CHHHHHHHHHHHSTTCCEESSCTTTTCCTTCCCCCSS-TTCCEEEEECCCCCEECTTSSSEECHHHHHHHHHHHHHHHHT
T ss_pred CHHHHHHHHHHHCCCCCCCCCCHHHHCCCCCCCCCCC-CCCCEEEEECCCCEEECCCCCCCCCHHHHHHHHHHHHHHHHC
T ss_conf 8689998898752884656875343114555677778-999879998689502137898868999999999999999975
Q ss_pred HCCCCCCCEEEEEEECHHHHHHHHHHHCHHHC--CCCCCCEEECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCE
Q ss_conf 11898984099992048999999999601103--8999818991455898840039999932127999755689987100
Q 000228 744 WVGSKQKVSIGVVSPYTAQVVAIRKKIGFEYE--NKDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVN 821 (1825)
Q Consensus 744 ~~~~~~~~sIgIISPY~AQv~~Ik~~L~k~~~--~~~~~~I~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLN 821 (1825)
+.. ..+|||||||++|+..|++.|..... ......+.|+|||+|||+|+|+||+|+||++..+.+||+.+++|+|
T Consensus 672 g~~---~~~IgVItpy~~Q~~~I~~~L~~~~~l~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrs~~~~~~gfl~d~rrLN 748 (802)
T 2xzl_A 672 GVK---PEQIGVITPYEGQRAYILQYMQMNGSLDKDLYIKVEVASVDAFQGREKDYIILSCVRANEQQAIGFLRDPRRLN 748 (802)
T ss_dssp TCC---GGGEEEEESCHHHHHHHHHHHHHHCSSCHHHHHTSEEEEHHHHTTCCEEEEEEECCCCCTTCCCGGGGCHHHHH
T ss_pred CCC---CCCEEEECCCHHHHHHHHHHHHHCCCCCCCCCCCEEECCHHHCCCCCCCEEEEEECCCCCCCCCCCCCCCCCEE
T ss_conf 998---34289983669999999999987256550013665982354348872677999823688877734125845111
Q ss_pred EECCCCCCCEEEEECHHHHCCCCHHHHHHHHHHHHCCCEECCCC
Q ss_conf 00110123279992001220363079999999864592435720
Q 000228 822 VALTRARHCLWILGSERTLISSESIWGALVCDAKARQCFFNADE 865 (1825)
Q Consensus 822 VALTRAR~~LiIIGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~~~ 865 (1825)
||+||||++|+||||..+|.+ +++|+.++++++++||+++++.
T Consensus 749 VAlTRAk~~LiIvg~~~~l~~-~~~w~~ll~~~~~~~~~~~~~~ 791 (802)
T 2xzl_A 749 VGLTRAKYGLVILGNPRSLAR-NTLWNHLLIHFREKGCLVEGTL 791 (802)
T ss_dssp HHHSSEEEEEEEEECHHHHTT-SHHHHHHHHHHHHHTCEEEEET
T ss_pred EEHHHHHCEEEEEECHHHHCC-CHHHHHHHHHHHHCCCEECCCH
T ss_conf 257465283999988799611-7699999999998599624888
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=652.78 Aligned_cols=605 Identities=25% Similarity=0.331 Sum_probs=422.1
Q ss_pred CCCCCCCCCCCCCCHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEE-CCCCCCCEEEEEEEEECCCCCCCCC
Q ss_conf 223224355335795689953345689999999998422115888337884341-2789872299999420144568999
Q 000228 45 FKDQVEKIPESFQSVKQYFGSFVFPLLEETRMQLRSGLEAMRRAPYAQVIAFEE-LKPYGTNQYGIEVDYWRNTISNSGK 123 (1825)
Q Consensus 45 ~k~kVkkIP~TF~S~~eYl~SF~PlLLEEtrAdL~SSle~is~Ap~~eIisie~-~~~~~~~~ydI~v~~~~~~~~~~~~ 123 (1825)
..+++.+||++|.++.+|.+.|.|++..|.+++.. +.+.... .. +.+.. ....+.....+.+... .
T Consensus 171 ~~~~~~~v~~~y~~~~~Y~~~~~~l~~lE~~~~~~--~~e~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~--------~ 237 (800)
T 2wjy_A 171 VDEEPQHVLLRYEDAYQYQNIFGPLVKLEADYDKK--LKESQTQ--DN-ITVRWDLGLNKKRIAYFTLPKT--------D 237 (800)
T ss_dssp ---CCCCCCSCCSCHHHHHHHHHHHHHHHHHHHHH--HHHHTCE--EE-ECCEEEECTTCCEEEEECCCBC--------C
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH--HHHHHHC--CC-EEEEEEECCCCEEEEEEEECCC--------C
T ss_conf 54454663444599999999999999999976143--4455422--66-2898772689806899995365--------5
Q ss_pred CCCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCEEEEEECCCCCCCCCCCCEEEEEEEECCCH
Q ss_conf 88779999899994158998632224893169999982168986556431599975588332357774299999604404
Q 000228 124 EPYKTLPGDILVLADFKPEKVSDLRRVGRTWTFVSVTTVPDDEDENKKENRYKVKARNNMQVHDKTKKSFFFIYLTNILP 203 (1825)
Q Consensus 124 e~y~p~~GDIVlLt~~KP~~~sDL~r~g~~~~ia~V~kv~~~~~~~~~~~~i~I~~sk~i~~~~~~~~~~~~v~L~Nl~T 203 (1825)
....+.+||+|.++...|.. ......|.|.++...... .+.+...............+.+.++.|.+|
T Consensus 238 ~~~~l~~GD~v~l~~~~~~~-------~~~~~~g~V~~v~~~~~~-----~v~l~~~~~~~~p~~~~~~~~v~~~~~~~~ 305 (800)
T 2wjy_A 238 SDMRLMQGDEICLRYKGDLA-------PLWKGIGHVIKVPDNYGD-----EIAIELRSSVGAPVEVTHNFQVDFVWKSTS 305 (800)
T ss_dssp C--CCCTTCEEEEEECSSSS-------CCEEEEEEEEECSBTTBS-----CEEEEESCCTTCCTTCCSCEEEEECCCCHH
T ss_pred CCCCCCCCCEEEEEECCCCC-------CCCEEEEEEEEECCCCCC-----EEEEEECCCCCCCCCCCCCCEEEEEECCCH
T ss_conf 78878999989999788878-------873458999997678888-----899998268888400377704999606875
Q ss_pred HHHHHHHHHCCC-----CC-HHHHHHCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCC
Q ss_conf 699999881169-----84-567541088876310000001235799776679888999999999999984430147889
Q 000228 204 NKRIWNSLHMCG-----NW-KVITQVLGTDSVVDERCELCSVQRKGQWDEKFGPSFSSTLNESQVGAMLACLRRLDCGHR 277 (1825)
Q Consensus 204 ~~Ri~~AL~~~~-----n~-~li~~IL~~~~~~~~~c~~c~~~~~~~~~~i~~~~~s~~LNeSQ~eAV~saLsa~~c~~~ 277 (1825)
+.|++.||+... -. .+...++........ . ....+..+.......||++|++||..++.
T Consensus 306 ~~r~~~aL~~~~~~e~~~~~~l~~~ll~~~~~~~~-~-------~~~l~~~~~~~~~~~Ln~~Q~~Av~~~l~------- 370 (800)
T 2wjy_A 306 FDRMQSALKTFAVDETSVSGYIYHKLLGHEVEDVI-I-------KCQLPKRFTAQGLPDLNHSQVYAVKTVLQ------- 370 (800)
T ss_dssp HHHHHHHHHHHHHCTTSBCHHHHHHHTTCCCCCCC-C-------CCCCCSCCSCTTSCCCCHHHHHHHHHHHT-------
T ss_pred HHHHHHHHHHHHHHHCCHHHHHHHHHCCCCCCCHH-H-------CCCCCCCCCCCCCCCCCHHHHHHHHHHCC-------
T ss_conf 99999999999874001168999985188887133-2-------24572003643466779999999987425-------
Q ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEECCC
Q ss_conf 973999957999836999999999997-4993899857769999999999998653201689998887888765884367
Q 000228 278 SGVELIWGPPGTGKTKTVSMLLLTLLR-IKCRTLACTPTNVAITELASRVLKLVKESYKRDSRSNTPICPLGDILLFGNK 356 (1825)
Q Consensus 278 ~~IsLIqGPPGTGKTkTIaaLI~~LLk-~g~RILVCAPTN~AVDeIaeRL~klv~es~e~~~~~~~~~~~lGdIVRiGn~ 356 (1825)
+++.+|+||||||||+|++.++..++. .+.+||+|||||.|++++.+|+.... .+++|+|++
T Consensus 371 ~~~~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~a~tn~A~~~l~~~l~~~g-----------------~~vvRlg~~ 433 (800)
T 2wjy_A 371 RPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTG-----------------LKVVRLCAK 433 (800)
T ss_dssp SSEEEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEEESSHHHHHHHHHHHHTTT-----------------CCEEECCCG
T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHHHHHHC-----------------CCEEEECCC
T ss_conf 991799869999989999999999997489819998696899999999998727-----------------541762332
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCC
Q ss_conf 87776821589869999999864106887840116756777651698999999998532102556024688764201776
Q 000228 357 DRLKVNPGFEEIYLNYRIKKLRECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNVNQSEEKECRKETEGSK 436 (1825)
Q Consensus 357 ~rmkI~~eL~eV~LD~RVe~L~~cf~~~~gWk~~L~Sli~lLE~~~sqY~~yleei~~~e~~de~~~kr~~i~~~~~~~k 436 (1825)
.+..+...+....++..+... ..
T Consensus 434 ~r~~i~~~~~~~tlh~~~~~~---------------------~~------------------------------------ 456 (800)
T 2wjy_A 434 SREAIDSPVSFLALHNQIRNM---------------------DS------------------------------------ 456 (800)
T ss_dssp GGGGCCCTTGGGBHHHHHHTC---------------------TT------------------------------------
T ss_pred CHHHHCCHHHHHHHHHHHHCC---------------------CC------------------------------------
T ss_conf 143313615565399999727---------------------64------------------------------------
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHCCCCC
Q ss_conf 89845589999988987999988799872049978889645999999999999997542017-86669999985000112
Q 000228 437 GERKPFLKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQEMVALKSLLDSFGNLLFQD-NVVSKELEKLFSHSVDE 515 (1825)
Q Consensus 437 k~~~sf~efvker~~~l~~~L~~~i~~L~t~LP~s~is~~~~~~l~~ll~lL~~le~LL~~~-~i~~eeL~~~l~~~~~~ 515 (1825)
. .. ++.+.++.... .....
T Consensus 457 -----~-----~~--------------------------------------l~~l~~~~~~~~~~~~~------------ 476 (800)
T 2wjy_A 457 -----M-----PE--------------------------------------LQKLQQLKDETGELSSA------------ 476 (800)
T ss_dssp -----C-----HH--------------------------------------HHHHHHHHTTTSCCCHH------------
T ss_pred -----H-----HH--------------------------------------HHHHHHHHHHHCCCCHH------------
T ss_conf -----9-----99--------------------------------------99999998753346867------------
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCCCCEEE
Q ss_conf 62268999989899799999999999998854200268776403578898611473999826542111223588967999
Q 000228 516 GISWAFVRKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLVLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLV 595 (1825)
Q Consensus 516 ~ks~~~~~~~~~~kL~~~R~ecl~~Lk~L~~~lk~l~lP~~~~r~~I~~~iL~~A~VI~sT~Sss~~L~~l~~~~fD~VI 595 (1825)
... .++.+ +..+...+++.++||++|+++++.. .+....||+||
T Consensus 477 ----------~~~-----------~~~~~--------------~~~~~~~~l~~a~VI~~T~~~~~~~-~l~~~~fd~vi 520 (800)
T 2wjy_A 477 ----------DEK-----------RYRAL--------------KRTAERELLMNADVICCTCVGAGDP-RLAKMQFRSIL 520 (800)
T ss_dssp ----------HHH-----------HHHHH--------------HHHHHHHHHHHCSEEEEETGGGGCT-TTTTCCCSEEE
T ss_pred ----------HHH-----------HHHHH--------------HHHHHHHHHCCCCEEEECHHHHCCH-HHHCCCCCEEE
T ss_conf ----------899-----------99999--------------9877775433698999740452872-45458989899
Q ss_pred EECCCCCCHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEECCCCCCCCCCCCCCCC
Q ss_conf 98689999468978777319883999726899884031432000277533899975148872311002255855666641
Q 000228 596 IDEAAQLKESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLNHSKHLLNIQYRMHPSISLFPN 675 (1825)
Q Consensus 596 IDEAaQi~E~esLIPL~l~~~kkiVLVGDpkQLPPtV~S~~a~~~gl~~SLFERL~~~g~~~~~L~~QYRMhP~Is~fpN 675 (1825)
||||+|+.+++.++|+. .+.+++|+||||+||||++.+..+...++..|+|+|+...+...++|++||||||+|++|+|
T Consensus 521 IDEAsQ~~e~~~li~l~-~~~~~~ilvGD~~QLpPvv~s~~a~~~gl~~SlFerL~~~g~~~~~L~~qYRm~p~I~~f~n 599 (800)
T 2wjy_A 521 IDESTQATEPECMVPVV-LGAKQLILVGDHCQLGPVVMCKKAAKAGLSQSLFERLVVLGIRPIRLQVQYRMHPALSAFPS 599 (800)
T ss_dssp ETTGGGSCHHHHHHHHT-TTBSEEEEEECTTSCCCCCCCHHHHHTTTTSCHHHHHHHTTCCCEECCEECSSCHHHHHHHH
T ss_pred EECCCCCCCHHHHHHHH-HCCCEEEEECCCCCCCCEECCHHHHHCCCCHHHHHHHHHCCCCCEEEHHHCCCCCHHHHHHH
T ss_conf 98977877699999998-46885999615213798455555655574358999998679995484453288817877518
Q ss_pred HHCCCCCCCCCCCCCCCCCHH--CCCCCCCCCCEEEEEECCCCCC-CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCE
Q ss_conf 000124335676445620000--0124898882599980587223-4456667799999999999999994118989840
Q 000228 676 LQFYRNQILDGANVKSKSYEK--QYLTGTEFGTYSFINIIGGRED-FIYHSCRNIVEVSAVIKILQKLYKAWVGSKQKVS 752 (1825)
Q Consensus 676 k~FY~gkL~d~~sv~~~~~~~--~~l~~~~~~p~~FIdV~~G~Ee-~~~~S~~N~~EA~~V~~lV~~Llk~~~~~~~~~s 752 (1825)
..||+|+|.+++.+..+.... ...+. ...|+.|+++.+..+. ..+.|+.|..||+.|.+++..+++.+.. +.+
T Consensus 600 ~~fY~g~L~~~~~~~~r~~~~~~~~~~~-~~~p~~f~~~~g~e~~~~~~~S~~N~~Ea~~V~~~v~~L~~~g~~---~~d 675 (800)
T 2wjy_A 600 NIFYEGSLQNGVTAADRVKKGFDFQWPQ-PDKPMFFYVTQGQEEIASSGTSYLNRTEAANVEKITTKLLKAGAK---PDQ 675 (800)
T ss_dssp HHHSTTCCEESSCSGGGSCTTCCCCCSS-TTSCEEEEECCCCCEECSSBSCEECHHHHHHHHHHHHHHHHTTCC---GGG
T ss_pred HHHCCCCCCCCCCHHHHCCCCCCCCCCC-CCCCEEEEECCCCEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCC---CCC
T ss_conf 9752981546775133101356665668-998889998688512047887646899999999999999975998---055
Q ss_pred EEEEEECHHHHHHHHHHHCHHHCC--CCCCCEEECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCEEECCCCCCC
Q ss_conf 999920489999999996011038--999818991455898840039999932127999755689987100001101232
Q 000228 753 IGVVSPYTAQVVAIRKKIGFEYEN--KDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNVALTRARHC 830 (1825)
Q Consensus 753 IgIISPY~AQv~~Ik~~L~k~~~~--~~~~~I~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNVALTRAR~~ 830 (1825)
|||||||++|+..|++.+...... .....+.|+|||+|||+|+|+||+|+||++..+.+||+.+++|+|||+||||++
T Consensus 676 IgVItPy~~Q~~~I~~~L~~~~~~~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrs~~~~~~gfl~d~rrLNVAlTRAk~~ 755 (800)
T 2wjy_A 676 IGIITPYEGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQGIGFLNDPRRLNVALTRARYG 755 (800)
T ss_dssp EEEECSCHHHHHHHHHHHHHHCSSCHHHHHTSEEECGGGGTTCCEEEEEEECCCCSCCCCCGGGTCHHHHHHHHTSEEEE
T ss_pred EEEEECCHHHHHHHHHHHHHCCCCCCCCCCCEEECCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHCC
T ss_conf 99990658999999999986476541236866984211268875787999805788766633116713431308766311
Q ss_pred EEEEECHHHHCCCCHHHHHHHHHHHHCCCEECCCC
Q ss_conf 79992001220363079999999864592435720
Q 000228 831 LWILGSERTLISSESIWGALVCDAKARQCFFNADE 865 (1825)
Q Consensus 831 LiIIGn~~tL~~s~~~Wk~LI~~ak~rgc~~~~~~ 865 (1825)
|+||||..+|.+ +++|+.++++++++||+++++.
T Consensus 756 LiIvG~~~~l~~-~~~w~~ll~~~~~~~~~~~~~~ 789 (800)
T 2wjy_A 756 VIIVGNPKALSK-QPLWNHLLNYYKEQKVLVEGPL 789 (800)
T ss_dssp EEEEECHHHHTS-SHHHHHHHHHHHHTTCEEESCG
T ss_pred EEEEECHHHHCC-CHHHHHHHHHHHHCCCEEECCH
T ss_conf 999987799542-7899999999998799996888
No 4
>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=649.01 Aligned_cols=600 Identities=25% Similarity=0.320 Sum_probs=416.8
Q ss_pred CCCCCCCCHHHHHHHCHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEC-CCCCCCEEEEEEEEECCCCCCCCCCCCCCC
Q ss_conf 3553357956899533456899999999984221158883378843412-789872299999420144568999887799
Q 000228 51 KIPESFQSVKQYFGSFVFPLLEETRMQLRSGLEAMRRAPYAQVIAFEEL-KPYGTNQYGIEVDYWRNTISNSGKEPYKTL 129 (1825)
Q Consensus 51 kIP~TF~S~~eYl~SF~PlLLEEtrAdL~SSle~is~Ap~~eIisie~~-~~~~~~~ydI~v~~~~~~~~~~~~e~y~p~ 129 (1825)
+|+.||.|+.+|.+.|.|+|..|.+++... ++... ..-+.+... ...+.....+.+..... ...+.
T Consensus 1 ~~~~~~~~~~~y~~~~~~ll~~E~~~~~~~--~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~ 67 (624)
T 2gk6_A 1 PLGSRYEDAYQYQNIFGPLVKLEADYDKKL--KESQT---QDNITVRWDLGLNKKRIAYFTLPKTDS--------DMRLM 67 (624)
T ss_dssp --CCCCSSHHHHHHHHHHHHHHHHHHHHHH--HHHTC---EEEECEEEEECTTSCEEEEEECC---------------CC
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHHHHH--HHHHH---CCCCEEEEEECCCCCEEEEEEECCCCC--------CCCCC
T ss_conf 967765999999999999999999997888--76540---458258766347881699997064335--------79689
Q ss_pred CCCEEEEEECCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCEEEEEECCCCCCCCCCCCEEEEEEEECCCHHHHHHH
Q ss_conf 99899994158998632224893169999982168986556431599975588332357774299999604404699999
Q 000228 130 PGDILVLADFKPEKVSDLRRVGRTWTFVSVTTVPDDEDENKKENRYKVKARNNMQVHDKTKKSFFFIYLTNILPNKRIWN 209 (1825)
Q Consensus 130 ~GDIVlLt~~KP~~~sDL~r~g~~~~ia~V~kv~~~~~~~~~~~~i~I~~sk~i~~~~~~~~~~~~v~L~Nl~T~~Ri~~ 209 (1825)
.||+|.++...+.. +.....|.|.++.+...+ .+.|...............+.+-++.|.+|+.|++.
T Consensus 68 ~Gd~v~l~~~~~~~-------~~~~~~g~v~~~~~~~~~-----~v~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~ 135 (624)
T 2gk6_A 68 QGDEICLRYKGDLA-------PLWKGIGHVIKVPDNYGD-----EIAIELRSSVGAPVEVTHNFQVDFVWKSTSFDRMQS 135 (624)
T ss_dssp TTCEEEEEECSSSS-------CCCEEEEEEEECSCSSCS-----EEEEEESCCTTCCCSCCSSEEEEECCCCHHHHHHHH
T ss_pred CCCEEEEEECCCCC-------CCCEEEEEEEEECCCCCC-----EEEEEECCCCCCCCCCCCCEEEEEEECCCHHHHHHH
T ss_conf 99989999788888-------874789999996477887-----899998268888633566558999957726999999
Q ss_pred HHHCCC-----CC-HHHHHHCCCCCCCCCCHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCEEEE
Q ss_conf 881169-----84-567541088876310000001235799776679888999999999999984430147889973999
Q 000228 210 SLHMCG-----NW-KVITQVLGTDSVVDERCELCSVQRKGQWDEKFGPSFSSTLNESQVGAMLACLRRLDCGHRSGVELI 283 (1825)
Q Consensus 210 AL~~~~-----n~-~li~~IL~~~~~~~~~c~~c~~~~~~~~~~i~~~~~s~~LNeSQ~eAV~saLsa~~c~~~~~IsLI 283 (1825)
||+... .. .+...++........ . ....+..+.......||++|++||..++. +++.+|
T Consensus 136 al~~~~~~~~~~~~~~~~~ll~~~~~~~~-~-------~~~~~~~~~~~~~~~ln~~Q~~av~~~l~-------~~~~li 200 (624)
T 2gk6_A 136 ALKTFAVDETSVSGYIYHKLLGHEVEDVI-I-------KCQLPKRFTAQGLPDLNHSQVYAVKTVLQ-------RPLSLI 200 (624)
T ss_dssp HHHHHHHCTTSBCSHHHHHHTTCCCCCCC-C-------CCCCCSCCSCTTSCCCCHHHHHHHHHHHT-------CSEEEE
T ss_pred HHHHHHHCCCCCHHHHHHHHCCCCCCCCC-C-------CCCCCCCCCCCCCCCCCHHHHHHHHHHHC-------CCCEEE
T ss_conf 99998760455127789986188876421-2-------45675212544567899999999999962-------897699
Q ss_pred ECCCCCCHHHHHHHHHHHHHH-CCCCEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEECCCCCCCCC
Q ss_conf 957999836999999999997-4993899857769999999999998653201689998887888765884367877768
Q 000228 284 WGPPGTGKTKTVSMLLLTLLR-IKCRTLACTPTNVAITELASRVLKLVKESYKRDSRSNTPICPLGDILLFGNKDRLKVN 362 (1825)
Q Consensus 284 qGPPGTGKTkTIaaLI~~LLk-~g~RILVCAPTN~AVDeIaeRL~klv~es~e~~~~~~~~~~~lGdIVRiGn~~rmkI~ 362 (1825)
+||||||||+|++.++..++. .+.+||+|||||.|+|++.+|+.+.. .+++|+|++.+..+.
T Consensus 201 ~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a~tn~A~~~l~~~l~~~~-----------------~~~~R~~~~~r~~~~ 263 (624)
T 2gk6_A 201 QGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTG-----------------LKVVRLCAKSREAID 263 (624)
T ss_dssp ECCTTSCHHHHHHHHHHHHHTSSSCCEEEEESSHHHHHHHHHHHHTTT-----------------CCEEECCCTGGGSCC
T ss_pred ECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHCC-----------------CEEEEECCCCCHHHC
T ss_conf 899998789999999999997489809999271899999999998619-----------------758960532201111
Q ss_pred CHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCCH
Q ss_conf 21589869999999864106887840116756777651698999999998532102556024688764201776898455
Q 000228 363 PGFEEIYLNYRIKKLRECFAPLSGWRHCFSSMIDLLEDCVSQYHIYVEKLKEREDCNVNQSEEKECRKETEGSKGERKPF 442 (1825)
Q Consensus 363 ~eL~eV~LD~RVe~L~~cf~~~~gWk~~L~Sli~lLE~~~sqY~~yleei~~~e~~de~~~kr~~i~~~~~~~kk~~~sf 442 (1825)
..+....+...+.. + .. .
T Consensus 264 ~~~~~~tl~~~~~~---~-~~----------------------------------------------------------~ 281 (624)
T 2gk6_A 264 SPVSFLALHNQIRN---M-DS----------------------------------------------------------M 281 (624)
T ss_dssp CTTTTTBHHHHHTS---C-SS----------------------------------------------------------C
T ss_pred CCHHHHHHHHHHHH---C-CC----------------------------------------------------------H
T ss_conf 30456659999980---5-23----------------------------------------------------------6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHH
Q ss_conf 89999988987999988799872049978889645999999999999997542017866699999850001126226899
Q 000228 443 LKYVRERFKCAVVSLRNCIFIFCTHLPKSYISENSFQEMVALKSLLDSFGNLLFQDNVVSKELEKLFSHSVDEGISWAFV 522 (1825)
Q Consensus 443 ~efvker~~~l~~~L~~~i~~L~t~LP~s~is~~~~~~l~~ll~lL~~le~LL~~~~i~~eeL~~~l~~~~~~~ks~~~~ 522 (1825)
.. +..+..+.... +....
T Consensus 282 -----~~--------------------------------------l~~l~~~~~~~-----------~~~~~-------- 299 (624)
T 2gk6_A 282 -----PE--------------------------------------LQKLQQLKDET-----------GELSS-------- 299 (624)
T ss_dssp -----HH--------------------------------------HHHHHTTCC---------------CCH--------
T ss_pred -----HH--------------------------------------HHHHHHHHHHH-----------CCCCH--------
T ss_conf -----99--------------------------------------99999998764-----------21377--------
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCCCCEEEEECCCCC
Q ss_conf 99898997999999999999988542002687764035788986114739998265421112235889679999868999
Q 000228 523 RKRYLLQLHQRRSECLSVLRNLWNSLDELNLPCTTSKLVLEDFCFKRASLFFSTASSSYKLHSVEIKPLNFLVIDEAAQL 602 (1825)
Q Consensus 523 ~~~~~~kL~~~R~ecl~~Lk~L~~~lk~l~lP~~~~r~~I~~~iL~~A~VI~sT~Sss~~L~~l~~~~fD~VIIDEAaQi 602 (1825)
... ..++.+ +..+...+++.++||+||+++++.. .+....||+||||||+|+
T Consensus 300 --~~~-----------~~~~~~--------------~~~~~~~~l~~~~vI~~T~~~~~~~-~l~~~~fd~viIDEAsQ~ 351 (624)
T 2gk6_A 300 --ADE-----------KRYRAL--------------KRTAERELLMNADVICCTCVGAGDP-RLAKMQFRSILIDESTQA 351 (624)
T ss_dssp --HHH-----------HHHHHH--------------HHHHHHHHHHTCSEEEEETGGGGCG-GGTTCCCSEEEETTGGGS
T ss_pred --HHH-----------HHHHHH--------------HHHHHHHHHHCCCEEEECCHHHCCH-HHHCCCCCEEEEECCCCC
T ss_conf --789-----------999999--------------9988999871499999927011514-664679887999630146
Q ss_pred CHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEECCCCCCCCCCCCCCCCHHCCCCC
Q ss_conf 94689787773198839997268998840314320002775338999751488723110022558556666410001243
Q 000228 603 KESESTIPLQLAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLNHSKHLLNIQYRMHPSISLFPNLQFYRNQ 682 (1825)
Q Consensus 603 ~E~esLIPL~l~~~kkiVLVGDpkQLPPtV~S~~a~~~gl~~SLFERL~~~g~~~~~L~~QYRMhP~Is~fpNk~FY~gk 682 (1825)
.|+++++|+.. +++++|+||||+||||++.+..+...+++.|+|+|+...+.+.++|++||||||+|++|+|..||+|+
T Consensus 352 ~e~~~li~l~~-~~~~~ilvGD~~QL~p~v~~~~~~~~gl~~Slferl~~~~~~~~~L~~qYR~~~~I~~~~n~~fY~~~ 430 (624)
T 2gk6_A 352 TEPECMVPVVL-GAKQLILVGDHCQLGPVVMCKKAAKAGLSQSLFERLVVLGIRPIRLQVQYRMHPALSAFPSNIFYEGS 430 (624)
T ss_dssp CHHHHHHHHTT-TBSEEEEEECTTSCCCCCSCHHHHHHTTTSCHHHHHHHTTCCCEECCEECSSCHHHHHHHHHHHSTTC
T ss_pred CCHHHHHHHHH-CCCEEEEECCHHCCCCEEECHHHHHCCCCHHHHHHHHHCCCCCEEEHHHHCCCHHHHHHHHHHHCCCC
T ss_conf 75899999984-68749991670106985204888875874569999986699927830230768458765488655764
Q ss_pred CCCCCCCCCCCCHHC--CCCCCCCCCEEEEEECCCCCC-CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEC
Q ss_conf 356764456200000--124898882599980587223-44566677999999999999999941189898409999204
Q 000228 683 ILDGANVKSKSYEKQ--YLTGTEFGTYSFINIIGGRED-FIYHSCRNIVEVSAVIKILQKLYKAWVGSKQKVSIGVVSPY 759 (1825)
Q Consensus 683 L~d~~sv~~~~~~~~--~l~~~~~~p~~FIdV~~G~Ee-~~~~S~~N~~EA~~V~~lV~~Llk~~~~~~~~~sIgIISPY 759 (1825)
+.+++.+..+..... ..+. ...|+.|+++.+..+. ..+.|+.|..||..|.+++..+.+.+.. +.+|||||||
T Consensus 431 L~~~~~~~~r~~~~~~~~~~~-~~~p~~~~~~~g~~~~~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~---~~dIgVItpy 506 (624)
T 2gk6_A 431 LQNGVTAADRVKKGFDFQWPQ-PDKPMFFYVTQGQEEIASSGTSYLNRTEAANVEKITTKLLKAGAK---PDQIGIITPY 506 (624)
T ss_dssp CEESSCTGGGCCTTCCCCCSS-TTCCEEEEECCCCEECCTTSSCCEEHHHHHHHHHHHHHHHTTTCC---GGGEEEECSC
T ss_pred CCCCCCHHHHCCCCCCCCCCC-CCCCEEEEECCCCCEECCCCCCCCCHHHHHHHHHHHHHHHHCCCC---CCEEEEECCC
T ss_conf 656886344101356778889-999989998588303337898852899999999999999975999---7809998688
Q ss_pred HHHHHHHHHHHCHHHCC--CCCCCEEECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCEEECCCCCCCEEEEECH
Q ss_conf 89999999996011038--9998189914558988400399999321279997556899871000011012327999200
Q 000228 760 TAQVVAIRKKIGFEYEN--KDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNVALTRARHCLWILGSE 837 (1825)
Q Consensus 760 ~AQv~~Ik~~L~k~~~~--~~~~~I~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNVALTRAR~~LiIIGn~ 837 (1825)
++|+..|++.+...... .....+.|+|||+|||+|+|+||+|+||++..+.+||+.+++|+|||+||||++|+||||.
T Consensus 507 ~~Q~~~i~~~l~~~~~~~~~~~~~v~v~TVd~fQG~E~dvVIls~vrs~~~~~~gfl~~~~rlnVAlTRAk~~L~ivg~~ 586 (624)
T 2gk6_A 507 EGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQGIGFLNDPRRLNVALTRARYGVIIVGNP 586 (624)
T ss_dssp HHHHHHHHHHHHHSCSSCHHHHHHSEEECHHHHTTCCEEEEEEEECC------CCTTTCHHHHHHHTTSEEEEEEEEECH
T ss_pred HHHHHHHHHHHHHHCCCCCCCCCCEEEECHHHCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEEEHHHHHCCEEEEECH
T ss_conf 99999999999860223200247618932232488605789999504798787464588350210344653858999888
Q ss_pred HHHCCCCHHHHHHHHHHHHCCCEECCCC
Q ss_conf 1220363079999999864592435720
Q 000228 838 RTLISSESIWGALVCDAKARQCFFNADE 865 (1825)
Q Consensus 838 ~tL~~s~~~Wk~LI~~ak~rgc~~~~~~ 865 (1825)
.+|.+ ++.|+.++++++++||+++++.
T Consensus 587 ~~l~~-~~~~~~li~~~~~~~~~~~~~~ 613 (624)
T 2gk6_A 587 KALSK-QPLWNHLLNYYKEQKVLVEGPL 613 (624)
T ss_dssp HHHTT-SHHHHHHHHHHHHTTCCCCSCG
T ss_pred HHHCC-CHHHHHHHHHHHHCCCEEECCH
T ss_conf 99734-7699999999998798895888
No 5
>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=256.94 Aligned_cols=201 Identities=17% Similarity=0.177 Sum_probs=129.6
Q ss_pred CCCCEEEEECCCCCCHHHHHHHHH-HCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEECCCCCCCC
Q ss_conf 896799998689999468978777-3198839997268998840314320002775338999751488723110022558
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQ-LAGINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSLNHSKHLLNIQYRMH 667 (1825)
Q Consensus 589 ~~fD~VIIDEAaQi~E~esLIPL~-l~~~kkiVLVGDpkQLPPtV~S~~a~~~gl~~SLFERL~~~g~~~~~L~~QYRMh 667 (1825)
.++|+||||||+++........+. ++...++|+|||+.||||+..+ +.|..+.. ..+.+.|+++||++
T Consensus 278 ~~~dvlIIDEasml~~~~~~~Ll~~~~~~~~lilvGD~~QL~~v~~g----------~~~~~l~~-~~~~~~L~~~~R~~ 346 (574)
T 3e1s_A 278 APYDLLIVDEVSMMGDALMLSLLAAVPPGARVLLVGDTDQLPPVDAG----------LPLLALAQ-AAPTIKLTQVYRQA 346 (574)
T ss_dssp CSCSEEEECCGGGCCHHHHHHHHTTSCTTCEEEEEECTTSCCCSSSC----------CHHHHHHH-HSCEEECCCCCHHH
T ss_pred CCCCEEEECCCCCCCHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCC----------CHHHHHHH-CCCEEECCEEEECC
T ss_conf 65888997175677899999999837689889999543326876688----------37999996-39889852018189
Q ss_pred --CCCCCCCCHHCCCCCCCCCCCCCCCCCHHCCCCCCCCCCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf --556666410001243356764456200000124898882599980587223445666779999999999999999411
Q 000228 668 --PSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKLYKAWV 745 (1825)
Q Consensus 668 --P~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~Ee~~~~S~~N~~EA~~V~~lV~~Llk~~~ 745 (1825)
+.|..+++. +..|.+.... ..+.|+......+ .+..+.+++. +.
T Consensus 347 ~~s~I~~~a~~-i~~g~~~~~~-----------------~d~~~~~~~~~~~-----------~~~~i~~~~~-----~~ 392 (574)
T 3e1s_A 347 AKNPIIQAAHG-LLHGEAPAWG-----------------DKRLNLTEIEPDG-----------GARRVALMVR-----EL 392 (574)
T ss_dssp HTCHHHHHHHH-HHTTCCCCCC-----------------BTTEEEEECCSTT-----------CHHHHHHHHH-----HT
T ss_pred CCCHHHHHHHH-HHCCCCCCCC-----------------CCEEEEECCCHHH-----------HHHHHHHHHH-----CC
T ss_conf 96189999999-8679986667-----------------8769983799999-----------9999999986-----45
Q ss_pred CCCCCCEEEEEEECHHH---HHHHHHHHCHHHCCC---------------------------------------CCCCE-
Q ss_conf 89898409999204899---999999960110389---------------------------------------99818-
Q 000228 746 GSKQKVSIGVVSPYTAQ---VVAIRKKIGFEYENK---------------------------------------DGFTV- 782 (1825)
Q Consensus 746 ~~~~~~sIgIISPY~AQ---v~~Ik~~L~k~~~~~---------------------------------------~~~~I- 782 (1825)
.. ..++.|+||.+.. +..+...+...+... ....+
T Consensus 393 ~~--~~~~~VL~~~~~g~~gv~~lN~~l~~~lnp~~~~~~~~~~~~~~Gd~V~~~~N~~~~~v~NGdiG~i~~~~~~~l~ 470 (574)
T 3e1s_A 393 GG--PGAVQVLTPMRKGPLGMDHLNYHLQALFNPGEGGVRIAEGEARPGDTVVQTKNDYNNEIFNGTLGMVLKAEGARLT 470 (574)
T ss_dssp TS--GGGCEEEESCSSSTTSHHHHHHHHHHHHSCCSCCEECSSSEECTTCEEEECSCBTTTTBCTTCEEEEEEECSSCEE
T ss_pred CC--CCCEEEEEEECCCCHHHHHHHHHHHHHHCCCCCCEEECCEEEECCCEEEEEECCCCCCEECCCEEEEECCCCCEEE
T ss_conf 84--3574899863388535999999999975888872212781774699799930375246345863689717799899
Q ss_pred ---------------------EECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCEEECCCCCCCEEEEECHHHHC
Q ss_conf ---------------------99145589884003999993212799975568998710000110123279992001220
Q 000228 783 ---------------------KVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNVALTRARHCLWILGSERTLI 841 (1825)
Q Consensus 783 ---------------------~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNVALTRAR~~LiIIGn~~tL~ 841 (1825)
.+.|||++||.|+|.||+.++... ..+.+++++|||+||||+.++++|+...|.
T Consensus 471 v~fdg~~v~~~~~~l~~~~~ayA~TIHksQGsEfd~Vil~l~~~~-----~~~l~r~LlYvAiTRAk~~l~lvg~~~~l~ 545 (574)
T 3e1s_A 471 VDFDGNVVELTGAELFNLQLGYALTVHRAQGSEWGTVLGVLHEAH-----MPMLSRNLVYTALTRARDRFFSAGSASAWQ 545 (574)
T ss_dssp EEETTEEEEECGGGGTTEEECSEEEHHHHTTCCEEEEEEEECGGG-----GGGCCHHHHHHHHHTEEEEEEEEECHHHHH
T ss_pred EEECCEEEEECHHHHHHHHHEEEEEHHHHCCCCCCEEEEECCCCC-----CCCCCCCEEEEEEEEEEEEEEEEECHHHHH
T ss_conf 998996999726774201011330088747866886999867765-----553453618987130166899997899999
No 6
>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=252.11 Aligned_cols=156 Identities=14% Similarity=0.085 Sum_probs=110.4
Q ss_pred CCCCEEEEECCCCCCHHHHHHHHHHC-CCCCEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHC--CCCCEECCCCCC
Q ss_conf 89679999868999946897877731-988399972689988403143200027753389997514--887231100225
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQLA-GINHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL--NHSKHLLNIQYR 665 (1825)
Q Consensus 589 ~~fD~VIIDEAaQi~E~esLIPL~l~-~~kkiVLVGDpkQLPPtV~S~~a~~~gl~~SLFERL~~~--g~~~~~L~~QYR 665 (1825)
..|++|+|||+++.++.+..+...+. ..+++++|||++|... ...|.....|.++... +...+.|+.|||
T Consensus 212 ~~~~~ilVDE~QD~~~~q~~ll~~l~~~~~~l~~vGD~~QsIy-------~frga~~~~~~~~~~~~~~~~~~~L~~nyR 284 (647)
T 3lfu_A 212 ERFTNILVDEFQDTNNIQYAWIRLLAGDTGKVMIVGDDDQSIY-------GWRGAQVENIQRFLNDFPGAETIRLEQNYR 284 (647)
T ss_dssp HHCCEEEESSGGGCCHHHHHHHHHHHTTTCEEEEEECGGGCCC-------GGGTCCTTHHHHHHHHCTTCEEEEECBCSS
T ss_pred HHCCEEEEECCCCCCHHHHHHHHHHHCCCCEEEEECCCHHHHC-------CCCCCCHHHHHHHHHHCCCCEEEECCCCCC
T ss_conf 3198999978003989999999999668987999807602121-------325878899999998689985997665789
Q ss_pred CCCCCCCCCCHHCCCCCCCCCCCCCCCCCHHCCCCCCCCCCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 58556666410001243356764456200000124898882599980587223445666779999999999999999411
Q 000228 666 MHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKLYKAWV 745 (1825)
Q Consensus 666 MhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~Ee~~~~S~~N~~EA~~V~~lV~~Llk~~~ 745 (1825)
+++.|..++|..|+.+......... .......++.++...+ ...|+..|++.+..+...+.
T Consensus 285 s~~~I~~~~n~~~~~~~~~~~~~~~--------~~~~~~~~~~~~~~~~-----------~~~e~~~ia~~I~~l~~~g~ 345 (647)
T 3lfu_A 285 STSNILSAANALIENNNGRLGKKLW--------TDGADGEPISLYCAFN-----------ELDEARFVVNRIKTWQDNGG 345 (647)
T ss_dssp SCHHHHHHHHHHHTTCSSCCCCCCB--------CSSCCCCCEEEEEEEE-----------HHHHHHHHHHHHHHHHHTTC
T ss_pred CCHHHHHHHHHHHHHCCCCCCCCCC--------CCCCCCCCEEEEECCC-----------HHHHHHHHHHHHHHHHHCCC
T ss_conf 9779999999999854202377442--------6788999628996698-----------59999999999999997698
Q ss_pred CCCCCCEEEEEEECHHHHHHHHHHHCHH
Q ss_conf 8989840999920489999999996011
Q 000228 746 GSKQKVSIGVVSPYTAQVVAIRKKIGFE 773 (1825)
Q Consensus 746 ~~~~~~sIgIISPY~AQv~~Ik~~L~k~ 773 (1825)
...+|+||+|+++|...+...|.+.
T Consensus 346 ---~~~diaVL~r~~~~~~~l~~~l~~~ 370 (647)
T 3lfu_A 346 ---ALAECAILYRSNAQSRVLEEALLQA 370 (647)
T ss_dssp ---CGGGEEEEESSGGGHHHHHHHHHHT
T ss_pred ---CCCCEEEEEECCHHHHHHHHHHHHC
T ss_conf ---8067899984744399999999977
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=230.33 Aligned_cols=240 Identities=19% Similarity=0.178 Sum_probs=130.6
Q ss_pred CCCCEEEEECCCCCCHHHHHHHHH-HCCCCCEEEECCCCCCCCCCCCCC----C--CCCCCCCCHHHHHHHCC-------
Q ss_conf 896799998689999468978777-319883999726899884031432----0--00277533899975148-------
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQ-LAGINHAVLIGDECQLPAMVESKI----S--DEAGFGRSLFERLTSLN------- 654 (1825)
Q Consensus 589 ~~fD~VIIDEAaQi~E~esLIPL~-l~~~kkiVLVGDpkQLPPtV~S~~----a--~~~gl~~SLFERL~~~g------- 654 (1825)
.++|++|||||+++....+...+. ++...++||+||+.||||+..+.. . ...++..+.++++....
T Consensus 261 l~~d~lIIDEAsml~~~~~~~Ll~~l~~~~~liLvGD~~QL~~V~~G~vl~dl~~~~~~g~~~~~~~~l~~~~~~~~~~~ 340 (608)
T 1w36_D 261 LHLDVLVVDEASMIDLPMMSRLIDALPDHARVIFLGDRDQLASVEAGAVLGDICAYANAGFTAERARQLSRLTGTHVPAG 340 (608)
T ss_dssp CSCSEEEECSGGGCBHHHHHHHHHTCCTTCEEEEEECTTSGGGTSTTBCHHHHGGGGTTCCCHHHHHHHHHHSSSCCCCC
T ss_pred CCCCEEEEECHHHCCHHHHHHHHHHCCCCCEEEEECCHHHCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCC
T ss_conf 77999999452508999999999848889889997660445887898079999987753666788999987317543432
Q ss_pred ----CC-----CEECCCCCCCCCC--CCCCCCHHCCCCCCCCC--------CCCC------CCC-----------CHHC-
Q ss_conf ----87-----2311002255855--66664100012433567--------6445------620-----------0000-
Q 000228 655 ----HS-----KHLLNIQYRMHPS--ISLFPNLQFYRNQILDG--------ANVK------SKS-----------YEKQ- 697 (1825)
Q Consensus 655 ----~~-----~~~L~~QYRMhP~--Is~fpNk~FY~gkL~d~--------~sv~------~~~-----------~~~~- 697 (1825)
.+ ...|+++||+++. |..+++.. ..|..... .++. ... |...
T Consensus 341 ~~~~~~~~~~~~~~L~~~~R~~~~s~I~~la~~i-~~g~~~~~~~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~l 419 (608)
T 1w36_D 341 TGTEAASLRDSLCLLQKSYRFGSDSGIGQLAAAI-NRGDKTAVKTVFQQDFTDIEKRLLQSGEDYIAMLEEALAGYGRYL 419 (608)
T ss_dssp STTTTHHHHTTEEECCCCCCSSCCTTHHHHHHHH-TSCHHHHHTTTSGGGCCSSBCCBCCSTTTHHHHHHHHHHHTHHHH
T ss_pred CCCCCCCCCCCEEECCEEEEECCCCHHHHHHHHH-HCCCCHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHHHHHHHHHH
T ss_conf 1123554446277622545207843599999998-658815689985478886599726886789999999999999999
Q ss_pred ------CCCCCC---CCCEEEE-EECCCCCCCCCCCCCCH---------------HHHH-HHHHHHHHHHHHHCCCCCCC
Q ss_conf ------124898---8825999-80587223445666779---------------9999-99999999999411898984
Q 000228 698 ------YLTGTE---FGTYSFI-NIIGGREDFIYHSCRNI---------------VEVS-AVIKILQKLYKAWVGSKQKV 751 (1825)
Q Consensus 698 ------~l~~~~---~~p~~FI-dV~~G~Ee~~~~S~~N~---------------~EA~-~V~~lV~~Llk~~~~~~~~~ 751 (1825)
..+... +..+..+ ....|.- +....|. .+.. .+-+-|.............+
T Consensus 420 ~~~~~~~~~~~~~~~~~~~~vL~~~~~g~~---gv~~lN~~i~~~l~~~~~~~~~~~~~~~~Gd~Vm~~~Nd~~~gl~NG 496 (608)
T 1w36_D 420 DLLQARAEPDLIIQAFNEYQLLCALREGPF---GVAGLNERIEQFMQQKRKIHRHPHSRWYEGRPVMIARNDSALGLFNG 496 (608)
T ss_dssp HHHHTCCCSSTTHHHHTTEEEEESCSSSSS---SHHHHHHHHHGGGTSCC------------------------------
T ss_pred HHHHCCCCHHHHHHHHHHHHHHCCCCCCCH---HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEECHHHCCCCC
T ss_conf 986512488999889866553277468836---69999999999838567655466665428972367555614336379
Q ss_pred EEEEEEECHHHHHHHHHHHCH------HHC---CCCCCCEEECCCCCCCCCEEEEEEEEEEECCCCCCCCCCCCCCCCEE
Q ss_conf 099992048999999999601------103---89998189914558988400399999321279997556899871000
Q 000228 752 SIGVVSPYTAQVVAIRKKIGF------EYE---NKDGFTVKVKSIDGFQGGEEDIIIISTVRCNTGGSIGFISKPQRVNV 822 (1825)
Q Consensus 752 sIgIISPY~AQv~~Ik~~L~k------~~~---~~~~~~I~V~TVD~FQG~EkDIVILS~VRSn~~g~iGFL~d~rRLNV 822 (1825)
+||+|.+...+ ++-.+.. .+. -.......+.|||++||.|+|.||+....... ...+++.+||
T Consensus 497 diG~V~~~~~~---l~v~f~~~dg~~~~~~~~~l~~l~~~~a~TihksqG~e~~~v~~~~~~~~~-----~~~~~~~~Yv 568 (608)
T 1w36_D 497 DIGIALDRGQG---TRVWFAMPDGNIKSVQPSRLPEHETTWAMTVHKSQGSEFDHAALILPSQRT-----PVVTRELVYT 568 (608)
T ss_dssp -----------------------------CCSCCCSCSSCSEEETTTTTTCCBSEEEEECCSSCC-----SSSCHHHHHH
T ss_pred CEEEEEECCCE---EEEEEECCCCCEEEECHHHCCCCCEEEEEEEEECCCCCCCEEEEEECCCCC-----CHHHHHHHHH
T ss_conf 76999973881---799998899958995657777624489998781364348869999189866-----1334223773
Q ss_pred ECCCCCCCEEEEECHHHH
Q ss_conf 011012327999200122
Q 000228 823 ALTRARHCLWILGSERTL 840 (1825)
Q Consensus 823 ALTRAR~~LiIIGn~~tL 840 (1825)
|+||||+.++++|+...|
T Consensus 569 a~tRa~~~l~l~~~~~~l 586 (608)
T 1w36_D 569 AVTRARRRLSLYADERIL 586 (608)
T ss_dssp HHTTBSSCEEEECCTTHH
T ss_pred HHHHHHCEEEEEECHHHH
T ss_conf 160443668999888999
No 8
>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=229.53 Aligned_cols=157 Identities=15% Similarity=0.088 Sum_probs=105.7
Q ss_pred CCCCEEEEECCCCCCHHHHHHHHHHCC-CCCEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHC--CCCCEECCCCCC
Q ss_conf 896799998689999468978777319-88399972689988403143200027753389997514--887231100225
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL--NHSKHLLNIQYR 665 (1825)
Q Consensus 589 ~~fD~VIIDEAaQi~E~esLIPL~l~~-~kkiVLVGDpkQLPPtV~S~~a~~~gl~~SLFERL~~~--g~~~~~L~~QYR 665 (1825)
..|++|+|||+++++..+..+.-.+.+ ..++++|||+.|... ...|-+...|.++... +...+.|..|||
T Consensus 215 ~rf~~IlVDEfQDtn~~Q~~ll~~L~~~~~~l~vVGD~~QsIY-------~fRGA~~~~~~~f~~~~~~~~~i~L~~NyR 287 (724)
T 1pjr_A 215 YKFQYIHIDEYQDTNRAQYTLVKKLAERFQNICAVGDADQSIY-------RWRGADIQNILSFERDYPNAKVILLEQNYR 287 (724)
T ss_dssp HHCSEEEESSGGGCCHHHHHHHHHHHTTTCCEEEEECGGGCCC-------GGGTCCTHHHHTHHHHSTTCEEEEECBCSS
T ss_pred HHCCEEEEEHHHCCCHHHHHHHHHHHCCCCEEEEEECCHHHCC-------CCCCCCHHHHHHHHHHCCCCCEEECCCCCC
T ss_conf 6398999876760899999999999768986999978066244-------245889899999998779981998998789
Q ss_pred CCCCCCCCCCHHCCCCCCCCCCCCCCCCCHHCCCCCCCCCCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf 58556666410001243356764456200000124898882599980587223445666779999999999999999411
Q 000228 666 MHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKLYKAWV 745 (1825)
Q Consensus 666 MhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~Ee~~~~S~~N~~EA~~V~~lV~~Llk~~~ 745 (1825)
+++.|..++|..+.++.-...... +.......++.++... ....|+..|++.+..+.....
T Consensus 288 St~~Il~~an~li~~n~~~~~k~l--------~~~~~~g~~i~~~~~~-----------~~~~Ea~~va~~I~~l~~~~g 348 (724)
T 1pjr_A 288 STKRILQAANEVIEHNVNRKPKRI--------WTENPEGKPILYYEAM-----------NEADEAQFVAGRIREAVERGE 348 (724)
T ss_dssp SCHHHHHHHHHHHTTCSSCCCCCC--------BCSSCCCCCEEEEEEE-----------EHHHHHHHHHHHHHHHHTTTS
T ss_pred CCHHHHHHHHHHHHHCCCCCCCCC--------CCCCCCCCCEEEEECC-----------CHHHHHHHHHHHHHHHHHHCC
T ss_conf 978999999999985734467656--------6656899954999559-----------879999999999999998269
Q ss_pred CCCCCCEEEEEEECHHHHHHHHHHHCHH
Q ss_conf 8989840999920489999999996011
Q 000228 746 GSKQKVSIGVVSPYTAQVVAIRKKIGFE 773 (1825)
Q Consensus 746 ~~~~~~sIgIISPY~AQv~~Ik~~L~k~ 773 (1825)
....+|+||+|.++|...+.+.|.+.
T Consensus 349 --~~~~diAIL~R~~~~~~~le~~L~~~ 374 (724)
T 1pjr_A 349 --RRYRDFAVLYRTNAQSRVMEEMLLKA 374 (724)
T ss_dssp --CCGGGEEEEESSGGGHHHHHHHHHHT
T ss_pred --CCHHHEEEEEECCHHHHHHHHHHHHC
T ss_conf --98446356430521489999999875
No 9
>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=224.65 Aligned_cols=72 Identities=22% Similarity=0.269 Sum_probs=61.9
Q ss_pred CCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEECCCHHHHHHHHHHH
Q ss_conf 8999999999999984430147889973999957999836999999999997499-3899857769999999999
Q 000228 253 FSSTLNESQVGAMLACLRRLDCGHRSGVELIWGPPGTGKTKTVSMLLLTLLRIKC-RTLACTPTNVAITELASRV 326 (1825)
Q Consensus 253 ~s~~LNeSQ~eAV~saLsa~~c~~~~~IsLIqGPPGTGKTkTIaaLI~~LLk~g~-RILVCAPTN~AVDeIaeRL 326 (1825)
...+||+.|++|+..++..+.. ..+..+|.||||||||+++..++..+...+. +|+++||||.|++++.+++
T Consensus 22 ~~~~Ln~~Q~~av~~~~~~i~~--~~~~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~T~~Aa~~l~~~~ 94 (459)
T 3upu_A 22 TFDDLTEGQKNAFNIVMKAIKE--KKHHVTINGPAGTGATTLTKFIIEALISTGETGIILAAPTHAAKKILSKLS 94 (459)
T ss_dssp CSSCCCHHHHHHHHHHHHHHHS--SSCEEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEESSHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHHHHHHHC--CCCEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHH
T ss_conf 6234899999999999998736--897799996999989999999999998649960999667578999887661
No 10
>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=219.40 Aligned_cols=156 Identities=14% Similarity=0.034 Sum_probs=105.7
Q ss_pred CCCCEEEEECCCCCCHHHHHHHHHHCC-CCCEEEECCCCCCCCCCCCCCCCCCCCCCCHHHHHHHC--CCCCEECCCCCC
Q ss_conf 896799998689999468978777319-88399972689988403143200027753389997514--887231100225
Q 000228 589 KPLNFLVIDEAAQLKESESTIPLQLAG-INHAVLIGDECQLPAMVESKISDEAGFGRSLFERLTSL--NHSKHLLNIQYR 665 (1825)
Q Consensus 589 ~~fD~VIIDEAaQi~E~esLIPL~l~~-~kkiVLVGDpkQLPPtV~S~~a~~~gl~~SLFERL~~~--g~~~~~L~~QYR 665 (1825)
..|++|+|||+++.++.+.-+.-.+.+ ..++++|||+.|... ...|-....|.++... +...+.|+.+||
T Consensus 206 ~~~~~ilVDEfQDt~~~Q~~ll~~L~~~~~~l~~vGD~~QsIy-------~frga~~~~~~~~~~~~~~~~~~~L~~nyR 278 (673)
T 1uaa_A 206 NKIRYLLVDEYQDTNTSQYELVKLLVGSRARFTVVGDDDQSIY-------SWRGARPQNLVLLSQDFPALKVIKLEQNYR 278 (673)
T ss_dssp TTCSEEEESCGGGCBHHHHHHHHHHHTTTCCEEEECCGGGCCC-------GGGTBCTTHHHHHHHHSTTCEEECCCCBSS
T ss_pred HHCCEEEEECCCCCCHHHHHHHHHHHCCCCEEEEEECCHHHHH-------HCCCCCHHHHHHHHHHCCCCEEEECCCCCC
T ss_conf 3086899866001898799999999668985999817526554-------505998899999998689981997887889
Q ss_pred CCCCCCCCCCHHCCCCCCCCCCCCCCCCCHHCCCCCCCCCCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHH-HHH
Q ss_conf 5855666641000124335676445620000012489888259998058722344566677999999999999999-941
Q 000228 666 MHPSISLFPNLQFYRNQILDGANVKSKSYEKQYLTGTEFGTYSFINIIGGREDFIYHSCRNIVEVSAVIKILQKLY-KAW 744 (1825)
Q Consensus 666 MhP~Is~fpNk~FY~gkL~d~~sv~~~~~~~~~l~~~~~~p~~FIdV~~G~Ee~~~~S~~N~~EA~~V~~lV~~Ll-k~~ 744 (1825)
+++.|..++|..|..+.-...... +.......++.++... ....|+..|++.+..+. ..+
T Consensus 279 s~~~I~~~an~~~~~~~~~~~~~l--------~~~~~~g~~i~~~~~~-----------~~~~e~~~va~~I~~l~~~~g 339 (673)
T 1uaa_A 279 SSGRILKAANILIANNPHVFEKRL--------FSELGYGAELKVLSAN-----------NEEHEAERVTGELIAHHFVNK 339 (673)
T ss_dssp SCHHHHHHHHHHHHTSCCSSCCCC--------CBSSCCCCCBEEEECS-----------SHHHHHHHHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHHHCHHCCCCCC--------CCCCCCCCCCEEEECC-----------CHHHHHHHHHHHHHHHHHCCC
T ss_conf 983999999999985531146544--------5658889971488469-----------989999999999999886159
Q ss_pred CCCCCCCEEEEEEECHHHHHHHHHHHCHH
Q ss_conf 18989840999920489999999996011
Q 000228 745 VGSKQKVSIGVVSPYTAQVVAIRKKIGFE 773 (1825)
Q Consensus 745 ~~~~~~~sIgIISPY~AQv~~Ik~~L~k~ 773 (1825)
.. ..+|+||+|.++|...+.+.|.+.
T Consensus 340 ~~---~~diaVL~r~~~~~~~l~~~L~~~ 365 (673)
T 1uaa_A 340 TQ---YKDYAILYRGNHQSRVFEKFLMQN 365 (673)
T ss_dssp CC---TTTEEEEESSSGGGTTHHHHHHHT
T ss_pred CC---CCCEEEEEECHHHHHHHHHHHHHC
T ss_conf 98---047899972626489999999777
Done!