Query 000698
Match_columns 1345
No_of_seqs 446 out of 2223
Neff 6.0
Searched_HMMs 29240
Date Tue Mar 26 16:58:23 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000698.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_469-473//hhsearch_pdb/000698hhsearch_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 1 804.1 57.4 575 726-1344 2-635 (646)
2 2gk6_A Regulator of nonsense t 1.0 1 1 595.9 54.4 551 729-1345 10-610 (624)
3 2xzl_A ATP-dependent helicase 1.0 1 1 594.6 53.7 552 728-1345 187-788 (802)
4 2wjy_A Regulator of nonsense t 1.0 1 1 588.0 56.8 550 729-1344 186-785 (800)
5 3lfu_A DNA helicase II; SF1 he 1.0 1 1 294.5 26.6 353 942-1335 7-638 (647)
6 1pjr_A PCRA; DNA repair, DNA r 1.0 1 1 277.6 21.2 210 942-1161 9-304 (724)
7 3e1s_A Exodeoxyribonuclease V, 1.0 1 1 272.3 20.6 310 942-1325 187-545 (574)
8 1uaa_A REP helicase, protein ( 1.0 1 1 269.1 20.5 207 944-1160 2-294 (673)
9 3upu_A ATP-dependent DNA helic 1.0 1 1 257.5 18.4 185 942-1161 23-215 (459)
10 1w36_D RECD, exodeoxyribonucle 1.0 1 1 252.8 17.2 352 946-1324 151-586 (608)
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=804.07 Aligned_cols=575 Identities=28% Similarity=0.397 Sum_probs=474.4
Q ss_pred HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCEEEEEECCCCCCCCCCC
Q ss_conf 6566899999999999999-989977640113688864345521017971564322344577099998233699989888
Q 000698 726 TAHCSFLRHWDRLIDLEAK-EMQVVKNEIWCSRGSGGNHFTGCLSSIVLDASNEHQKSYRDNRFVYHFVRQHMPSPNLNA 804 (1345)
Q Consensus 726 ~~h~~yf~~w~~Li~lE~~-~~~~~~~eiw~~~~~~re~~g~c~~~l~l~~~~~~~~~~~~~~~~y~F~r~~~~~~~~~~ 804 (1345)
.+..+||++|..||.+|++ +++..+..+|+++..+||+.|+|+.+|.+... ..+.+|+++++|.+.+....
T Consensus 2 ~~~~~~~~~~~~Ll~~E~~~e~~~~~~~~~~~~~~~~~~~G~~~~~l~~~~~----~~~~~g~~~~~~~~~~~~~~---- 73 (646)
T 4b3f_X 2 AAVESFVTKQLDLLELERDAEVEERRSWQENISLKELQSRGVCLLKLQVSSQ----RTGLYGRLLVTFEPRRYGSA---- 73 (646)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSSCHHHHGGGTSEEEEEEEEEE----EECSSSCEEEEEEESCC-------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHCCCEECCEEEEEE----EECCCCEEEEEEEECCCCCC----
T ss_conf 1189999999999999999999999999862999999967960326488888----96579859999983577887----
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCC-CEEEEEEEEEEECEEEEEEECCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf 9998643445789888778789988999517985-204799999982338999940687899999986534335403899
Q 000698 805 SDGDSLIGAAIPTKDMDCTLRSGDYVILSTESDR-LAVASGLITEISRFHVSVSFSKPLRLPGRNSSSDADSLLHEVWRI 883 (1345)
Q Consensus 805 ~~~~~~~~~~~~~~~~~~~l~~GD~V~iS~e~~~-~~~~~G~V~~i~~~~I~V~~~~~l~~p~~~~~~~~~~~~~~~~ri 883 (1345)
.....+.|++||+|+|++..+. ..++.|+|.+++.+.|+|++++....... ......|++
T Consensus 74 ------------~~l~~~~~~~Gd~v~~~~~~~~~~~~~~g~v~~~~~~~i~v~~~~~~~~~~~-------~~~~~~~~~ 134 (646)
T 4b3f_X 74 ------------AALPSNSFTSGDIVGLYDAANEGSQLATGILTRVTQKSVTVAFDESHDFQLS-------LDRENSYRL 134 (646)
T ss_dssp ------------CCCCCCCCCTTCEEEEEETTTTSCCCEEEEEEEEETTEEEEECC-------C-------CCSSCCEEE
T ss_pred ------------CCCCCCCCCCCCEEEEEECCCCCCCEEEEEEEEEECCEEEEEECCCCCCCCC-------CCCCCCEEE
T ss_conf ------------7786678998998999966899871489999999499999998886533335-------578984799
Q ss_pred ECCCCHHHHHHHHHHHHHHHHH-CCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCE
Q ss_conf 4354202589999999999850-332166787531578986578997778965410102899999999999999914990
Q 000698 884 DKDEIMTSFSVMRYNLVQLFLQ-SAQSSQLRRMIVDLEAPRFDSGSVFSQDPALSYIWSEKSLNDDQRRAIIKVLTAKDY 962 (1345)
Q Consensus 884 Dkde~~~~~~~~r~nL~~L~~~-~~~~~~lr~liid~~~P~f~~~~~~~~~~~~~~~~~~~~LN~eQ~~AI~~~l~a~d~ 962 (1345)
++..+..+|.++..+|..|... ......+++++++..+|.+.... ..+ .+....||++|++||..++.++++
T Consensus 135 ~~~~~~~~~~r~~~al~~l~~~~~~~~~~l~~~l~~~~~p~~~~~~-----~~~--~~~~~~LN~~Q~~AV~~al~~~~~ 207 (646)
T 4b3f_X 135 LKLANDVTYRRLKKALIALKKYHSGPASSLIEVLFGRSAPSPASEI-----HPL--TFFNTCLDTSQKEAVLFALSQKEL 207 (646)
T ss_dssp EEECCHHHHHHHHHHHHHHHTCCSSTTHHHHHHHTTSSCCCCCCCC-----CCC--CCSSTTCCHHHHHHHHHHHHCSSE
T ss_pred EEECCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCC-----CCC--CCCCCCCCHHHHHHHHHHHCCCCC
T ss_conf 9806606899999999985212467257799987499999976555-----765--325788899999999999658996
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHHCCCCC----
Q ss_conf 9999259997589999999999816994999946689999999998516985899701201258888753100120----
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEVVHKEIQKHCLSAMNI---- 1038 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Lv~~gkkVLitA~TnsAVDnLl~kL~~~~i~ilRiG~~~~i~~~i~~~~l~~~~~---- 1038 (1345)
++|+||||||||+|++++|..++.+|++||+|||||.|||++++||...+.+++|+|++.++.+.+..+++.....
T Consensus 208 ~lI~GPPGTGKT~ti~~~I~~l~~~~~~ILv~a~TN~AvD~i~erL~~~~~~ilRlG~~~r~~~~~~~~~l~~~~~~~~~ 287 (646)
T 4b3f_X 208 AIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNIAVDNLVERLALCKQRILRLGHPARLLESIQQHSLDAVLARSDS 287 (646)
T ss_dssp EEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHHHTTCCEEECSCCSSCCHHHHTTBHHHHHTTTTC
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHHHHHHHHHCHH
T ss_conf 59988999888999999999998489829999185188879999998627765882365652025543018889850417
Q ss_pred -C------------------------------CH------------HHHHHHHCCCCEEEEEECCCCCC----CCCCCCC
Q ss_conf -2------------------------------09------------99999621361999972365665----5568997
Q 000698 1039 -N------------------------------SV------------EEIKKRLDQVKVVAVTCLGITNP----LLTDKKF 1071 (1345)
Q Consensus 1039 -~------------------------------s~------------~~lk~~l~~~~VV~tT~~~~~~~----ll~~~~F 1071 (1345)
. .+ ....+.+..++++++||.++... .+....|
T Consensus 288 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~l~~~~vv~~t~~~a~~~~~~~~~~~~~F 367 (646)
T 4b3f_X 288 AQIVADIRKDIDQVFVKNKKTQDKREKSNFRNEIKLLRKELKEREEAAMLESLTSANVVLATNTGASADGPLKLLPESYF 367 (646)
T ss_dssp SSTHHHHHHHHTTSSTTTTC------CCSSHHHHHHHHHHHHHHHHHHHHHHHHHCSEEEEETTTTCSSSGGGGSCTTCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCEEEEEHHHHHHHHHHHHHHHCCC
T ss_conf 88999999888999986343223788877788999999999888888889887633542222012223358876431268
Q ss_pred CEEEEECCCCCCHHHHHHHHCCCCEEEEECCCCCCCCCCCCHHHHHCCCCCHHHHHHHHHCCCC-EECCCCCCCCCHHHH
Q ss_conf 8999957999997887610003696999758777896546637876399513999999828943-001222345862489
Q 000698 1072 DVCIMDEAGQTTLPVSLGPLMFASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQA-ISALQSQYRMCQGIM 1150 (1345)
Q Consensus 1072 D~VIIDEASQitep~~L~pL~~a~klVLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~~~~-v~~L~~QYRM~~~I~ 1150 (1345)
|+||||||+|+++|.+|+|+..++++||||||+||||++.+..+.+.|++.|+|+||.+.++.. +..|++|||||++|+
T Consensus 368 d~vIIDEAsQ~~e~~~lipL~~~~~~ILVGD~~QLpP~v~~~~a~~~gl~~SlferL~~~~~~~~v~~L~~qYRmhp~I~ 447 (646)
T 4b3f_X 368 DVVVIDECAQALEASCWIPLLKARKCILAGDHKQLPPTTVSHKAALAGLSLSLMERLAEEYGARVVRTLTVQYRMHQAIM 447 (646)
T ss_dssp SEEEETTGGGSCHHHHTTTGGGSSEEEEEECTTSCCCCCSCHHHHHTTTTCCHHHHHHHHHGGGTEEECCEESSSCHHHH
T ss_pred CEEEECCCCCCCHHHHHHHCCCCCEEEECCCCCCCCCEECCHHHHHCCCCCHHHHHHHHHCCCCEEEECCCCCCCCHHHH
T ss_conf 88997175444557887520355428970786556850124366660541129999998669861553520127768888
Q ss_pred HHHHHHHHCCCCCCCCHHHHHHHCCCCCCCCCCHHHHHHCCCCCCEEEEECCCCCCC--CCCCCCCCCCHHHHHHHHHHH
Q ss_conf 999996508957888545542110036788985355520299987899948998100--024667778999999999999
Q 000698 1151 ELSNALIYGDRLSCGSDEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAY--EAKDHQTLNNPVEACLIAKIT 1228 (1345)
Q Consensus 1151 ~laN~liY~g~L~~~~~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidt~~~~~~--e~~~~~s~~N~~EA~lV~~lv 1228 (1345)
.|+|.+||+|+|.++..........++ +.........|++|+|+.+.... +...+.++.|..||.+|..++
T Consensus 448 ~f~n~~fY~g~L~~~~~~~~~~~~~lp-------~~~~~~~~~~p~~f~d~~g~~~~~~~~~~~~s~~N~~EA~~V~~~v 520 (646)
T 4b3f_X 448 RWASDTMYLGQLTAHSSVARHLLRDLP-------GVAATEETGVPLLLVDTAGCGLFELEEEDEQSKGNPGEVRLVSLHI 520 (646)
T ss_dssp HHHHHHHSTTCCEECTTTTTCCGGGST-------TCCCCTTTTCSEEEEECTTSSCCCCC-----CCCCHHHHHHHHHHH
T ss_pred HHHHHHHCCCCCCCCCCHHHHHHCCCC-------CCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCHHHHHHHHHHH
T ss_conf 655776318845458406655420366-------6666645688527885488764322026886646789999999999
Q ss_pred HHHHHCCCCCCCEEEEECCHHHHHHHHHHCCC--CCCEEEECCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHH
Q ss_conf 99998799998399993376889999977288--9709990537546544789998258899988765655464112457
Q 000698 1229 QELVKNEIEGKDIGIITPYNSQANLIRHSLSV--SSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINV 1306 (1345)
Q Consensus 1229 ~~Ll~~Gv~~~dIgVITPYraQv~lLr~~L~~--~~VeV~TVDkfQGrEkdvVIIS~vrSn~~~~~~~~~fL~d~rRLNV 1306 (1345)
+.|++.|+++++|||||||++|+.+|++.+.. .+++|.|||+|||+|+|+||+|+||+|... ..|||.|+||+||
T Consensus 521 ~~L~~~gv~~~dIgVItpYraQ~~~l~~~l~~~~~~i~v~TVd~fQG~E~dvII~S~vrsn~~~---~iGFl~~~rRlNV 597 (646)
T 4b3f_X 521 QALVDAGVPARDIAVVSPYNLQVDLLRQSLVHRHPELEIKSVDGFQGREKEAVILSFVRSNRKG---EVGFLAEDRRINV 597 (646)
T ss_dssp HHHHHHTCCGGGEEEEESCHHHHHHHHHHHTTTCTTCEEEEGGGGTTCCEEEEEEECCCCCTTC---CCCSTTCHHHHHH
T ss_pred HHHHHCCCCCCCEEEECCCHHHHHHHHHHHHHHCCCCEECCHHHCCCCCCCEEEEEECCCCCCC---CCCCCCCCCCEEE
T ss_conf 9999669896849998997999999999999759997987843166454788999950679999---9664489684872
Q ss_pred HHHHCCCCEEEEEECCHHCCCHHHHHHHHHHHHCCCCC
Q ss_conf 64110244699962410116705999999997127867
Q 000698 1307 ALTRAKKKLIMVGSCRTLSKVPLLKLLINKVGEQSGIL 1344 (1345)
Q Consensus 1307 AlTRAK~kLIIVGs~~tL~~~~~~~~li~~~~~~~~i~ 1344 (1345)
|+||||++||||||..+|+.+++|+.|++|++++|++.
T Consensus 598 AlTRAk~~liivGn~~~l~~~~~~~~li~~~~~~g~~~ 635 (646)
T 4b3f_X 598 AVTRARRHVAVICDSRTVNNHAFLKTLVEYFTQHGEVR 635 (646)
T ss_dssp HHHTEEEEEEEEECHHHHTTSHHHHHHHHHHHHSSEEE
T ss_pred EHHHHHCEEEEEECHHHHCCCHHHHHHHHHHHHCCCEE
T ss_conf 74566180899972689647879999999999879896
No 2
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD, hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A* 2gk7_A 2xzo_A* 2xzp_A
Probab=1.00 E-value=1 Score=595.89 Aligned_cols=551 Identities=28% Similarity=0.398 Sum_probs=411.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCC
Q ss_conf 68999999999999999899776401136888643455210179715643223445770999982336999898889998
Q 000698 729 CSFLRHWDRLIDLEAKEMQVVKNEIWCSRGSGGNHFTGCLSSIVLDASNEHQKSYRDNRFVYHFVRQHMPSPNLNASDGD 808 (1345)
Q Consensus 729 ~~yf~~w~~Li~lE~~~~~~~~~eiw~~~~~~re~~g~c~~~l~l~~~~~~~~~~~~~~~~y~F~r~~~~~~~~~~~~~~ 808 (1345)
.+|+++|..||.+|+...... .+... ..++.+... .+..++++..|.... .
T Consensus 10 ~~y~~~~~~ll~~E~~~~~~~-~~~~~------------~~~~~~~~~-----~~~~~~~~~~~~~~~---~-------- 60 (624)
T 2gk6_A 10 YQYQNIFGPLVKLEADYDKKL-KESQT------------QDNITVRWD-----LGLNKKRIAYFTLPK---T-------- 60 (624)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-HHHTC------------EEEECEEEE-----ECTTSCEEEEEECC-------------
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHH------------CCCCEEEEE-----ECCCCCEEEEEEECC---C--------
T ss_conf 999999999999999997888-76540------------458258766-----347881699997064---3--------
Q ss_pred CCCCCCCCCCCCCCCCCCCCEEEEEECCC--CCEEEEEEEEEEEC---EEEEEEECCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf 64344578988877878998899951798--52047999999823---38999940687899999986534335403899
Q 000698 809 SLIGAAIPTKDMDCTLRSGDYVILSTESD--RLAVASGLITEISR---FHVSVSFSKPLRLPGRNSSSDADSLLHEVWRI 883 (1345)
Q Consensus 809 ~~~~~~~~~~~~~~~l~~GD~V~iS~e~~--~~~~~~G~V~~i~~---~~I~V~~~~~l~~p~~~~~~~~~~~~~~~~ri 883 (1345)
..+++|..||.|+++..+. ....+.|+|.++.. +.|+|.++.....|.. ....|++
T Consensus 61 ----------~~~~~~~~Gd~v~l~~~~~~~~~~~~~g~v~~~~~~~~~~v~v~~~~~~~~~~~---------~~~~~~~ 121 (624)
T 2gk6_A 61 ----------DSDMRLMQGDEICLRYKGDLAPLWKGIGHVIKVPDNYGDEIAIELRSSVGAPVE---------VTHNFQV 121 (624)
T ss_dssp ---------------CCTTCEEEEEECSSSSCCCEEEEEEEECSCSSCSEEEEEESCCTTCCCS---------CCSSEEE
T ss_pred ----------CCCCCCCCCCEEEEEECCCCCCCCEEEEEEEEECCCCCCEEEEEECCCCCCCCC---------CCCCEEE
T ss_conf ----------357968999989999788888874789999996477887899998268888633---------5665589
Q ss_pred ECCCCHHHHHHHHHHHHHHHHHC-CCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCE
Q ss_conf 43542025899999999998503-32166787531578986578997778965410102899999999999999914990
Q 000698 884 DKDEIMTSFSVMRYNLVQLFLQS-AQSSQLRRMIVDLEAPRFDSGSVFSQDPALSYIWSEKSLNDDQRRAIIKVLTAKDY 962 (1345)
Q Consensus 884 Dkde~~~~~~~~r~nL~~L~~~~-~~~~~lr~liid~~~P~f~~~~~~~~~~~~~~~~~~~~LN~eQ~~AI~~~l~a~d~ 962 (1345)
+.....+++.++..+|..+.... .....++..+++...|........+.. +. ......||++|++|+..++. .++
T Consensus 122 ~~~~~~~~~~r~~~al~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~~~~~~--~~-~~~~~~ln~~Q~~av~~~l~-~~~ 197 (624)
T 2gk6_A 122 DFVWKSTSFDRMQSALKTFAVDETSVSGYIYHKLLGHEVEDVIIKCQLPKR--FT-AQGLPDLNHSQVYAVKTVLQ-RPL 197 (624)
T ss_dssp EECCCCHHHHHHHHHHHHHHHCTTSBCSHHHHHHTTCCCCCCCCCCCCCSC--CS-CTTSCCCCHHHHHHHHHHHT-CSE
T ss_pred EEEECCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCC--CC-CCCCCCCCHHHHHHHHHHHC-CCC
T ss_conf 999577269999999999876045512778998618887642124567521--25-44567899999999999962-897
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHH-CCCEEEEEECCHHHHHHHHHHHHHCCCCEEEECCCCH-----------HHHHHH-
Q ss_conf 999925999758999999999981-6994999946689999999998516985899701201-----------258888-
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLM-RGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEV-----------VHKEIQ- 1029 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Lv~-~gkkVLitA~TnsAVDnLl~kL~~~~i~ilRiG~~~~-----------i~~~i~- 1029 (1345)
.+|+||||||||+|+++++..++. .+.+||+|||||.|+|++.+++.+.+++++|+|+..+ ++..+.
T Consensus 198 ~li~GppGTGKT~~~~~~i~~l~~~~~~~ilv~a~tn~A~~~l~~~l~~~~~~~~R~~~~~r~~~~~~~~~~tl~~~~~~ 277 (624)
T 2gk6_A 198 SLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRLCAKSREAIDSPVSFLALHNQIRN 277 (624)
T ss_dssp EEEECCTTSCHHHHHHHHHHHHHTSSSCCEEEEESSHHHHHHHHHHHHTTTCCEEECCCTGGGSCCCTTTTTBHHHHHTS
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHCCCEEEEECCCCCHHHCCCHHHHHHHHHHHH
T ss_conf 69989999878999999999999748980999927189999999999861975896053220111130456659999980
Q ss_pred --------HHH-HC--CCCC-----CCHHH-----HHHHHCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCCHHHHH
Q ss_conf --------753-10--0120-----20999-----999621361999972365665556899789999579999978876
Q 000698 1030 --------KHC-LS--AMNI-----NSVEE-----IKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSL 1088 (1345)
Q Consensus 1030 --------~~~-l~--~~~~-----~s~~~-----lk~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIIDEASQitep~~L 1088 (1345)
+.. +. .... ..+.. ....+..++||++||.++.++.+....||+||||||+|+++|+++
T Consensus 278 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~vI~~T~~~~~~~~l~~~~fd~viIDEAsQ~~e~~~l 357 (624)
T 2gk6_A 278 MDSMPELQKLQQLKDETGELSSADEKRYRALKRTAERELLMNADVICCTCVGAGDPRLAKMQFRSILIDESTQATEPECM 357 (624)
T ss_dssp CSSCHHHHHHHTTCC----CCHHHHHHHHHHHHHHHHHHHHTCSEEEEETGGGGCGGGTTCCCSEEEETTGGGSCHHHHH
T ss_pred CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCHHHCCHHHHCCCCCEEEEECCCCCCCHHHH
T ss_conf 52369999999998764213777899999999988999871499999927011514664679887999630146758999
Q ss_pred HHHCC-CCEEEEECCCCCCCCCCCCHHHHHCCCCCHHHHHHHHHCCCCEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCH
Q ss_conf 10003-69699975877789654663787639951399999982894300122234586248999999650895788854
Q 000698 1089 GPLMF-ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLSCGSD 1167 (1345)
Q Consensus 1089 ~pL~~-a~klVLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~~~~v~~L~~QYRM~~~I~~laN~liY~g~L~~~~~ 1167 (1345)
.++.. ++++||||||+||||++.+..+...|++.|+|++|...... ...|++||||+++|++|+|.+||+|+|.++..
T Consensus 358 i~l~~~~~~~ilvGD~~QL~p~v~~~~~~~~gl~~Slferl~~~~~~-~~~L~~qYR~~~~I~~~~n~~fY~~~L~~~~~ 436 (624)
T 2gk6_A 358 VPVVLGAKQLILVGDHCQLGPVVMCKKAAKAGLSQSLFERLVVLGIR-PIRLQVQYRMHPALSAFPSNIFYEGSLQNGVT 436 (624)
T ss_dssp HHHTTTBSEEEEEECTTSCCCCCSCHHHHHHTTTSCHHHHHHHTTCC-CEECCEECSSCHHHHHHHHHHHSTTCCEESSC
T ss_pred HHHHHCCCEEEEECCHHCCCCEEECHHHHHCCCCHHHHHHHHHCCCC-CEEEHHHHCCCHHHHHHHHHHHCCCCCCCCCC
T ss_conf 99984687499916701069852048888758745699999866999-27830230768458765488655764656886
Q ss_pred HHHHHHCCCCCCCCCCHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECC
Q ss_conf 55421100367889853555202999878999489981000246677789999999999999999879999839999337
Q 000698 1168 EIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITPY 1247 (1345)
Q Consensus 1168 ~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidt~~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~Gv~~~dIgVITPY 1247 (1345)
.. .+... .....| ..+..|++|+++.+.+.. ...+.++.|..||..|..++..+++.|+.+++|||||||
T Consensus 437 ~~-~r~~~----~~~~~~----~~~~~p~~~~~~~g~~~~-~~~~~s~~N~~Ea~~v~~~v~~l~~~g~~~~dIgVItpy 506 (624)
T 2gk6_A 437 AA-DRVKK----GFDFQW----PQPDKPMFFYVTQGQEEI-ASSGTSYLNRTEAANVEKITTKLLKAGAKPDQIGIITPY 506 (624)
T ss_dssp TG-GGCCT----TCCCCC----SSTTCCEEEEECCCCEEC-CTTSSCCEEHHHHHHHHHHHHHHHTTTCCGGGEEEECSC
T ss_pred HH-HHCCC----CCCCCC----CCCCCCEEEEECCCCCEE-CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEECCC
T ss_conf 34-41013----567788----899999899985883033-378988528999999999999999759997809998688
Q ss_pred HHHHHHHHHHCCC---------CCCEEEECCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCEEEE
Q ss_conf 6889999977288---------9709990537546544789998258899988765655464112457641102446999
Q 000698 1248 NSQANLIRHSLSV---------SSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMV 1318 (1345)
Q Consensus 1248 raQv~lLr~~L~~---------~~VeV~TVDkfQGrEkdvVIIS~vrSn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIV 1318 (1345)
++|+..|++.+.. ..++|.|||+|||+|+|+||+|+|+++... ..+|+.++||||||+||||++|+||
T Consensus 507 ~~Q~~~i~~~l~~~~~~~~~~~~~v~v~TVd~fQG~E~dvVIls~vrs~~~~---~~gfl~~~~rlnVAlTRAk~~L~iv 583 (624)
T 2gk6_A 507 EGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQ---GIGFLNDPRRLNVALTRARYGVIIV 583 (624)
T ss_dssp HHHHHHHHHHHHHSCSSCHHHHHHSEEECHHHHTTCCEEEEEEEECC---------CCTTTCHHHHHHHTTSEEEEEEEE
T ss_pred HHHHHHHHHHHHHHCCCCCCCCCCEEEECHHHCCCCCCCEEEEEEECCCCCC---CCCCCCCCCEEEEEHHHHHCCEEEE
T ss_conf 9999999999986022320024761893223248860578999950479878---7464588350210344653858999
Q ss_pred EECCHHCCCHHHHHHHHHHHHCCCCCC
Q ss_conf 624101167059999999971278679
Q 000698 1319 GSCRTLSKVPLLKLLINKVGEQSGILN 1345 (1345)
Q Consensus 1319 Gs~~tL~~~~~~~~li~~~~~~~~i~~ 1345 (1345)
|+..+|..++.|+.|+++++++|++++
T Consensus 584 g~~~~l~~~~~~~~li~~~~~~~~~~~ 610 (624)
T 2gk6_A 584 GNPKALSKQPLWNHLLNYYKEQKVLVE 610 (624)
T ss_dssp ECHHHHTTSHHHHHHHHHHHHTTCCCC
T ss_pred ECHHHHCCCHHHHHHHHHHHHCCCEEE
T ss_conf 888997347699999999998798895
No 3
>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=594.57 Aligned_cols=552 Identities=27% Similarity=0.364 Sum_probs=408.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCC
Q ss_conf 66899999999999999989977640113688864345521017971564322344577099998233699989888999
Q 000698 728 HCSFLRHWDRLIDLEAKEMQVVKNEIWCSRGSGGNHFTGCLSSIVLDASNEHQKSYRDNRFVYHFVRQHMPSPNLNASDG 807 (1345)
Q Consensus 728 h~~yf~~w~~Li~lE~~~~~~~~~eiw~~~~~~re~~g~c~~~l~l~~~~~~~~~~~~~~~~y~F~r~~~~~~~~~~~~~ 807 (1345)
..+|++.|..|+.+|+..... ..+.. ++.++.+.- .....++++++|.......
T Consensus 187 ~~~Y~~~~~~ll~lE~~~~~~-~~~~~------------~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~-------- 240 (802)
T 2xzl_A 187 AYEYQRSYGPLIKLEADYDKQ-LKESQ------------ALEHISVSW-----SLALNNRHLASFTLSTFES-------- 240 (802)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-HHCCC--------------CCBCEEE-----EECTTSCEEEEEC--------------
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHH------------HCCCCEEEE-----ECCCCCEEEEEEEECCCCC--------
T ss_conf 999999998999999976223-46676------------444826754-----4067983899998066455--------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCEEEEEECCC--CCEEEEEEEEEEEC---EEEEEEECCCCCC-CCCCCCCCCCCCCCEEE
Q ss_conf 864344578988877878998899951798--52047999999823---3899994068789-99999865343354038
Q 000698 808 DSLIGAAIPTKDMDCTLRSGDYVILSTESD--RLAVASGLITEISR---FHVSVSFSKPLRL-PGRNSSSDADSLLHEVW 881 (1345)
Q Consensus 808 ~~~~~~~~~~~~~~~~l~~GD~V~iS~e~~--~~~~~~G~V~~i~~---~~I~V~~~~~l~~-p~~~~~~~~~~~~~~~~ 881 (1345)
.+..|..||.|+++..+. ....+.|+|.++.. +.|+|.++..... |.. ....|
T Consensus 241 ------------~~~~~~~GD~v~l~~~~~~~~~~~~~g~V~~v~~~~~~~v~v~~~~~~~~~p~~---------~~~~~ 299 (802)
T 2xzl_A 241 ------------NELKVAIGDEMILWYSGMQHPDWEGRGYIVRLPNSFQDTFTLELKPSKTPPPTH---------LTTGF 299 (802)
T ss_dssp ---------------CCCTTCEEEEEECSSSSSCEEEEEEEEECCC---CCEEEEECCCSSCCCTT---------CCSSE
T ss_pred ------------CCCCCCCCCEEEEEECCCCCCCEEEEEEEEEECCCCCCEEEEEEECCCCCCCCC---------CCCCE
T ss_conf ------------789899999899997898889515789999987888878999996788899600---------27774
Q ss_pred EEECCCCHHHHHHHHHHHHHHHHHC-CCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCC
Q ss_conf 9943542025899999999998503-321667875315789865789977789654101028999999999999999149
Q 000698 882 RIDKDEIMTSFSVMRYNLVQLFLQS-AQSSQLRRMIVDLEAPRFDSGSVFSQDPALSYIWSEKSLNDDQRRAIIKVLTAK 960 (1345)
Q Consensus 882 riDkde~~~~~~~~r~nL~~L~~~~-~~~~~lr~liid~~~P~f~~~~~~~~~~~~~~~~~~~~LN~eQ~~AI~~~l~a~ 960 (1345)
+++......++.++..+|..+.... .....+++.+++...|.......++... .......||++|++|+..++. .
T Consensus 300 ~v~~~~~~~~~~r~~~AL~~~~~~~~~~~~~l~~~ll~~~~~~~~~~~~lp~~~---~~~~~~~Ln~~Q~~Av~~~l~-~ 375 (802)
T 2xzl_A 300 TAEFIWKGTSYDRMQDALKKFAIDKKSISGYLYYKILGHQVVDISFDVPLPKEF---SIPNFAQLNSSQSNAVSHVLQ-R 375 (802)
T ss_dssp EEEECCCCHHHHHHHHHHHHHHHCTTSBCHHHHHHHHTCCCCCCCCCCCCCSCC---SCTTSCCCCHHHHHHHHHHTT-C
T ss_pred EEEEEECCCHHHHHHHHHHHHHHCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCC---CCCCCCCCCHHHHHHHHHHHC-C
T ss_conf 899975686189999999998751334036788876077656543465685111---543455689999999999863-9
Q ss_pred CEEEEECCCCCCHHHHHHHHHHHHHH-CCCEEEEEECCHHHHHHHHHHHHHCCCCEEEECCCCH--H---------HHHH
Q ss_conf 90999925999758999999999981-6994999946689999999998516985899701201--2---------5888
Q 000698 961 DYALILGMPGTGKTSTMVHAVKALLM-RGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEV--V---------HKEI 1028 (1345)
Q Consensus 961 d~~LI~GpPGTGKTttIa~lI~~Lv~-~gkkVLitA~TnsAVDnLl~kL~~~~i~ilRiG~~~~--i---------~~~i 1028 (1345)
++.+|+||||||||+|+++++..++. .+.+||++||||.|+|++.+||.+.+++++|+|...+ + +..+
T Consensus 376 ~~~lI~GppGTGKT~~i~~~i~~l~~~~~~~ILv~a~tn~A~d~l~~rL~~~g~~ilR~g~~~r~~i~~~~~~~tl~~~~ 455 (802)
T 2xzl_A 376 PLSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAAKLRDLGLKVVRLTAKSREDVESSVSNLALHNLV 455 (802)
T ss_dssp SEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEESSHHHHHHHHHHHHHTTCCEEECCCGGGTTSCCTTGGGBHHHHH
T ss_pred CCEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHCCCEEEECCCCHHHHCCHHHHHHHHHHH
T ss_conf 97799878997789999999999986799729998485799999999998627507862223222103156564299999
Q ss_pred HHHHH-----------CCC-----CCCCHHH-----HHHHHCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCCHHHH
Q ss_conf 87531-----------001-----2020999-----99962136199997236566555689978999957999997887
Q 000698 1029 QKHCL-----------SAM-----NINSVEE-----IKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS 1087 (1345)
Q Consensus 1029 ~~~~l-----------~~~-----~~~s~~~-----lk~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIIDEASQitep~~ 1087 (1345)
..... ... ....+.. ....+..++||++||.++.++.+.. .||+||||||+|++++++
T Consensus 456 ~~~~~~~l~~l~~~~~~~~~ls~~~~~~~~~~~~~~~~~~l~~a~VI~~T~~~~~~~~L~~-~fd~viIDEA~q~~e~~~ 534 (802)
T 2xzl_A 456 GRGAKGELKNLLKLKDEVGELSASDTKRFVKLVRKTEAEILNKADVVCCTCVGAGDKRLDT-KFRTVLIDESTQASEPEC 534 (802)
T ss_dssp HTTCCTHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHTCSEEEEETTGGGCTTCCS-CCSEEEETTGGGSCHHHH
T ss_pred HHHCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHCCHHHHHC-CCCEEEEECCCCCCHHHH
T ss_conf 8516899999999988644578889988899999999987523999983323317277755-699999988503244789
Q ss_pred HHHHCC-CCEEEEECCCCCCCCCCCCHHHHHCCCCCHHHHHHHHHCCCCEECCCCCCCCCHHHHHHHHHHHHCCCCCCCC
Q ss_conf 610003-6969997587778965466378763995139999998289430012223458624899999965089578885
Q 000698 1088 LGPLMF-ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLSCGS 1166 (1345)
Q Consensus 1088 L~pL~~-a~klVLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~~~~v~~L~~QYRM~~~I~~laN~liY~g~L~~~~ 1166 (1345)
+.++.. ++++||||||+||||++.+..+...|++.|+|+++..... ....|++||||+++|++|+|.+||+|+|.++.
T Consensus 535 li~l~~~~~~lilvGD~~QL~pvv~s~~a~~~gl~~slferl~~~~~-~~~~L~~qYRm~p~I~~f~n~~fY~g~L~~~~ 613 (802)
T 2xzl_A 535 LIPIVKGAKQVILVGDHQQLGPVILERKAADAGLKQSLFERLISLGH-VPIRLEVQYRMNPYLSEFPSNMFYEGSLQNGV 613 (802)
T ss_dssp HHHHTTTBSEEEEEECTTSCCCCCCCHHHHHTTTTCCHHHHHHHTTC-CCEECCEECSSCHHHHHHHHHHHSTTCCEESS
T ss_pred HHHHHHCCCEEEEEECCCCCCCEECHHHHHHCCCCHHHHHHHHHCCC-CCEEEEEECCCCHHHHHHHHHHHCCCCCCCCC
T ss_conf 99998579989998076113871410546565874359999986699-83475200488868999889875288465687
Q ss_pred HHHHHHHCCCCCCCCCCHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEC
Q ss_conf 45542110036788985355520299987899948998100024667778999999999999999987999983999933
Q 000698 1167 DEIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITP 1246 (1345)
Q Consensus 1167 ~~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidt~~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~Gv~~~dIgVITP 1246 (1345)
... .+.+. + ....| ..+..|++|+++.+.+.. ...+.++.|..||..|..++..|++.|+.+++||||||
T Consensus 614 ~~~-~r~~~--~--~~~~~----~~~~~p~~f~~~~g~~~~-~~~~~s~~N~~EA~~V~~~v~~L~~~g~~~~~IgVItp 683 (802)
T 2xzl_A 614 TIE-QRTVP--N--SKFPW----PIRGIPMMFWANYGREEI-SANGTSFLNRIEAMNCERIITKLFRDGVKPEQIGVITP 683 (802)
T ss_dssp CTT-TTCCT--T--CCCCC----SSTTCCEEEEECCCCCEE-CTTSSSEECHHHHHHHHHHHHHHHHTTCCGGGEEEEES
T ss_pred CHH-HHCCC--C--CCCCC----CCCCCCEEEEECCCCEEE-CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEECC
T ss_conf 534-31145--5--56777----789998799986895021-37898868999999999999999975998342899836
Q ss_pred CHHHHHHHHHHCCC---------CCCEEEECCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCEEE
Q ss_conf 76889999977288---------970999053754654478999825889998876565546411245764110244699
Q 000698 1247 YNSQANLIRHSLSV---------SSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIM 1317 (1345)
Q Consensus 1247 YraQv~lLr~~L~~---------~~VeV~TVDkfQGrEkdvVIIS~vrSn~~~~~~~~~fL~d~rRLNVAlTRAK~kLII 1317 (1345)
|++|+..|++.+.. ..++|.|||+|||+|+|+||+|+||++... ..+|+.++||||||+||||++|+|
T Consensus 684 y~~Q~~~I~~~L~~~~~l~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrs~~~~---~~gfl~d~rrLNVAlTRAk~~LiI 760 (802)
T 2xzl_A 684 YEGQRAYILQYMQMNGSLDKDLYIKVEVASVDAFQGREKDYIILSCVRANEQQ---AIGFLRDPRRLNVGLTRAKYGLVI 760 (802)
T ss_dssp CHHHHHHHHHHHHHHCSSCHHHHHTSEEEEHHHHTTCCEEEEEEECCCCCTTC---CCGGGGCHHHHHHHHSSEEEEEEE
T ss_pred CHHHHHHHHHHHHHCCCCCCCCCCCEEECCHHHCCCCCCCEEEEEECCCCCCC---CCCCCCCCCCEEEEHHHHHCEEEE
T ss_conf 69999999999987256550013665982354348872677999823688877---734125845111257465283999
Q ss_pred EEECCHHCCCHHHHHHHHHHHHCCCCCC
Q ss_conf 9624101167059999999971278679
Q 000698 1318 VGSCRTLSKVPLLKLLINKVGEQSGILN 1345 (1345)
Q Consensus 1318 VGs~~tL~~~~~~~~li~~~~~~~~i~~ 1345 (1345)
||+..+|+.+++|+.|+++++++|++++
T Consensus 761 vg~~~~l~~~~~w~~ll~~~~~~~~~~~ 788 (802)
T 2xzl_A 761 LGNPRSLARNTLWNHLLIHFREKGCLVE 788 (802)
T ss_dssp EECHHHHTTSHHHHHHHHHHHHHTCEEE
T ss_pred EECHHHHCCCHHHHHHHHHHHHCCCEEC
T ss_conf 9887996117699999999998599624
No 4
>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=587.98 Aligned_cols=550 Identities=28% Similarity=0.387 Sum_probs=408.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCC
Q ss_conf 68999999999999999899776401136888643455210179715643223445770999982336999898889998
Q 000698 729 CSFLRHWDRLIDLEAKEMQVVKNEIWCSRGSGGNHFTGCLSSIVLDASNEHQKSYRDNRFVYHFVRQHMPSPNLNASDGD 808 (1345)
Q Consensus 729 ~~yf~~w~~Li~lE~~~~~~~~~eiw~~~~~~re~~g~c~~~l~l~~~~~~~~~~~~~~~~y~F~r~~~~~~~~~~~~~~ 808 (1345)
.+|.+.|..|+.+|+..... ..+... +.++.+. .. ....++.+.+|.... . +
T Consensus 186 ~~Y~~~~~~l~~lE~~~~~~-~~e~~~------------~~~~~~~---~~--~~~~~~~~~~~~~~~-~-~-------- 237 (800)
T 2wjy_A 186 YQYQNIFGPLVKLEADYDKK-LKESQT------------QDNITVR---WD--LGLNKKRIAYFTLPK-T-D-------- 237 (800)
T ss_dssp HHHHHHHHHHHHHHHHHHHH-HHHHTC------------EEEECCE---EE--ECTTCCEEEEECCCB-C-C--------
T ss_pred HHHHHHHHHHHHHHHHHHHH-HHHHHH------------CCCEEEE---EE--ECCCCEEEEEEEECC-C-C--------
T ss_conf 99999999999999976143-445542------------2662898---77--268980689999536-5-5--------
Q ss_pred CCCCCCCCCCCCCCCCCCCCEEEEEECCC--CCEEEEEEEEEEEC---EEEEEEECCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf 64344578988877878998899951798--52047999999823---38999940687899999986534335403899
Q 000698 809 SLIGAAIPTKDMDCTLRSGDYVILSTESD--RLAVASGLITEISR---FHVSVSFSKPLRLPGRNSSSDADSLLHEVWRI 883 (1345)
Q Consensus 809 ~~~~~~~~~~~~~~~l~~GD~V~iS~e~~--~~~~~~G~V~~i~~---~~I~V~~~~~l~~p~~~~~~~~~~~~~~~~ri 883 (1345)
....|..||.|.++..+. ....+.|+|.++.. ..|++.++.....|.. ....|++
T Consensus 238 -----------~~~~l~~GD~v~l~~~~~~~~~~~~~g~V~~v~~~~~~~v~l~~~~~~~~p~~---------~~~~~~v 297 (800)
T 2wjy_A 238 -----------SDMRLMQGDEICLRYKGDLAPLWKGIGHVIKVPDNYGDEIAIELRSSVGAPVE---------VTHNFQV 297 (800)
T ss_dssp -----------C--CCCTTCEEEEEECSSSSCCEEEEEEEEECSBTTBSCEEEEESCCTTCCTT---------CCSCEEE
T ss_pred -----------CCCCCCCCCEEEEEECCCCCCCCEEEEEEEEECCCCCCEEEEEECCCCCCCCC---------CCCCCEE
T ss_conf -----------78878999989999788878873458999997678888899998268888400---------3777049
Q ss_pred ECCCCHHHHHHHHHHHHHHHHHC-CCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCE
Q ss_conf 43542025899999999998503-32166787531578986578997778965410102899999999999999914990
Q 000698 884 DKDEIMTSFSVMRYNLVQLFLQS-AQSSQLRRMIVDLEAPRFDSGSVFSQDPALSYIWSEKSLNDDQRRAIIKVLTAKDY 962 (1345)
Q Consensus 884 Dkde~~~~~~~~r~nL~~L~~~~-~~~~~lr~liid~~~P~f~~~~~~~~~~~~~~~~~~~~LN~eQ~~AI~~~l~a~d~ 962 (1345)
+......++.++..+|..+.... .....+++.+.+...|...-...++.. +. ......||++|++|+..++. .++
T Consensus 298 ~~~~~~~~~~r~~~aL~~~~~~e~~~~~~l~~~ll~~~~~~~~~~~~l~~~--~~-~~~~~~Ln~~Q~~Av~~~l~-~~~ 373 (800)
T 2wjy_A 298 DFVWKSTSFDRMQSALKTFAVDETSVSGYIYHKLLGHEVEDVIIKCQLPKR--FT-AQGLPDLNHSQVYAVKTVLQ-RPL 373 (800)
T ss_dssp EECCCCHHHHHHHHHHHHHHHCTTSBCHHHHHHHTTCCCCCCCCCCCCCSC--CS-CTTSCCCCHHHHHHHHHHHT-SSE
T ss_pred EEEECCCHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCCCCHHHCCCCCCC--CC-CCCCCCCCHHHHHHHHHHCC-CCE
T ss_conf 996068759999999999987400116899998518888713322457200--36-43466779999999987425-991
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHH-CCCEEEEEECCHHHHHHHHHHHHHCCCCEEEECCCCH-----------HHHHHHH
Q ss_conf 999925999758999999999981-6994999946689999999998516985899701201-----------2588887
Q 000698 963 ALILGMPGTGKTSTMVHAVKALLM-RGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRHEV-----------VHKEIQK 1030 (1345)
Q Consensus 963 ~LI~GpPGTGKTttIa~lI~~Lv~-~gkkVLitA~TnsAVDnLl~kL~~~~i~ilRiG~~~~-----------i~~~i~~ 1030 (1345)
.+|+||||||||+|+++++..++. .+.+||++||||.|+|++.+++.+.+++++|+|+..+ +|..+..
T Consensus 374 ~lI~GppGTGKT~ti~~~i~~l~~~~~~~ilv~a~tn~A~~~l~~~l~~~g~~vvRlg~~~r~~i~~~~~~~tlh~~~~~ 453 (800)
T 2wjy_A 374 SLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVRLCAKSREAIDSPVSFLALHNQIRN 453 (800)
T ss_dssp EEEECCTTSCHHHHHHHHHHHHHTTCSSCEEEEESSHHHHHHHHHHHHTTTCCEEECCCGGGGGCCCTTGGGBHHHHHHT
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCHHHHHHHHHHHHHHCCCEEEECCCCHHHHCCHHHHHHHHHHHHC
T ss_conf 79986999998999999999999748981999869689999999999872754176233214331361556539999972
Q ss_pred ---------HH---HCCCCC-----CCHHH-----HHHHHCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCCHHHHH
Q ss_conf ---------53---100120-----20999-----999621361999972365665556899789999579999978876
Q 000698 1031 ---------HC---LSAMNI-----NSVEE-----IKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSL 1088 (1345)
Q Consensus 1031 ---------~~---l~~~~~-----~s~~~-----lk~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIIDEASQitep~~L 1088 (1345)
.. ...... ..+.. ....+..++||++||.++.++.+....||+||||||+|+++|+++
T Consensus 454 ~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~a~VI~~T~~~~~~~~l~~~~fd~viIDEAsQ~~e~~~l 533 (800)
T 2wjy_A 454 MDSMPELQKLQQLKDETGELSSADEKRYRALKRTAERELLMNADVICCTCVGAGDPRLAKMQFRSILIDESTQATEPECM 533 (800)
T ss_dssp CTTCHHHHHHHHHHTTTSCCCHHHHHHHHHHHHHHHHHHHHHCSEEEEETGGGGCTTTTTCCCSEEEETTGGGSCHHHHH
T ss_pred CCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEECHHHHCCHHHHCCCCCEEEEECCCCCCCHHHH
T ss_conf 76499999999998753346867899999999877775433698999740452872454589898999897787769999
Q ss_pred HHHCC-CCEEEEECCCCCCCCCCCCHHHHHCCCCCHHHHHHHHHCCCCEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCH
Q ss_conf 10003-69699975877789654663787639951399999982894300122234586248999999650895788854
Q 000698 1089 GPLMF-ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDRLSCGSD 1167 (1345)
Q Consensus 1089 ~pL~~-a~klVLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~~~~v~~L~~QYRM~~~I~~laN~liY~g~L~~~~~ 1167 (1345)
.++.. ++++||||||+||||++.+..+...|++.|+|+||...... ...|++||||+++|++|+|.+||+|+|.++..
T Consensus 534 i~l~~~~~~~ilvGD~~QLpPvv~s~~a~~~gl~~SlFerL~~~g~~-~~~L~~qYRm~p~I~~f~n~~fY~g~L~~~~~ 612 (800)
T 2wjy_A 534 VPVVLGAKQLILVGDHCQLGPVVMCKKAAKAGLSQSLFERLVVLGIR-PIRLQVQYRMHPALSAFPSNIFYEGSLQNGVT 612 (800)
T ss_dssp HHHTTTBSEEEEEECTTSCCCCCCCHHHHHTTTTSCHHHHHHHTTCC-CEECCEECSSCHHHHHHHHHHHSTTCCEESSC
T ss_pred HHHHHCCCEEEEECCCCCCCCEECCHHHHHCCCCHHHHHHHHHCCCC-CEEEHHHCCCCCHHHHHHHHHHCCCCCCCCCC
T ss_conf 99984688599961521379845555565557435899999867999-54844532888178775189752981546775
Q ss_pred HHHHHHCCCCCCCCCCHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECC
Q ss_conf 55421100367889853555202999878999489981000246677789999999999999999879999839999337
Q 000698 1168 EIANAKIKVSDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITPY 1247 (1345)
Q Consensus 1168 ~va~~~l~~~~~~~~~~wl~~~l~p~~~v~Fidt~~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~Gv~~~dIgVITPY 1247 (1345)
. ..+... + ....| ..+..+++|+++.+.+.. ...+.++.|..||..|..++..+++.|+.+++|||||||
T Consensus 613 ~-~~r~~~--~--~~~~~----~~~~~p~~f~~~~g~e~~-~~~~~S~~N~~Ea~~V~~~v~~L~~~g~~~~dIgVItPy 682 (800)
T 2wjy_A 613 A-ADRVKK--G--FDFQW----PQPDKPMFFYVTQGQEEI-ASSGTSYLNRTEAANVEKITTKLLKAGAKPDQIGIITPY 682 (800)
T ss_dssp S-GGGSCT--T--CCCCC----SSTTSCEEEEECCCCCEE-CSSBSCEECHHHHHHHHHHHHHHHHTTCCGGGEEEECSC
T ss_pred H-HHHCCC--C--CCCCC----CCCCCCEEEEECCCCEEE-CCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECC
T ss_conf 1-331013--5--66656----689988899986885120-478876468999999999999999759980559999065
Q ss_pred HHHHHHHHHHCCC---------CCCEEEECCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCEEEE
Q ss_conf 6889999977288---------9709990537546544789998258899988765655464112457641102446999
Q 000698 1248 NSQANLIRHSLSV---------SSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMV 1318 (1345)
Q Consensus 1248 raQv~lLr~~L~~---------~~VeV~TVDkfQGrEkdvVIIS~vrSn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIV 1318 (1345)
++|+..|++.+.. ..++|.|||+|||+|+|+||+|+|+++... ..+|+.++||||||+||||++|+||
T Consensus 683 ~~Q~~~I~~~L~~~~~~~~~~~~~v~V~TVd~fQG~E~dvVIlS~vrs~~~~---~~gfl~d~rrLNVAlTRAk~~LiIv 759 (800)
T 2wjy_A 683 EGQRSYLVQYMQFSGSLHTKLYQEVEIASVDAFQGREKDFIILSCVRANEHQ---GIGFLNDPRRLNVALTRARYGVIIV 759 (800)
T ss_dssp HHHHHHHHHHHHHHCSSCHHHHHTSEEECGGGGTTCCEEEEEEECCCCSCCC---CCGGGTCHHHHHHHHTSEEEEEEEE
T ss_pred HHHHHHHHHHHHHCCCCCCCCCCCEEECCCCCCCCCCCCEEEEEECCCCCCC---CCCCCCCCCHHHHHHHHHHCCEEEE
T ss_conf 8999999999986476541236866984211268875787999805788766---6331167134313087663119999
Q ss_pred EECCHHCCCHHHHHHHHHHHHCCCCC
Q ss_conf 62410116705999999997127867
Q 000698 1319 GSCRTLSKVPLLKLLINKVGEQSGIL 1344 (1345)
Q Consensus 1319 Gs~~tL~~~~~~~~li~~~~~~~~i~ 1344 (1345)
|+..+|..++.|+.|+++++++|+++
T Consensus 760 G~~~~l~~~~~w~~ll~~~~~~~~~~ 785 (800)
T 2wjy_A 760 GNPKALSKQPLWNHLLNYYKEQKVLV 785 (800)
T ss_dssp ECHHHHTSSHHHHHHHHHHHHTTCEE
T ss_pred ECHHHHCCCHHHHHHHHHHHHCCCEE
T ss_conf 87799542789999999999879999
No 5
>3lfu_A DNA helicase II; SF1 helicase, ATP-binding, DNA damage, DNA REP replication, DNA-binding, hydrolase, nucleotide-B SOS response; HET: DNA; 1.80A {Escherichia coli} PDB: 2is6_A* 2is2_A* 2is1_A* 2is4_A*
Probab=1.00 E-value=1 Score=294.55 Aligned_cols=353 Identities=20% Similarity=0.234 Sum_probs=236.2
Q ss_pred CCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHCC----CEEEEEECCHHHHHHHHHHHHHC---CCC
Q ss_conf 89999999999999991499099992599975899999999998169----94999946689999999998516---985
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRG----ASILLTSYTNSAVDNLLIKLKSQ---SID 1014 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~a~d~~LI~GpPGTGKTttIa~lI~~Lv~~g----kkVLitA~TnsAVDnLl~kL~~~---~i~ 1014 (1345)
...||++|++||. ...+.++|.|+||||||+|++++|..++..+ .+||+++|||.|++++.+|+.+. ...
T Consensus 7 ~~~Ln~~Q~~av~---~~~~~~lV~a~aGsGKT~~l~~ri~~l~~~~~~~~~~iL~ltft~~aa~e~~~rl~~~~~~~~~ 83 (647)
T 3lfu_A 7 LDSLNDKQREAVA---APRSNLLVLAGAGSGKTRVLVHRIAWLMSVENCSPYSIMAVTFTNKAAAEMRHRIGQLMGTSQG 83 (647)
T ss_dssp HTTCCHHHHHHHT---CCSSCEEEEECTTSCHHHHHHHHHHHHHHTSCCCGGGEEEEESSHHHHHHHHHHHHHHHCSCCT
T ss_pred HHCCCHHHHHHHH---CCCCCEEEEECCCCCHHHHHHHHHHHHHHHCCCCHHHEEEEECCHHHHHHHHHHHHHHHCCCCC
T ss_conf 5549999999981---8899879997899878999999999999837999525898956189999999999987255567
Q ss_pred EEEECCCCHHHHHHHHHHHCCC------CC-----------------------CCHHHHHHH------------------
Q ss_conf 8997012012588887531001------20-----------------------209999996------------------
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAM------NI-----------------------NSVEEIKKR------------------ 1047 (1345)
Q Consensus 1015 ilRiG~~~~i~~~i~~~~l~~~------~~-----------------------~s~~~lk~~------------------ 1047 (1345)
-+.+++.+.+...+........ .+ .....+...
T Consensus 84 ~~~v~Tfhs~~~~il~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~ 163 (647)
T 3lfu_A 84 GMWVGTFHGLAHRLLRAHHMDANLPQDFQILDSEDQLRLLKRLIKAMNLDEKQWPPRQAMWYINSQKDEGLRPHHIQSYG 163 (647)
T ss_dssp TCEEEEHHHHHHHHHHHTTGGGTCCTTCEEECHHHHHHHHHHHHHHTTCCTTTSCHHHHHHHHHHHHHTTCCCCCC----
T ss_pred CCEEECHHHHHHHHHHHHHHHHCCCCCCEEECHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHCC
T ss_conf 80897289999999999799709998988857899999999999876998210489999999999987599989987502
Q ss_pred -----------------HCCCCEEE------EEECCC-CCCCCC---CCCCCEEEEECCCCCCHHHH--HHHHC-CCCEE
Q ss_conf -----------------21361999------972365-665556---89978999957999997887--61000-36969
Q 000698 1048 -----------------LDQVKVVA------VTCLGI-TNPLLT---DKKFDVCIMDEAGQTTLPVS--LGPLM-FASKF 1097 (1345)
Q Consensus 1048 -----------------l~~~~VV~------tT~~~~-~~~ll~---~~~FD~VIIDEASQitep~~--L~pL~-~a~kl 1097 (1345)
+.....+- .++..+ .++.+. ..+|++|+|||+|+.+..+. +..+. .+.++
T Consensus 164 ~~~~~~~~~i~~~y~~~~~~~~~~df~dl~~~~~~~l~~~~~~~~~~~~~~~~ilVDE~QD~~~~q~~ll~~l~~~~~~l 243 (647)
T 3lfu_A 164 NPVEQTWQKVYQAYQEACDRAGLVDFAELLLRAHELWLNKPHILQHYRERFTNILVDEFQDTNNIQYAWIRLLAGDTGKV 243 (647)
T ss_dssp CCHHHHHHHHHHHHHHHHHHHTEEEHHHHHHHHHHHHHHCHHHHHHHHHHCCEEEESSGGGCCHHHHHHHHHHHTTTCEE
T ss_pred CHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCHHHHHHHHHHCCEEEEECCCCCCHHHHHHHHHHHCCCCEE
T ss_conf 46899999999999999998699789999999999987698999999831989999780039899999999996689879
Q ss_pred EEECCCCCCCCCCCCHHHHHCCCCCHHHHHHHHHCCC-CEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHCCC
Q ss_conf 9975877789654663787639951399999982894-300122234586248999999650895788854554211003
Q 000698 1098 VLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQ-AISALQSQYRMCQGIMELSNALIYGDRLSCGSDEIANAKIKV 1176 (1345)
Q Consensus 1098 VLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~~~-~v~~L~~QYRM~~~I~~laN~liY~g~L~~~~~~va~~~l~~ 1176 (1345)
++|||++| ++++++|.+...|.++.+.++. ....|+.|||+++.|+.++|.+++.+....+..
T Consensus 244 ~~vGD~~Q-------sIy~frga~~~~~~~~~~~~~~~~~~~L~~nyRs~~~I~~~~n~~~~~~~~~~~~~--------- 307 (647)
T 3lfu_A 244 MIVGDDDQ-------SIYGWRGAQVENIQRFLNDFPGAETIRLEQNYRSTSNILSAANALIENNNGRLGKK--------- 307 (647)
T ss_dssp EEEECGGG-------CCCGGGTCCTTHHHHHHHHCTTCEEEEECBCSSSCHHHHHHHHHHHTTCSSCCCCC---------
T ss_pred EEECCCHH-------HHCCCCCCCHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHHCCCCCCCC---------
T ss_conf 99807602-------12132587889999999868998599766578997799999999998542023774---------
Q ss_pred CCCCCCCHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHHH
Q ss_conf 67889853555202999878999489981000246677789999999999999999879999839999337688999997
Q 000698 1177 SDLSSCSPWLKEALNPCRPVIFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELVKNEIEGKDIGIITPYNSQANLIRH 1256 (1345)
Q Consensus 1177 ~~~~~~~~wl~~~l~p~~~v~Fidt~~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll~~Gv~~~dIgVITPYraQv~lLr~ 1256 (1345)
.| .......++.++... ....|+..|+..+..++..|+.++||+||++++.|...+..
T Consensus 308 -------~~--~~~~~~~~~~~~~~~-------------~~~~e~~~ia~~I~~l~~~g~~~~diaVL~r~~~~~~~l~~ 365 (647)
T 3lfu_A 308 -------LW--TDGADGEPISLYCAF-------------NELDEARFVVNRIKTWQDNGGALAECAILYRSNAQSRVLEE 365 (647)
T ss_dssp -------CB--CSSCCCCCEEEEEEE-------------EHHHHHHHHHHHHHHHHHTTCCGGGEEEEESSGGGHHHHHH
T ss_pred -------CC--CCCCCCCCEEEEECC-------------CHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHH
T ss_conf -------42--678899962899669-------------85999999999999999769880678999847443999999
Q ss_pred HCC-----------------------------------------------------------------------------
Q ss_conf 728-----------------------------------------------------------------------------
Q 000698 1257 SLS----------------------------------------------------------------------------- 1259 (1345)
Q Consensus 1257 ~L~----------------------------------------------------------------------------- 1259 (1345)
.|.
T Consensus 366 ~l~~~~Ip~~~~~~~~~~~~~~v~~ll~~L~~~~~p~d~~~l~~~l~~p~~gi~~~~l~~l~~~~~~~~~~~~~~l~~~~ 445 (647)
T 3lfu_A 366 ALLQASMPYRIYGGMRFFERQEIKDALSYLRLIANRNDDAAFERVVNTPTRGIGDRTLDVVRQTSRDRQLTLWQACRELL 445 (647)
T ss_dssp HHHHTTCCEEESSSCCGGGSHHHHHHHHHHHHHHCTTCHHHHHHHTTSSCCCCCHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred HHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHH
T ss_conf 99977998999589872455999999999998769887899999982742589999999999998765998999998753
Q ss_pred --------------------------------------------------------------------------------
Q ss_conf --------------------------------------------------------------------------------
Q 000698 1260 -------------------------------------------------------------------------------- 1259 (1345)
Q Consensus 1260 -------------------------------------------------------------------------------- 1259 (1345)
T Consensus 446 ~~~~l~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~ 525 (647)
T 3lfu_A 446 QEKALAGRAASALQRFMELIDALAQETADMPLHVQTDRVIKDSGLRTMYEQEKGEKGQTRIENLEELVTATRQFSYNEED 525 (647)
T ss_dssp HTTCSCHHHHHHHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHTSHHHHHHTSCSHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred HCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 22458989999999999999999986156999999999998008899986515744799999999999999998733564
Q ss_pred -------------------------CCCCEEEECCCCCCCCCCEEEEECCCCCCCCCCCC----CCCCCCCCHHHHHHHH
Q ss_conf -------------------------89709990537546544789998258899988765----6554641124576411
Q 000698 1260 -------------------------VSSVEIHTIDKYQGRDKDCILVSFVRSSENPRNCT----SSLLGDWHRINVALTR 1310 (1345)
Q Consensus 1260 -------------------------~~~VeV~TVDkfQGrEkdvVIIS~vrSn~~~~~~~----~~fL~d~rRLNVAlTR 1310 (1345)
...|.+.|+|++||.||++|++..+..+.-|.... .....++|.+|||+||
T Consensus 526 ~~~~~l~~fl~~~~l~~~~~~~~~~~~~V~l~TiH~aKGLEf~~Vfl~gl~eg~~P~~~~~~~~~~~eeErrL~YVa~TR 605 (647)
T 3lfu_A 526 EDLMPLQAFLSHAALEAGEGQADTWQDAVQLMTLHSAKGLEFPQVFIVGMEEGMFPSQMSLDEGGRLEEERRLAYVGVTR 605 (647)
T ss_dssp CCSSHHHHHHHHHHHC-CCSSCSSCCCCEEEEETGGGTTCCEEEEEECCCBTBTTTBTTCC--CTTHHHHHHHHHHHHTT
T ss_pred CCHHHHHHHHHHHHHHCCCCCCCCCCCCEEEEEEECCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHH
T ss_conf 32558999999986023312224678957999600025766777999277678898732246724479999999999967
Q ss_pred CCCCEEEEEECCH--------HCCCHHHHHHHH
Q ss_conf 0244699962410--------116705999999
Q 000698 1311 AKKKLIMVGSCRT--------LSKVPLLKLLIN 1335 (1345)
Q Consensus 1311 AK~kLIIVGs~~t--------L~~~~~~~~li~ 1335 (1345)
||+.|++...... ..-++++.++-.
T Consensus 606 Ak~~L~ls~~~~~~~~g~~~~~~pSrfl~el~~ 638 (647)
T 3lfu_A 606 AMQKLTLTYAETRRLYGKEVYHRPSRFIGELPE 638 (647)
T ss_dssp EEEEEEEEEEEEEEETTEEEECCBCHHHHHSCG
T ss_pred HHHHEEEEEECCCCCCCCCCCCCCCCCHHHHHH
T ss_conf 745159998040223677586877845886138
No 6
>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=277.62 Aligned_cols=210 Identities=22% Similarity=0.285 Sum_probs=140.9
Q ss_pred CCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHC----CCEEEEEECCHHHHHHHHHHHHHC-C--CC
Q ss_conf 8999999999999999149909999259997589999999999816----994999946689999999998516-9--85
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKSQ-S--ID 1014 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~a~d~~LI~GpPGTGKTttIa~lI~~Lv~~----gkkVLitA~TnsAVDnLl~kL~~~-~--i~ 1014 (1345)
+..||++|++||.. ..+..+|.|+||||||++++++|..|+.. ..+||+++|||.|++++.+|+... + ..
T Consensus 9 l~~Ln~~Q~~av~~---~~g~~lV~AgAGSGKT~vL~~ri~~ll~~~~~~p~~IL~vTFTnkAA~Em~~Rl~~~l~~~~~ 85 (724)
T 1pjr_A 9 LAHLNKEQQEAVRT---TEGPLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTNKAAREMRERVQSLLGGAAE 85 (724)
T ss_dssp HTTSCHHHHHHHHC---CSSCEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSHHHHHHHHHHHHHHHGGGGT
T ss_pred HHHCCHHHHHHHHC---CCCCEEEEECCCCCHHHHHHHHHHHHHHHCCCCHHHEEEEECCHHHHHHHHHHHHHHHCCCCC
T ss_conf 75289999999828---899889997499978999999999999966998899687826699999999999997246556
Q ss_pred EEEECCCCHHHHHHHHHHHCCC-------------------------C-----C--C----CHHH---------------
Q ss_conf 8997012012588887531001-------------------------2-----0--2----0999---------------
Q 000698 1015 FVRIGRHEVVHKEIQKHCLSAM-------------------------N-----I--N----SVEE--------------- 1043 (1345)
Q Consensus 1015 ilRiG~~~~i~~~i~~~~l~~~-------------------------~-----~--~----s~~~--------------- 1043 (1345)
-+.+++.+.+...+........ . . . .+..
T Consensus 86 ~~~v~Tfhs~~~~ilr~~~~~~g~~~~f~i~d~~d~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~ 165 (724)
T 1pjr_A 86 DVWISTFHSMCVRILRRDIDRIGINRNFSILDPTDQLSVMKTILKEKNIDPKKFEPRTILGTISAAKNELLPPEQFAKRA 165 (724)
T ss_dssp TSEEEEHHHHHHHHHHHHGGGGTCCTTCEECCHHHHHHHHHHHHHTTSCTTTTCCHHHHHHHHHHHHHTTCCHHHHTTC-
T ss_pred CCEEEEHHHHHHHHHHHHHHHHCCCCCCEECCHHHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHC
T ss_conf 81996199999999999999858898977778999999999999876998220899999999999987699999999862
Q ss_pred --------------HHHHHCCCCEE------EEEECCC-CCCCCC---CCCCCEEEEECCCCCCHHHH--HHHHCC-CCE
Q ss_conf --------------99962136199------9972365-665556---89978999957999997887--610003-696
Q 000698 1044 --------------IKKRLDQVKVV------AVTCLGI-TNPLLT---DKKFDVCIMDEAGQTTLPVS--LGPLMF-ASK 1096 (1345)
Q Consensus 1044 --------------lk~~l~~~~VV------~tT~~~~-~~~ll~---~~~FD~VIIDEASQitep~~--L~pL~~-a~k 1096 (1345)
+.+.+.....+ ..+...+ .++.+. ..+|++|+|||+|+.+..+. +..|.. ...
T Consensus 166 ~~~~~~~~~~iy~~Y~~~l~~~~~lDf~Dll~~~~~ll~~~~~v~~~~~~rf~~IlVDEfQDtn~~Q~~ll~~L~~~~~~ 245 (724)
T 1pjr_A 166 STYYEKVVSDVYQEYQQRLLRNHSLDFDDLIMTTIQLFDRVPDVLHYYQYKFQYIHIDEYQDTNRAQYTLVKKLAERFQN 245 (724)
T ss_dssp --CHHHHHHHHHHHHHHHHHHTTEECTTHHHHHHHHHHHHCHHHHHHHHHHCSEEEESSGGGCCHHHHHHHHHHHTTTCC
T ss_pred CCHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCHHHHHHHHHHCCEEEEEHHHCCCHHHHHHHHHHHCCCCE
T ss_conf 37899999999999999999859999999999999998659799999986398999876760899999999999768986
Q ss_pred EEEECCCCCCCCCCCCHHHHHCCCCCHHHHHHHHHCCCC-EECCCCCCCCCHHHHHHHHHHHHCCC
Q ss_conf 999758777896546637876399513999999828943-00122234586248999999650895
Q 000698 1097 FVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQA-ISALQSQYRMCQGIMELSNALIYGDR 1161 (1345)
Q Consensus 1097 lVLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~~~~-v~~L~~QYRM~~~I~~laN~liY~g~ 1161 (1345)
+++|||++| ++|+|+|++...|.++.+.++.. +..|..|||+++.|++++|.++..+.
T Consensus 246 l~vVGD~~Q-------sIY~fRGA~~~~~~~f~~~~~~~~~i~L~~NyRSt~~Il~~an~li~~n~ 304 (724)
T 1pjr_A 246 ICAVGDADQ-------SIYRWRGADIQNILSFERDYPNAKVILLEQNYRSTKRILQAANEVIEHNV 304 (724)
T ss_dssp EEEEECGGG-------CCCGGGTCCTHHHHTHHHHSTTCEEEEECBCSSSCHHHHHHHHHHHTTCS
T ss_pred EEEEECCHH-------HCCCCCCCCHHHHHHHHHHCCCCCEEECCCCCCCCHHHHHHHHHHHHHCC
T ss_conf 999978066-------24424588989999999877998199899878997899999999998573
No 7
>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=272.30 Aligned_cols=310 Identities=19% Similarity=0.225 Sum_probs=188.8
Q ss_pred CCCCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEECCC
Q ss_conf 89999999999999991499099992599975899999999998169949999466899999999985169858997012
Q 000698 942 EKSLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMRGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~a~d~~LI~GpPGTGKTttIa~lI~~Lv~~gkkVLitA~TnsAVDnLl~kL~~~~i~ilRiG~~ 1021 (1345)
...||++|++|+..++. ....+|.|+||||||+++..++..+...|.+|+++|||+.|++++.+++...
T Consensus 187 ~~~L~~~Q~~Av~~~~~-~~~~~I~G~pGTGKTt~i~~l~~~l~~~g~~Vl~~ApT~~Aa~~L~e~~~~~---------- 255 (574)
T 3e1s_A 187 RKGLSEEQASVLDQLAG-HRLVVLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRT---------- 255 (574)
T ss_dssp TTTCCHHHHHHHHHHTT-CSEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEESSHHHHHHHHHHHTSC----------
T ss_pred CCCCCHHHHHHHHHHHH-CCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEECCCHHHHHHHHHHHCCC----------
T ss_conf 37999999999999976-8879999599998899999999999856982999648589999767663630----------
Q ss_pred CHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCCHHHHH---HHHCCCCEEE
Q ss_conf 0125888875310012020999999621361999972365665556899789999579999978876---1000369699
Q 000698 1022 EVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSL---GPLMFASKFV 1098 (1345)
Q Consensus 1022 ~~i~~~i~~~~l~~~~~~s~~~lk~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIIDEASQitep~~L---~pL~~a~klV 1098 (1345)
...++++ +.... + ++....-....+|++|||||||+....+. ..+..+.++|
T Consensus 256 -------------a~Tih~l------l~~~~----~--~~~~~~~~~~~~dvlIIDEasml~~~~~~~Ll~~~~~~~~li 310 (574)
T 3e1s_A 256 -------------ASTVHRL------LGYGP----Q--GFRHNHLEPAPYDLLIVDEVSMMGDALMLSLLAAVPPGARVL 310 (574)
T ss_dssp -------------EEEHHHH------TTEET----T--EESCSSSSCCSCSEEEECCGGGCCHHHHHHHHTTSCTTCEEE
T ss_pred -------------HHHHHHH------HCCCC----C--HHHHHHCCCCCCCEEEECCCCCCCHHHHHHHHHHCCCCCEEE
T ss_conf -------------9899998------76792----0--323201035658889971756778999999998376898899
Q ss_pred EECCCCCCCCCCCCHHHHHCCCCCHHHHHHHHHCCCCEECCCCCCCCC--HHHHHHHHHHHHCCCCCCCCHHHHHHHCCC
Q ss_conf 975877789654663787639951399999982894300122234586--248999999650895788854554211003
Q 000698 1099 LVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMC--QGIMELSNALIYGDRLSCGSDEIANAKIKV 1176 (1345)
Q Consensus 1099 LVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~~~~v~~L~~QYRM~--~~I~~laN~liY~g~L~~~~~~va~~~l~~ 1176 (1345)
+|||+.||||+..+ +.|..+.... .+..|+.+||+. +.|..+++.+ ..|.+.....+.. .+..
T Consensus 311 lvGD~~QL~~v~~g----------~~~~~l~~~~--~~~~L~~~~R~~~~s~I~~~a~~i-~~g~~~~~~~d~~--~~~~ 375 (574)
T 3e1s_A 311 LVGDTDQLPPVDAG----------LPLLALAQAA--PTIKLTQVYRQAAKNPIIQAAHGL-LHGEAPAWGDKRL--NLTE 375 (574)
T ss_dssp EEECTTSCCCSSSC----------CHHHHHHHHS--CEEECCCCCHHHHTCHHHHHHHHH-HTTCCCCCCBTTE--EEEE
T ss_pred EEECCCCCCCCCCC----------CHHHHHHHCC--CEEECCEEEECCCCCHHHHHHHHH-HCCCCCCCCCCEE--EEEC
T ss_conf 99543326876688----------3799999639--889852018189961899999998-6799866678769--9837
Q ss_pred CCCCCCCHHHHH---HCCCCCCE-EEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH--------------------
Q ss_conf 678898535552---02999878-999489981000246677789999999999999999--------------------
Q 000698 1177 SDLSSCSPWLKE---ALNPCRPV-IFVNTDMLPAYEAKDHQTLNNPVEACLIAKITQELV-------------------- 1232 (1345)
Q Consensus 1177 ~~~~~~~~wl~~---~l~p~~~v-~Fidt~~~~~~e~~~~~s~~N~~EA~lV~~lv~~Ll-------------------- 1232 (1345)
.........+.. ...+...+ ++..+.. ....+..+...++..+
T Consensus 376 ~~~~~~~~~i~~~~~~~~~~~~~~VL~~~~~-------------g~~gv~~lN~~l~~~lnp~~~~~~~~~~~~~~Gd~V 442 (574)
T 3e1s_A 376 IEPDGGARRVALMVRELGGPGAVQVLTPMRK-------------GPLGMDHLNYHLQALFNPGEGGVRIAEGEARPGDTV 442 (574)
T ss_dssp CCSTTCHHHHHHHHHHTTSGGGCEEEESCSS-------------STTSHHHHHHHHHHHHSCCSCCEECSSSEECTTCEE
T ss_pred CCHHHHHHHHHHHHHCCCCCCCEEEEEEECC-------------CCHHHHHHHHHHHHHHCCCCCCEEECCEEEECCCEE
T ss_conf 9999999999999864584357489986338-------------853599999999997588887221278177469979
Q ss_pred -------HCCCCCCCEEEEECCHHHHHHHHHHCCC-------------CCCEEEECCCCCCCCCCEEEEECCCCCCCCCC
Q ss_conf -------8799998399993376889999977288-------------97099905375465447899982588999887
Q 000698 1233 -------KNEIEGKDIGIITPYNSQANLIRHSLSV-------------SSVEIHTIDKYQGRDKDCILVSFVRSSENPRN 1292 (1345)
Q Consensus 1233 -------~~Gv~~~dIgVITPYraQv~lLr~~L~~-------------~~VeV~TVDkfQGrEkdvVIIS~vrSn~~~~~ 1292 (1345)
..|+.+++||+|+....+ .+.-.+.. ....+.|||++||+|+++||+.+....
T Consensus 443 ~~~~N~~~~~v~NGdiG~i~~~~~~--~l~v~fdg~~v~~~~~~l~~~~~ayA~TIHksQGsEfd~Vil~l~~~~----- 515 (574)
T 3e1s_A 443 VQTKNDYNNEIFNGTLGMVLKAEGA--RLTVDFDGNVVELTGAELFNLQLGYALTVHRAQGSEWGTVLGVLHEAH----- 515 (574)
T ss_dssp EECSCBTTTTBCTTCEEEEEEECSS--CEEEEETTEEEEECGGGGTTEEECSEEEHHHHTTCCEEEEEEEECGGG-----
T ss_pred EEEECCCCCCEECCCEEEEECCCCC--EEEEEECCEEEEECHHHHHHHHHEEEEEHHHHCCCCCCEEEEECCCCC-----
T ss_conf 9930375246345863689717799--899998996999726774201011330088747866886999867765-----
Q ss_pred CCCCCCCCCCHHHHHHHHCCCCEEEEEECCHHC
Q ss_conf 656554641124576411024469996241011
Q 000698 1293 CTSSLLGDWHRINVALTRAKKKLIMVGSCRTLS 1325 (1345)
Q Consensus 1293 ~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL~ 1325 (1345)
..+.+++++|||+||||++|+|+|+...|.
T Consensus 516 ---~~~l~r~LlYvAiTRAk~~l~lvg~~~~l~ 545 (574)
T 3e1s_A 516 ---MPMLSRNLVYTALTRARDRFFSAGSASAWQ 545 (574)
T ss_dssp ---GGGCCHHHHHHHHHTEEEEEEEEECHHHHH
T ss_pred ---CCCCCCCEEEEEEEEEEEEEEEEECHHHHH
T ss_conf ---553453618987130166899997899999
No 8
>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=269.11 Aligned_cols=207 Identities=21% Similarity=0.276 Sum_probs=139.2
Q ss_pred CCCHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHC----CCEEEEEECCHHHHHHHHHHHHHC-C---CCE
Q ss_conf 99999999999999149909999259997589999999999816----994999946689999999998516-9---858
Q 000698 944 SLNDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLMR----GASILLTSYTNSAVDNLLIKLKSQ-S---IDF 1015 (1345)
Q Consensus 944 ~LN~eQ~~AI~~~l~a~d~~LI~GpPGTGKTttIa~lI~~Lv~~----gkkVLitA~TnsAVDnLl~kL~~~-~---i~i 1015 (1345)
.||++|++||.. ..+..+|.|+||||||++++++|..|+.. ..+||+++|||.|++++.+|+... + ..-
T Consensus 2 ~L~~~Q~~av~~---~~~~~lV~AgaGSGKT~~l~~ri~~ll~~~~~~~~~IL~lTfT~~Aa~em~~Rl~~~l~~~~~~~ 78 (673)
T 1uaa_A 2 RLNPGQQQAVEF---VTGPCLVLAGAGSGKTRVITNKIAHLIRGCGYQARHIAAVTFTNKAAREMKERVGQTLGRKEARG 78 (673)
T ss_dssp CCCHHHHHHHHC---CSSEEEECCCTTSCHHHHHHHHHHHHHHHHCCCGGGEEEEESSHHHHHHHHHHHHHHSCTTTTTT
T ss_pred CCCHHHHHHHHC---CCCCEEEEECCCCCHHHHHHHHHHHHHHHCCCCHHHEEEEECCHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 999899999838---89977999579997689999999999985699878958785468999999999998707323468
Q ss_pred EEECCCCHHHHHHHHHHHCC------CCC----------------------CCH--------------------------
Q ss_conf 99701201258888753100------120----------------------209--------------------------
Q 000698 1016 VRIGRHEVVHKEIQKHCLSA------MNI----------------------NSV-------------------------- 1041 (1345)
Q Consensus 1016 lRiG~~~~i~~~i~~~~l~~------~~~----------------------~s~-------------------------- 1041 (1345)
+.+++.+.+...+....... ..+ ...
T Consensus 79 ~~v~Tfhs~~~~il~~~~~~~g~~~~~~i~d~~~~~~l~~~~~~~~~~~~~~~~~~~~~~i~~~k~~~~~~~~~~~~~~~ 158 (673)
T 1uaa_A 79 LMISTFHTLGLDIIKREYAALGMKANFSLFDDTDQLALLKELTEGLIEDDKVLLQQLISTISNWKNDLKTPSQAAASAIG 158 (673)
T ss_dssp SEEEEHHHHHHHHHHHHHHHTTCCCCCCEECHHHHHHHHHHHTSTTSCSCHHHHHHHHHHHHHHHTTTCCTTHHHHTCCS
T ss_pred CEEEEHHHHHHHHHHHHHHHHCCCCCCEEECHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 88972878799999998998589999887079999999999999764345446999999999998739998999987422
Q ss_pred ----------HHHHHHHCCCCEE------EEEECCC-CCCCCC---CCCCCEEEEECCCCCCHHHH--HHHHCC-CCEEE
Q ss_conf ----------9999962136199------9972365-665556---89978999957999997887--610003-69699
Q 000698 1042 ----------EEIKKRLDQVKVV------AVTCLGI-TNPLLT---DKKFDVCIMDEAGQTTLPVS--LGPLMF-ASKFV 1098 (1345)
Q Consensus 1042 ----------~~lk~~l~~~~VV------~tT~~~~-~~~ll~---~~~FD~VIIDEASQitep~~--L~pL~~-a~klV 1098 (1345)
..+.+.+.....+ ..+...+ .++.+. ..+|++|+|||+|+.+..+. +..|.. +.+++
T Consensus 159 ~~~~~~~~i~~~Y~~~l~~~~~lDfdDll~~~~~lL~~~~~~~~~~~~~~~~ilVDEfQDt~~~Q~~ll~~L~~~~~~l~ 238 (673)
T 1uaa_A 159 ERDRIFAHCYGLYDAHLKACNVLDFDDLILLPTLLLQANEEVRKRWQNKIRYLLVDEYQDTNTSQYELVKLLVGSRARFT 238 (673)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTCEEHHHHHHHHHHHHHHCHHHHHHHHTTCSEEEESCGGGCBHHHHHHHHHHHTTTCCEE
T ss_pred HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCHHHHHHHHHHCCEEEEECCCCCCHHHHHHHHHHHCCCCEEE
T ss_conf 48999999999999999986999889999999999874968999998308689986600189879999999966898599
Q ss_pred EECCCCCCCCCCCCHHHHHCCCCCHHHHHHHHHCCC-CEECCCCCCCCCHHHHHHHHHHHHCC
Q ss_conf 975877789654663787639951399999982894-30012223458624899999965089
Q 000698 1099 LVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQ-AISALQSQYRMCQGIMELSNALIYGD 1160 (1345)
Q Consensus 1099 LVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~~~-~v~~L~~QYRM~~~I~~laN~liY~g 1160 (1345)
+|||++| ++|+|+|.+...|.++.+.++. .+..|+.+||+++.|++++|.++..+
T Consensus 239 ~vGD~~Q-------sIy~frga~~~~~~~~~~~~~~~~~~~L~~nyRs~~~I~~~an~~~~~~ 294 (673)
T 1uaa_A 239 VVGDDDQ-------SIYSWRGARPQNLVLLSQDFPALKVIKLEQNYRSSGRILKAANILIANN 294 (673)
T ss_dssp EECCGGG-------CCCGGGTBCTTHHHHHHHHSTTCEEECCCCBSSSCHHHHHHHHHHHHTS
T ss_pred EEECCHH-------HHHHCCCCCHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHHC
T ss_conf 9817526-------5545059988999999986899819978878899839999999999855
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=257.54 Aligned_cols=185 Identities=19% Similarity=0.185 Sum_probs=124.8
Q ss_pred CCCCCHHHHHHHHHHHHC----CCEEEEECCCCCCHHHHHHHHHHHHHHCCC-EEEEEECCHHHHHHHHHHHHHCCCCEE
Q ss_conf 899999999999999914----990999925999758999999999981699-499994668999999999851698589
Q 000698 942 EKSLNDDQRRAIIKVLTA----KDYALILGMPGTGKTSTMVHAVKALLMRGA-SILLTSYTNSAVDNLLIKLKSQSIDFV 1016 (1345)
Q Consensus 942 ~~~LN~eQ~~AI~~~l~a----~d~~LI~GpPGTGKTttIa~lI~~Lv~~gk-kVLitA~TnsAVDnLl~kL~~~~i~il 1016 (1345)
...||++|++|+..++.. ++..+|.|+||||||+++.+++..|...|. +|+++|||+.|++++.+++.. ..
T Consensus 23 ~~~Ln~~Q~~av~~~~~~i~~~~~~~li~G~aGTGKT~ll~~~~~~l~~~~~~~il~~a~T~~Aa~~l~~~~~~---~~- 98 (459)
T 3upu_A 23 FDDLTEGQKNAFNIVMKAIKEKKHHVTINGPAGTGATTLTKFIIEALISTGETGIILAAPTHAAKKILSKLSGK---EA- 98 (459)
T ss_dssp SSCCCHHHHHHHHHHHHHHHSSSCEEEEECCTTSCHHHHHHHHHHHHHHTTCCCEEEEESSHHHHHHHHHHHSS---CE-
T ss_pred CCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHCC---CH-
T ss_conf 23489999999999999873689779999699998999999999999864996099966757899988766165---41-
Q ss_pred EECCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHH---CC
Q ss_conf 970120125888875310012020999999621361999972365665556899789999579999978876100---03
Q 000698 1017 RIGRHEVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVSLGPL---MF 1093 (1345)
Q Consensus 1017 RiG~~~~i~~~i~~~~l~~~~~~s~~~lk~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIIDEASQitep~~L~pL---~~ 1093 (1345)
..+|..+.. .... ......+.. ...-....|+++|||||++++....-..+ ..
T Consensus 99 -----~T~h~~~~~---~~~~----------~~~~~~~~~------~~~~~~~~~~~iiiDE~~~~~~~~~~~l~~~~~~ 154 (459)
T 3upu_A 99 -----STIHSILKI---NPVT----------YEENVLFEQ------KEVPDLAKCRVLICDEVSMYDRKLFKILLSTIPP 154 (459)
T ss_dssp -----EEHHHHHTE---EEEE----------CSSCEEEEE------CSCCCCSSCSEEEESCGGGCCHHHHHHHHHHSCT
T ss_pred -----HHHHHHHCC---CCCC----------CCCCCHHCC------CCCCCCCCCCEEEEECCHHCCHHHHHHHHHHCCC
T ss_conf -----559988546---8554----------553002000------3333346788999988011899999999984568
Q ss_pred CCEEEEECCCCCCCCCCCCHHHHHCCCCCHHHHHHHHHCCCCEECCCCCCCCCHHHHHHHHHHHHCCC
Q ss_conf 69699975877789654663787639951399999982894300122234586248999999650895
Q 000698 1094 ASKFVLVGDHYQLPPLVQSTEARENGMEISLFRRLSEEHPQAISALQSQYRMCQGIMELSNALIYGDR 1161 (1345)
Q Consensus 1094 a~klVLVGDh~QLPPvV~s~~a~~~Gl~~SLFerL~~~~~~~v~~L~~QYRM~~~I~~laN~liY~g~ 1161 (1345)
+.++++|||+.||||+..+.... .+..+.......+..|+.+||+++.|.+++|.+..+..
T Consensus 155 ~~~~~~vGD~~Ql~~v~~g~~~~-------~l~~~~~~~~~~~~~L~~~~R~~~~I~~~a~~lr~g~~ 215 (459)
T 3upu_A 155 WCTIIGIGDNKQIRPVDPGENTA-------YISPFFTHKDFYQCELTEVKRSNAPIIDVATDVRNGKW 215 (459)
T ss_dssp TCEEEEEECTTSCCCCCTTSCSC-------CCCGGGTCTTEEEEECCCCCCCCCHHHHHHHHHHTTCC
T ss_pred CCEEEEECCHHHCCCCCCCCCHH-------HHHHHHHCCCCCEEECEEEEECCCHHHHHHHHHHCCCC
T ss_conf 98899988778768866886247-------67799856897287550464089579999999975887
No 10
>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=252.78 Aligned_cols=352 Identities=19% Similarity=0.192 Sum_probs=197.3
Q ss_pred CHHHHHHHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHH----CCCEEEEEECCHHHHHHHHHHHHHCCCCEEEECCC
Q ss_conf 99999999999914990999925999758999999999981----69949999466899999999985169858997012
Q 000698 946 NDDQRRAIIKVLTAKDYALILGMPGTGKTSTMVHAVKALLM----RGASILLTSYTNSAVDNLLIKLKSQSIDFVRIGRH 1021 (1345)
Q Consensus 946 N~eQ~~AI~~~l~a~d~~LI~GpPGTGKTttIa~lI~~Lv~----~gkkVLitA~TnsAVDnLl~kL~~~~i~ilRiG~~ 1021 (1345)
++.|+.|+..++. ....+|+|+|||||||+++.++..+.. .+.+|+++|||+.|++++.+.+......+ .+..
T Consensus 151 ~~~Q~~Ai~~~l~-~~~~vi~G~pGTGKTt~l~~ll~~l~~~~~~~~~~vll~APTg~AA~~L~e~~~~~~~~l-~l~~- 227 (608)
T 1w36_D 151 INWQKVAAAVALT-RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLGKALRQL-PLTD- 227 (608)
T ss_dssp CCHHHHHHHHHHT-BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHTHHHHHS-SCCS-
T ss_pred CHHHHHHHHHHHC-CCCEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHHHHCC-CCCH-
T ss_conf 9999999999962-998999949999789999999999998630579759999187368999999999887507-8778-
Q ss_pred CHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCCHHHH---HHHHCCCCEEE
Q ss_conf 012588887531001202099999962136199997236566555689978999957999997887---61000369699
Q 000698 1022 EVVHKEIQKHCLSAMNINSVEEIKKRLDQVKVVAVTCLGITNPLLTDKKFDVCIMDEAGQTTLPVS---LGPLMFASKFV 1098 (1345)
Q Consensus 1022 ~~i~~~i~~~~l~~~~~~s~~~lk~~l~~~~VV~tT~~~~~~~ll~~~~FD~VIIDEASQitep~~---L~pL~~a~klV 1098 (1345)
.... ........++++..... .+ ..+.+.......+|++|||||+|++.+.. +..+..+.++|
T Consensus 228 -~~~~---~~~~~~~Tih~ll~~~~---------~~-~~~~~~~~~~l~~d~lIIDEAsml~~~~~~~Ll~~l~~~~~li 293 (608)
T 1w36_D 228 -EQKK---RIPEDASTLHRLLGAQP---------GS-QRLRHHAGNPLHLDVLVVDEASMIDLPMMSRLIDALPDHARVI 293 (608)
T ss_dssp -CCCC---SCSCCCBTTTSCC---------------------CTTSCCSCSEEEECSGGGCBHHHHHHHHHTCCTTCEEE
T ss_pred -HHHH---CCCHHHHHHHHHHCCCC---------CC-HHHHHCCCCCCCCCEEEEECHHHCCHHHHHHHHHHCCCCCEEE
T ss_conf -8873---24055550575520589---------81-6777526898779999994525089999999998488898899
Q ss_pred EECCCCCCCCCCCCHHH------HHCCCCCHHHHHHHHHCCC---------------CEECCCCCCCCCHH--HHHHHHH
Q ss_conf 97587778965466378------7639951399999982894---------------30012223458624--8999999
Q 000698 1099 LVGDHYQLPPLVQSTEA------RENGMEISLFRRLSEEHPQ---------------AISALQSQYRMCQG--IMELSNA 1155 (1345)
Q Consensus 1099 LVGDh~QLPPvV~s~~a------~~~Gl~~SLFerL~~~~~~---------------~v~~L~~QYRM~~~--I~~laN~ 1155 (1345)
|+||+.||||+..+... ...|++.+.++++.+.... .++.|+.+||++++ |..+++.
T Consensus 294 LvGD~~QL~~V~~G~vl~dl~~~~~~g~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~R~~~~s~I~~la~~ 373 (608)
T 1w36_D 294 FLGDRDQLASVEAGAVLGDICAYANAGFTAERARQLSRLTGTHVPAGTGTEAASLRDSLCLLQKSYRFGSDSGIGQLAAA 373 (608)
T ss_dssp EEECTTSGGGTSTTBCHHHHGGGGTTCCCHHHHHHHHHHSSSCCCCCSTTTTHHHHTTEEECCCCCCSSCCTTHHHHHHH
T ss_pred EECCHHHCCCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEECCEEEEECCCCHHHHHHHH
T ss_conf 97660445887898079999987753666788999987317543432112355444627762254520784359999999
Q ss_pred HHHCCCCCCCCHHHHHH---HCCCC---CCCC-----------CCHHHHHH---CCCC------CCEEEE-ECCCC----
Q ss_conf 65089578885455421---10036---7889-----------85355520---2999------878999-48998----
Q 000698 1156 LIYGDRLSCGSDEIANA---KIKVS---DLSS-----------CSPWLKEA---LNPC------RPVIFV-NTDML---- 1204 (1345)
Q Consensus 1156 liY~g~L~~~~~~va~~---~l~~~---~~~~-----------~~~wl~~~---l~p~------~~v~Fi-dt~~~---- 1204 (1345)
+ ..|...... ...+. .+.+. .... ...++..+ ..+. ..+..+ .....
T Consensus 374 i-~~g~~~~~~-~~l~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~vL~~~~~g~~gv 451 (608)
T 1w36_D 374 I-NRGDKTAVK-TVFQQDFTDIEKRLLQSGEDYIAMLEEALAGYGRYLDLLQARAEPDLIIQAFNEYQLLCALREGPFGV 451 (608)
T ss_dssp H-TSCHHHHHT-TTSGGGCCSSBCCBCCSTTTHHHHHHHHHHHTHHHHHHHHTCCCSSTTHHHHTTEEEEESCSSSSSSH
T ss_pred H-HCCCCHHHH-HHHCCCCCCEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCCCCHHH
T ss_conf 8-658815689-98547888659972688678999999999999999998651248899988986655327746883669
Q ss_pred CCC----CCC-CCCCCCC-HHHH-HHHHHHHH---HHHHCCCCCCCEEEEECCHHHHHH-HH-------HH----CC-CC
Q ss_conf 100----024-6677789-9999-99999999---999879999839999337688999-99-------77----28-89
Q 000698 1205 PAY----EAK-DHQTLNN-PVEA-CLIAKITQ---ELVKNEIEGKDIGIITPYNSQANL-IR-------HS----LS-VS 1261 (1345)
Q Consensus 1205 ~~~----e~~-~~~s~~N-~~EA-~lV~~lv~---~Ll~~Gv~~~dIgVITPYraQv~l-Lr-------~~----L~-~~ 1261 (1345)
... +.. ....... ..+. ..+-+-|- .--..|+.++|||+|++....... +. .. +. ..
T Consensus 452 ~~lN~~i~~~l~~~~~~~~~~~~~~~~Gd~Vm~~~Nd~~~gl~NGdiG~V~~~~~~l~v~f~~~dg~~~~~~~~~l~~l~ 531 (608)
T 1w36_D 452 AGLNERIEQFMQQKRKIHRHPHSRWYEGRPVMIARNDSALGLFNGDIGIALDRGQGTRVWFAMPDGNIKSVQPSRLPEHE 531 (608)
T ss_dssp HHHHHHHHGGGTSCC--------------------------------------------------------CCSCCCSCS
T ss_pred HHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEECHHHCCCCCCEEEEEECCCEEEEEEECCCCCEEEECHHHCCCCC
T ss_conf 99999999983856765546666542897236755561433637976999973881799998899958995657777624
Q ss_pred CCEEEECCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEEECCHH
Q ss_conf 709990537546544789998258899988765655464112457641102446999624101
Q 000698 1262 SVEIHTIDKYQGRDKDCILVSFVRSSENPRNCTSSLLGDWHRINVALTRAKKKLIMVGSCRTL 1324 (1345)
Q Consensus 1262 ~VeV~TVDkfQGrEkdvVIIS~vrSn~~~~~~~~~fL~d~rRLNVAlTRAK~kLIIVGs~~tL 1324 (1345)
...+.|||++||.|++.||+.+..... ...+++.+|||+||||+.|+++|+...|
T Consensus 532 ~~~a~TihksqG~e~~~v~~~~~~~~~--------~~~~~~~~Yva~tRa~~~l~l~~~~~~l 586 (608)
T 1w36_D 532 TTWAMTVHKSQGSEFDHAALILPSQRT--------PVVTRELVYTAVTRARRRLSLYADERIL 586 (608)
T ss_dssp SCSEEETTTTTTCCBSEEEEECCSSCC--------SSSCHHHHHHHHTTBSSCEEEECCTTHH
T ss_pred EEEEEEEEECCCCCCCEEEEEECCCCC--------CHHHHHHHHHHHHHHHCEEEEEECHHHH
T ss_conf 489998781364348869999189866--------1334223773160443668999888999
Done!