Query 000542
Match_columns 1433
No_of_seqs 294 out of 2208
Neff 6.3
Searched_HMMs 29240
Date Tue Mar 26 17:44:27 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000542.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_314-318//hhsearch_pdb/000542hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3mwy_W Chromo domain-containin 1.0 1 1 721.6 19.3 608 520-1432 96-731 (800)
2 1z3i_X Similar to RAD54-like; 1.0 1 1 685.5 32.0 495 662-1433 51-570 (644)
3 1z63_A Helicase of the SNF2/RA 1.0 1 1 634.5 35.5 462 659-1433 31-495 (500)
4 3dmq_A RNA polymerase-associat 1.0 1 1 462.8 25.0 425 663-1407 150-633 (968)
5 1wp9_A ATP-dependent RNA helic 1.0 1 1 377.2 30.0 465 664-1407 7-493 (494)
6 1z5z_A Helicase of the SNF2/RA 1.0 1 1 352.1 22.5 255 995-1433 11-266 (271)
7 2fwr_A DNA repair protein RAD2 1.0 1 1 341.5 19.4 378 664-1406 91-471 (472)
8 4a2w_A RIG-I, retinoic acid in 1.0 1 1 324.6 30.1 128 1277-1410 630-769 (936)
9 4a2q_A RIG-I, retinoic acid in 1.0 1 1 316.4 27.8 129 1277-1411 630-770 (797)
10 4a2p_A RIG-I, retinoic acid in 1.0 1 1 310.1 24.4 140 1277-1428 389-540 (556)
No 1
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=721.60 Aligned_cols=608 Identities=23% Similarity=0.361 Sum_probs=444.3
Q ss_pred CCCCHHHHHHHHCCCCCCCCCC---CCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCC------CCCCHHHHHHCCCCC
Q ss_conf 2343021001000121111223---5779432145887776577999983898015896------565223642100135
Q 000542 520 ELDGVKEDMEAEIKTRSMASHL---LKLSPESIQSNSSDCKSHVDDEPDICILEDISQP------ARSNQSLVLGKTLSM 590 (1433)
Q Consensus 520 ~~~~~~~~~~~~~~~~~~~~~l---~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~------~~~~~~~~~~~~l~~ 590 (1433)
.+++.++..++.++.+..+.+. +-.++|+++...++.+...+.-+++..+|+|=.. .......++.||-++
T Consensus 96 ~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~e~~e~~~~~~e~~~~~~~~~~~veRii~~~~~~~~~~~~~~~yLvKW~~L 175 (800)
T 3mwy_W 96 QVRGLKRLDNYCKQFIIEDQQVRLDPYVTAEDIEIMDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRL 175 (800)
T ss_dssp SCBTTHHHHHHHHHHTHHHHHHTCSTTSCHHHHHHHHHHHHHHHHHHTTTTCEEEECCCCCEECTTSCEECBCCEEETTS
T ss_pred HCCHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCCCCCCEEEEEEECCC
T ss_conf 34157999999998632778875189998788888756665420001113534689864113467898865999981578
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHH
Q ss_conf 64436655423698841223666889999999877778899887517999999986105899977789998655677567
Q 000542 591 NRSACSNHSVALGKPVVTSQHSSYSDYPGYPGVPLTGLGGMKSKASDERLILQVAMQGISQPNAEASAPDGVLAVPLLRH 670 (1433)
Q Consensus 591 ~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~der~~l~~~l~~l~~p~~e~~~P~g~l~v~L~ph 670 (1433)
+|..|.|............+...|.........+.........+. .+ ... ...|+.....+|+||
T Consensus 176 ~y~~~tWe~~~~~~~~~~~~i~~~~~r~~~~~~~~~~~~~~~~~~------------~~--~~~-~~~p~~~~~~~Lr~y 240 (800)
T 3mwy_W 176 NYDEATWENATDIVKLAPEQVKHFQNRENSKILPQYSSNYTSQRP------------RF--EKL-SVQPPFIKGGELRDF 240 (800)
T ss_dssp CSTTCBCCBHHHHTTTCHHHHHHHHHTTTCTTCSTTCCCCCSCCC------------CC--CCC-SSCCTTCCSSCCCTH
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHCCCCCCC------------CC--CCC-CCCCCCCCCCCCCHH
T ss_conf 734264336344333319999999976313447751010345577------------64--002-569986579975899
Q ss_pred HHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 99999999984105877877399906898769999999998099998876403455431145433444323564311234
Q 000542 671 QRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNGLDLVKQE 750 (1433)
Q Consensus 671 Q~~gl~wMl~rE~~~~~~~GGILADEMGLGKTIqaIALI~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~K~~ 750 (1433)
|++|+.||+..... .+||||||+||||||+++|++|......
T Consensus 241 Q~egv~~l~~~~~~---~~~~ILademGlGKT~~ai~~i~~l~~~----------------------------------- 282 (800)
T 3mwy_W 241 QLTGINWMAFLWSK---GDNGILADEMGLGKTVQTVAFISWLIFA----------------------------------- 282 (800)
T ss_dssp HHHHHHHHHHHHTT---TCCEEECCCTTSSTTHHHHHHHHHHHHH-----------------------------------
T ss_pred HHHHHHHHHHHHHC---CCCEEEEECCCCCHHHHHHHHHHHHHHH-----------------------------------
T ss_conf 99999999998513---8998998278753299999999999986-----------------------------------
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCC----------
Q ss_conf 5434345899987530134320289998389995703299999999987148999389999489878882----------
Q 000542 751 SDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDP---------- 820 (1433)
Q Consensus 751 ~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhGs~R~kd~---------- 820 (1433)
....+++|||||.+++.||++|+.+|++ .+.+.+|+|..+.+..
T Consensus 283 -----------------------~~~~~~~LIV~P~sll~qW~~E~~~~~p---~~~v~~~~g~~~~r~~~~~~~~~~~~ 336 (800)
T 3mwy_W 283 -----------------------RRQNGPHIIVVPLSTMPAWLDTFEKWAP---DLNCICYMGNQKSRDTIREYEFYTNP 336 (800)
T ss_dssp -----------------------HSCCSCEEEECCTTTHHHHHHHHHHHST---TCCEEECCCSSHHHHHHHHHHSCSCC
T ss_pred -----------------------CCCCCCEEEEECCHHHHHHHHHHHHHCC---CCEEEEEECCHHHHHHHHHHHHHCCC
T ss_conf -----------------------0779988999880389999999999779---96499982777778898887762263
Q ss_pred ----CCCCCCCEEEEECHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf ----0016887999710123013798999981358987531179999653367666889999864466678999973100
Q 000542 821 ----CELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLD 896 (1433)
Q Consensus 821 ----~~La~yDVVITTY~tl~~e~~k~~~~~~~d~~ek~~~e~~~~~~~~~~~~~krK~~~~~~rk~~~~kk~~~~~~~~ 896 (1433)
.....++||||||+++..+.
T Consensus 337 ~~~~~~~~~~dvvitTy~~l~~~~-------------------------------------------------------- 360 (800)
T 3mwy_W 337 RAKGKKTMKFNVLLTTYEYILKDR-------------------------------------------------------- 360 (800)
T ss_dssp -----CCCCCSEEEECTTHHHHTH--------------------------------------------------------
T ss_pred CCCCCCCCCCCEEEECHHHHHHHH--------------------------------------------------------
T ss_conf 001344566788990699998649--------------------------------------------------------
Q ss_pred CCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHCC
Q ss_conf 01477545470099995763357844499999982125829999734688995778854210255775425889866336
Q 000542 897 IVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKV 976 (1433)
Q Consensus 897 ~~~~pL~~i~W~RVILDEAH~IKN~~T~~~kAi~~L~Ak~RwlLTGTPIqN~l~DLyslL~FLr~~pf~~~~~F~~~i~~ 976 (1433)
..|..+.|.+||+||||++||..++.++++..+++.+||+|||||+||++.|||++++||.|+.|.....|.....
T Consensus 361 ---~~l~~~~w~~vIvDEaH~lkn~~s~~~~~l~~l~~~~rl~LTgTPiqN~l~el~~ll~fL~p~~~~~~~~~~~~~~- 436 (800)
T 3mwy_W 361 ---AELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEIDFENQ- 436 (800)
T ss_dssp ---HHHHTSEEEEEEETTGGGGCCSSSHHHHHHTTSEEEEEEEECSCCCSSCSHHHHHHHHHHCSCCC---------CC-
T ss_pred ---HHHHCCCCCEEEHHHHHHHCCCHHHHHHHHHHHHHCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHCCCCC-
T ss_conf ---9983377325641344441471019999999752243897227857799999999999858663674344232223-
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 78889623389999998564420011211489886579983799998049999999999999998999999997054410
Q 000542 977 PISKNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQ 1056 (1433)
Q Consensus 977 pi~k~~~~~~~~L~~lL~~imLRRtK~dv~dG~pii~LPpk~~~vv~v~lS~eEr~lY~~L~~~sr~~~~~~~~~g~~~~ 1056 (1433)
.......+..|+.++.++|+||+|.++.. .||++.+.++.++|++.|+++|..+.......+.... ..
T Consensus 437 --~~~~~~~~~~L~~~l~p~~lRR~k~dv~~-----~LP~k~~~~v~v~ls~~q~~~Y~~i~~~~~~~l~~~~-----~~ 504 (800)
T 3mwy_W 437 --DEEQEEYIHDLHRRIQPFILRRLKKDVEK-----SLPSKTERILRVELSDVQTEYYKNILTKNYSALTAGA-----KG 504 (800)
T ss_dssp --TTHHHHHHHHHHHTTGGGEEECCGGGGTT-----TSCCEEEEEEEECCCHHHHHHHHHHHHHCCC-------------
T ss_pred --CHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----CCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCC-----CC
T ss_conf --14689999999999757775320876643-----1688279999707999999999999999999986103-----54
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHCCCCCCCC
Q ss_conf 19999999999998706710002457504566479998416079999999986520112467799987311013584110
Q 000542 1057 NYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFC 1136 (1433)
Q Consensus 1057 ~~~~IL~lLlrLRqac~HP~Lv~~~~~~s~~~~s~e~a~kl~~e~~~~ll~~le~~~~~C~iC~~~~~~~vlt~CgHifC 1136 (1433)
...+++..+++||++|+||.++....... ......
T Consensus 505 ~~~~~l~~l~~Lrk~~~hp~l~~~~~~~~--------~~~~~~------------------------------------- 539 (800)
T 3mwy_W 505 GHFSLLNIMNELKKASNHPYLFDNAEERV--------LQKFGD------------------------------------- 539 (800)
T ss_dssp --CTHHHHHHHHHHHHHCGGGSSSHHHHH--------CCCC---------------------------------------
T ss_pred CHHHHHHHHHHHHHHHCCHHHHCCHHHHH--------HHHCCC-------------------------------------
T ss_conf 54469999999998735865423557899--------886156-------------------------------------
Q ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 34565420038998888532233442210234210233245899998888888742235886678544537899999999
Q 000542 1137 NQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVL 1216 (1433)
Q Consensus 1137 ~~Ci~~~l~~~~~~CP~~~C~~~l~~~~~~s~~~l~~~~~~~~~~~~i~~~~s~~e~~e~~~~~~~~~~SsKikallelL 1216 (1433)
. ... ... ........++|+..+.++|
T Consensus 540 -----------~----------~~~----------------------------~~~-----~~~~l~~~s~K~~~L~~lL 565 (800)
T 3mwy_W 540 -----------G----------KMT----------------------------REN-----VLRGLIMSSGKMVLLDQLL 565 (800)
T ss_dssp -----------------------CC----------------------------SHH-----HHHHHHHTCHHHHHHHHHH
T ss_pred -----------C----------CCC----------------------------HHH-----HHHHHHHCCHHHHHHHHHH
T ss_conf -----------6----------555----------------------------778-----8887664276999999999
Q ss_pred HHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCEEEEECCCHHHHHHHHH
Q ss_conf 96127889865554322344788668999999889986434203568998320220101599729999266888999999
Q 000542 1217 QSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEA 1296 (1433)
Q Consensus 1217 ~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~ 1296 (1433)
..+.. .++|+||||||+.++++|+.
T Consensus 566 ~~~~~-------------------------------------------------------~g~kvLIFsq~~~~ld~L~~ 590 (800)
T 3mwy_W 566 TRLKK-------------------------------------------------------DGHRVLIFSQMVRMLDILGD 590 (800)
T ss_dssp HHHTT-------------------------------------------------------TTCCEEEEESCHHHHHHHHH
T ss_pred HHHHH-------------------------------------------------------CCCEEEEEECHHHHHHHHHH
T ss_conf 99752-------------------------------------------------------79818999635999999999
Q ss_pred HHHHCCCCEEECCCCCCHHHHHHHHHHHHCCC-CCCEEEEECCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHCCC
Q ss_conf 99817992882389979999999999970499-95399960442123568554698999838999591889979320139
Q 000542 1297 SLKDSSIQYRRLDGTMSVFARDKAVKDFNTLP-EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1297 ~L~~~gI~~~rldGsms~~eR~~~I~~Fn~d~-~v~VLLlSlkAGg~GLNLt~An~VIilDp~WNPa~e~QAigRvhRiG 1375 (1433)
+|...|+++.+++|+|+..+|++++++|++.+ ...|+|+|+++||+||||+.|++||++|++|||..+.||+||+||+|
T Consensus 591 ~L~~~g~~~~~i~G~~~~~eR~~~i~~F~~~~~~~~v~LlSt~agg~GlNL~~a~~VI~~D~~wnp~~~~Qa~gR~~RiG 670 (800)
T 3mwy_W 591 YLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHRIG 670 (800)
T ss_dssp HHHHHTCCCEEESTTSCHHHHHHHHHTTSSTTCSCCCEEEEHHHHTTTCCCTTCCEEEESSCCSCSHHHHHHHTTTSCSS
T ss_pred HHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCC
T ss_conf 99867997899969999999999999960899982599974544567877601636899468788116899999988558
Q ss_pred CCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCCC----CCCCCCCHHHHHHHHC
Q ss_conf 98959999999699999999999999999999881899767----6444689999987332
Q 000542 1376 QTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETG----GQQTRLTVDDLNYLFM 1432 (1433)
Q Consensus 1376 Qtr~V~VyrLi~kdTIEErIl~lqekK~~l~~~alg~d~~~----~~~~rlt~~DLk~LF~ 1432 (1433)
|+++|+||+|++++|+|++|++++.+|..+..++++..... .....++.+||..|+.
T Consensus 671 Q~k~V~Vyrlv~~~TiEe~i~~~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~el~~ll~ 731 (800)
T 3mwy_W 671 QKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLGVTDGNKYTKKNEPNAGELSAILK 731 (800)
T ss_dssp CCSCEEEEEEEETTSHHHHHHHHHHHHTTSCC----------------CCCCHHHHHHHHS
T ss_pred CCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHH
T ss_conf 9863799998619989999999999988899999703756653211234789999999997
No 2
>1z3i_X Similar to RAD54-like; recombination ATPase helicase, recombination-DNA binding COM; 3.00A {Danio rerio} SCOP: c.37.1.19 c.37.1.19
Probab=1.00 E-value=1 Score=685.50 Aligned_cols=495 Identities=26% Similarity=0.384 Sum_probs=390.4
Q ss_pred CCCCCCCHHHHHHHHHHHHHHCCC--CCCCCCEEECCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCCCCCCC
Q ss_conf 655677567999999999841058--778773999068987699999999980999988764034554311454334443
Q 000542 662 VLAVPLLRHQRIALSWMVQKETSS--LHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGI 739 (1433)
Q Consensus 662 ~l~v~L~phQ~~gl~wMl~rE~~~--~~~~GGILADEMGLGKTIqaIALI~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~ 739 (1433)
.+...|+|||++|+.||+....+. ...+||||||+||||||+++|++|......
T Consensus 51 ~l~~~LrpyQ~~gv~~l~~~~~~~~~~~~~g~ILad~mGlGKT~~~i~~i~~l~~~------------------------ 106 (644)
T 1z3i_X 51 VLSKVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQ------------------------ 106 (644)
T ss_dssp HHHTTCCHHHHHHHHHHHHHHTTSSSTTCCEEEECCCTTSCHHHHHHHHHHHHHHC------------------------
T ss_pred HHHHCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHH------------------------
T ss_conf 64003519999999999984233544588875961078742999999999999974------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCC
Q ss_conf 23564311234543434589998753013432028999838999570329999999998714899938999948987888
Q 000542 740 QVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKD 819 (1433)
Q Consensus 740 ~~~~~~~~K~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhGs~R~kd 819 (1433)
.+ ......+++|||||.+++.||++|+.+|++. .+.++.++|..+...
T Consensus 107 ----------~~--------------------~~~p~~~~~LiV~P~sll~qW~~E~~~~~~~--~~~~~~~~~g~~~~~ 154 (644)
T 1z3i_X 107 ----------SP--------------------DCKPEIDKVIVVSPSSLVRNWYNEVGKWLGG--RVQPVAIDGGSKDEI 154 (644)
T ss_dssp ----------CT--------------------TSSCSCSCEEEEECHHHHHHHHHHHHHHHGG--GCCEEEECSSCHHHH
T ss_pred ----------CC--------------------CCCCCCCCEEEEECHHHHHHHHHHHHHHCCC--CEEEEEEECCCHHHH
T ss_conf ----------86--------------------6567778579996589988799999997588--725999808988999
Q ss_pred C----------CCCCCCCEEEEECHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 2----------001688799971012301379899998135898753117999965336766688999986446667899
Q 000542 820 P----------CELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKG 889 (1433)
Q Consensus 820 ~----------~~La~yDVVITTY~tl~~e~~k~~~~~~~d~~ek~~~e~~~~~~~~~~~~~krK~~~~~~rk~~~~kk~ 889 (1433)
. .....++|+||||+++..+.
T Consensus 155 ~~~~~~~~~~~~~~~~~~vvi~ty~~l~~~~------------------------------------------------- 185 (644)
T 1z3i_X 155 DSKLVNFISQQGMRIPTPILIISYETFRLHA------------------------------------------------- 185 (644)
T ss_dssp HHHHHHHHCCCSSCCSCCEEEEEHHHHHHHT-------------------------------------------------
T ss_pred HHHHHHHHHHCCCCCCCCEEEEEHHHHHHHH-------------------------------------------------
T ss_conf 9999999873377778757996389987657-------------------------------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHCCCCCCCCCHHH
Q ss_conf 99731000147754547009999576335784449999998212582999973468899577885421025577542588
Q 000542 890 PDGLLLDIVAGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKS 969 (1433)
Q Consensus 890 ~~~~~~~~~~~pL~~i~W~RVILDEAH~IKN~~T~~~kAi~~L~Ak~RwlLTGTPIqN~l~DLyslL~FLr~~pf~~~~~ 969 (1433)
..|....|++||+||||+|||..++.++++..+++.+||+|||||+||++.|||++++||+|++|+....
T Consensus 186 ----------~~l~~~~~~~vI~DEaH~ikn~~~~~~~al~~l~~~~rl~LTgTPiqN~l~El~sll~fl~p~~l~~~~~ 255 (644)
T 1z3i_X 186 ----------EVLHKGKVGLVICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQE 255 (644)
T ss_dssp ----------TTTTTSCCCEEEETTGGGCCTTCHHHHHHHHHHCCSEEEEECSSCSGGGGGGCHHHHHHHHHHHHCCHHH
T ss_pred ----------HHHHCCCCCEEEEECCEECCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHH
T ss_conf ----------8750488657998786224780459999998555673799846734588999999998618876899999
Q ss_pred HHHHHCCCCCCCC------------HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHH
Q ss_conf 9866336788896------------2338999999856442001121148988657998379999804999999999999
Q 000542 970 FCSMIKVPISKNP------------VKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQL 1037 (1433)
Q Consensus 970 F~~~i~~pi~k~~------------~~~~~~L~~lL~~imLRRtK~dv~dG~pii~LPpk~~~vv~v~lS~eEr~lY~~L 1037 (1433)
|..+|..|+.++. ...+..|+.++.++|+||+|.++.. .||++.+.++.++|++.|+++|+.+
T Consensus 256 F~~~f~~pi~~~~~~~~~~~~~~~~~~~~~~L~~~l~~~~lRR~k~~v~~-----~LP~k~~~~v~~~ls~~q~~lY~~~ 330 (644)
T 1z3i_X 256 FKKRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRTSDILSK-----YLPVKIEQVVCCNLTPLQKELYKLF 330 (644)
T ss_dssp HHHHTHHHHHHHHSTTCCSHHHHHHHHHHHHHHHHHHHHEECCCGGGGGG-----TSCCEEEEEEEECCCHHHHHHHHHH
T ss_pred HHHHHCCHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HCCCCEEEEEEECCCHHHHHHHHHH
T ss_conf 99863261541677677888999999999999999889998710876764-----2798369999837998999999999
Q ss_pred HHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCCCCC
Q ss_conf 99989999999970544101999999999999870671000245750456647999841607999999998652011246
Q 000542 1038 EINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICG 1117 (1433)
Q Consensus 1038 ~~~sr~~~~~~~~~g~~~~~~~~IL~lLlrLRqac~HP~Lv~~~~~~s~~~~s~e~a~kl~~e~~~~ll~~le~~~~~C~ 1117 (1433)
....... ...........++..+++||++|+||.++.... ... .
T Consensus 331 ~~~~~~~-----~~~~~g~~~~~~l~~l~~Lrk~c~hp~l~~~~~--------------------------~~~-~---- 374 (644)
T 1z3i_X 331 LKQAKPV-----ESLQTGKISVSSLSSITSLKKLCNHPALIYEKC--------------------------LTG-E---- 374 (644)
T ss_dssp HHHHCGG-----GSSCTTCCCHHHHHHHHHHHHHHHCTHHHHHHH--------------------------HHT-C----
T ss_pred HHHHHHH-----HHHHCCCCCHHHHHHHHHHHHHHCCHHHHHHHH--------------------------HCC-C----
T ss_conf 9989999-----987627621459999999999957999888887--------------------------415-4----
Q ss_pred CCCCCCCCCHHCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 77999873110135841103456542003899888853223344221023421023324589999888888874223588
Q 000542 1118 ICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAP 1197 (1433)
Q Consensus 1118 iC~~~~~~~vlt~CgHifC~~Ci~~~l~~~~~~CP~~~C~~~l~~~~~~s~~~l~~~~~~~~~~~~i~~~~s~~e~~e~~ 1197 (1433)
+..+ .++ ... +..+...
T Consensus 375 ---~~~~-------------~~~--------~~~---------------------------------~~~~~~~------ 391 (644)
T 1z3i_X 375 ---EGFD-------------GAL--------DLF---------------------------------PQNYSTK------ 391 (644)
T ss_dssp ---TTCT-------------TGG--------GTS---------------------------------CSSCCSS------
T ss_pred ---CHHH-------------HHH--------HHC---------------------------------CCCCCCC------
T ss_conf ---0035-------------577--------645---------------------------------4211100------
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCC
Q ss_conf 66785445378999999999612788986555432234478866899999988998643420356899832022010159
Q 000542 1198 SCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLG 1277 (1433)
Q Consensus 1198 ~~~~~~~~SsKikallelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~ 1277 (1433)
......+.|+..+..++..+.. ..
T Consensus 392 --~~~~~~s~K~~~l~~ll~~~~~------------------------------------------------------~~ 415 (644)
T 1z3i_X 392 --AVEPQLSGKMLVLDYILAMTRT------------------------------------------------------TT 415 (644)
T ss_dssp --SCCGGGSHHHHHHHHHHHHHHH------------------------------------------------------HC
T ss_pred --CCCCCCCHHHHHHHHHHHHHHH------------------------------------------------------CC
T ss_conf --0570117489999999999864------------------------------------------------------69
Q ss_pred CCEEEEECCCHHHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHHHHCCCC-CCEEEEECCCCCCCCCCCCCCEEEEEC
Q ss_conf 9729999266888999999998179928823899799999999999704999-539996044212356855469899983
Q 000542 1278 GEKAIVFSQWTKMLDLLEASLKDSSIQYRRLDGTMSVFARDKAVKDFNTLPE-VSVMIMSLKAASLGLNMVAACHVLLLD 1356 (1433)
Q Consensus 1278 ~eKvIIFSq~t~~LdlLe~~L~~~gI~~~rldGsms~~eR~~~I~~Fn~d~~-v~VLLlSlkAGg~GLNLt~An~VIilD 1356 (1433)
++|+||||+|+.++++|+..|...|+.+.+++|+|+.++|++++++|++++. ..|+|+|+++||+||||+.|++||++|
T Consensus 416 ~~k~lIFs~~~~~~~~l~~~l~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~L~st~a~g~Glnl~~a~~Vi~~d 495 (644)
T 1z3i_X 416 SDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFD 495 (644)
T ss_dssp CCEEEEEESCHHHHHHHHHHHHHHTCCEEEECSSCCHHHHHHHHHHHHSTTCCCCEEEEEGGGSCTTCCCTTEEEEEECS
T ss_pred CCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEEC
T ss_conf 98799998059999999999997799789983999999999999996399999679998445566784652389899979
Q ss_pred CCCCCCHHHHHHHHHHCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHCC
Q ss_conf 89995918899793201399895999999969999999999999999999988189976764446899999873329
Q 000542 1357 LWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFMV 1433 (1433)
Q Consensus 1357 p~WNPa~e~QAigRvhRiGQtr~V~VyrLi~kdTIEErIl~lqekK~~l~~~alg~d~~~~~~~rlt~~DLk~LF~~ 1433 (1433)
+||||+.+.||+||+||+||+++|+||+|++++|+||+|+++|.+|+.++..+++++. .....++.+||+.||.+
T Consensus 496 ~~wnp~~~~Qa~gR~~R~Gq~~~v~v~~lv~~~tiEe~i~~~~~~K~~l~~~v~~~~~--~~~~~~~~~~l~~Lf~~ 570 (644)
T 1z3i_X 496 PDWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKILQRQAHKKALSSCVVDEEQ--DVERHFSLGELRELFSL 570 (644)
T ss_dssp CCSSHHHHHHHHTTSSSTTCCSCEEEEEEEETTSHHHHHHHHHHHHHHTSCCCCSCSS--SCCCSSCHHHHHHHTCC
T ss_pred CCCCCCHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCC--HHHCCCCHHHHHHHHCC
T ss_conf 9998137999988403228987269999887988999999999999999999856860--54337899999998678
No 3
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA complex complex; 3.00A {Sulfolobus solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Probab=1.00 E-value=1 Score=634.49 Aligned_cols=462 Identities=33% Similarity=0.519 Sum_probs=397.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCCCCCC
Q ss_conf 99865567756799999999984105877877399906898769999999998099998876403455431145433444
Q 000542 659 PDGVLAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNG 738 (1433)
Q Consensus 659 P~g~l~v~L~phQ~~gl~wMl~rE~~~~~~~GGILADEMGLGKTIqaIALI~~~r~~~~~~~~~~~~~~~~~~~~~~~~~ 738 (1433)
|.+ +...|+|||++|+.||+..... .+||||||+||+|||+++++++.....
T Consensus 31 p~~-~~~~L~~~Q~~~v~~l~~~~~~---~~~~ilad~~GlGKT~~ai~~i~~~~~------------------------ 82 (500)
T 1z63_A 31 PYN-IKANLRPYQIKGFSWMRFMNKL---GFGICLADDMGLGKTLQTIAVFSDAKK------------------------ 82 (500)
T ss_dssp CCS-CSSCCCHHHHHHHHHHHHHHHT---TCCEEECCCTTSCHHHHHHHHHHHHHH------------------------
T ss_pred CHH-HHCCCHHHHHHHHHHHHHHHHC---CCCEEEEECCCCCHHHHHHHHHHHHHH------------------------
T ss_conf 833-2003369999999999997417---998899808997389999999998875------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCC
Q ss_conf 32356431123454343458999875301343202899983899957032999999999871489993899994898788
Q 000542 739 IQVNGLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRTK 818 (1433)
Q Consensus 739 ~~~~~~~~~K~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhGs~R~k 818 (1433)
..+.+++|||||.+++.||.+|+.+|++ .+++.+++|....
T Consensus 83 -----------------------------------~~~~~~~LIv~P~~l~~qw~~e~~~~~~---~~~v~~~~g~~~~- 123 (500)
T 1z63_A 83 -----------------------------------ENELTPSLVICPLSVLKNWEEELSKFAP---HLRFAVFHEDRSK- 123 (500)
T ss_dssp -----------------------------------TTCCSSEEEEECSTTHHHHHHHHHHHCT---TSCEEECSSSTTS-
T ss_pred -----------------------------------CCCCCCEEEECCHHHHHHHHHHHHHHCC---CCEEEEEECCCHH-
T ss_conf -----------------------------------5899978999038999999999999779---9559997267021-
Q ss_pred CCCCCCCCCEEEEECHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 82001688799971012301379899998135898753117999965336766688999986446667899997310001
Q 000542 819 DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIV 898 (1433)
Q Consensus 819 d~~~La~yDVVITTY~tl~~e~~k~~~~~~~d~~ek~~~e~~~~~~~~~~~~~krK~~~~~~rk~~~~kk~~~~~~~~~~ 898 (1433)
..+..++|||+||+++..+.
T Consensus 124 --~~~~~~~ivi~t~~~l~~~~---------------------------------------------------------- 143 (500)
T 1z63_A 124 --IKLEDYDIILTTYAVLLRDT---------------------------------------------------------- 143 (500)
T ss_dssp --CCGGGSSEEEEEHHHHTTCH----------------------------------------------------------
T ss_pred --CCCCCCCEEEEEHHHHHCCC----------------------------------------------------------
T ss_conf --00357768996379972630----------------------------------------------------------
Q ss_pred CCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHCCCC
Q ss_conf 47754547009999576335784449999998212582999973468899577885421025577542588986633678
Q 000542 899 AGPLAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPI 978 (1433)
Q Consensus 899 ~~pL~~i~W~RVILDEAH~IKN~~T~~~kAi~~L~Ak~RwlLTGTPIqN~l~DLyslL~FLr~~pf~~~~~F~~~i~~pi 978 (1433)
.+....|++||+||||++||..++.++++..+.+.+||+|||||++|++.|||++++||++++|..+..|...|..|+
T Consensus 144 --~l~~~~~~~vIvDEaH~~kn~~~~~~~~l~~l~~~~~l~LTaTP~~n~~~el~~ll~~l~p~~~~~~~~f~~~~~~~~ 221 (500)
T 1z63_A 144 --RLKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPI 221 (500)
T ss_dssp --HHHTCCEEEEEEETGGGGSCTTSHHHHHHHTSCEEEEEEECSSCSTTCHHHHHHHHHHHSTTTTCCHHHHHTTTHHHH
T ss_pred --HHCCCCCCEEEEECCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCC
T ss_conf --211787287998084101787689999999600471899746777799999999999858775799899999852511
Q ss_pred CCCCHHHHHHHHHHHHHHHHHCCCCC--CCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 88962338999999856442001121--1489886579983799998049999999999999998999999997054410
Q 000542 979 SKNPVKGYKKLQAVLKTIMLRRTKGT--LLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQ 1056 (1433)
Q Consensus 979 ~k~~~~~~~~L~~lL~~imLRRtK~d--v~dG~pii~LPpk~~~vv~v~lS~eEr~lY~~L~~~sr~~~~~~~~~g~~~~ 1056 (1433)
..+.......|+.++.++++||+|.+ +.. .||++.+..+.+++++.|+.+|..+.......+ .......
T Consensus 222 ~~~~~~~~~~l~~~l~~~~lrr~k~~~~~~~-----~lp~~~~~~v~~~l~~~~~~~y~~~~~~~~~~~----~~~~~~~ 292 (500)
T 1z63_A 222 KKGDNMAKEELKAIISPFILRRTKYDKAIIN-----DLPDKIETNVYCNLTPEQAAMYKAEVENLFNNI----DSVTGIK 292 (500)
T ss_dssp HTTCHHHHHHHHHHHTTTEECCCTTCHHHHT-----TSCSEEEEEEEECCCHHHHHHHHHHHHHHTTTT----TTCCTHH
T ss_pred CCCCHHHHHHHHHHHHHHEEEECCCCCCHHH-----CCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHH----HHHHCCC
T ss_conf 1466889999999976674550255424112-----299975899981899999999999999999999----8642321
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHCCCCCCCC
Q ss_conf 19999999999998706710002457504566479998416079999999986520112467799987311013584110
Q 000542 1057 NYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFC 1136 (1433)
Q Consensus 1057 ~~~~IL~lLlrLRqac~HP~Lv~~~~~~s~~~~s~e~a~kl~~e~~~~ll~~le~~~~~C~iC~~~~~~~vlt~CgHifC 1136 (1433)
....++..+++||++|+||.++....
T Consensus 293 ~~~~~~~~l~~lr~~~~~p~l~~~~~------------------------------------------------------ 318 (500)
T 1z63_A 293 RKGMILSTLLKLKQIVDHPALLKGGE------------------------------------------------------ 318 (500)
T ss_dssp HHHHHHHHHHHHHHHTTCTHHHHCSC------------------------------------------------------
T ss_pred CHHHHHHHHHHHHHHHCCHHHHCCCC------------------------------------------------------
T ss_conf 06799999999998817998843852------------------------------------------------------
Q ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf 34565420038998888532233442210234210233245899998888888742235886678544537899999999
Q 000542 1137 NQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVL 1216 (1433)
Q Consensus 1137 ~~Ci~~~l~~~~~~CP~~~C~~~l~~~~~~s~~~l~~~~~~~~~~~~i~~~~s~~e~~e~~~~~~~~~~SsKikallelL 1216 (1433)
.....++|+..+.+++
T Consensus 319 ----------------------------------------------------------------~~~~~s~K~~~l~~~l 334 (500)
T 1z63_A 319 ----------------------------------------------------------------QSVRRSGKMIRTMEII 334 (500)
T ss_dssp ----------------------------------------------------------------CCSTTCHHHHHHHHHH
T ss_pred ----------------------------------------------------------------CHHHCCHHHHHHHHHH
T ss_conf ----------------------------------------------------------------0111155299999999
Q ss_pred HHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCEEEEECCCHHHHHHHHH
Q ss_conf 96127889865554322344788668999999889986434203568998320220101599729999266888999999
Q 000542 1217 QSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEA 1296 (1433)
Q Consensus 1217 ~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~ 1296 (1433)
..+.. .++|+|||++++.+++.|+.
T Consensus 335 ~~~~~-------------------------------------------------------~~~k~lvF~~~~~~~~~l~~ 359 (500)
T 1z63_A 335 EEALD-------------------------------------------------------EGDKIAIFTQFVDMGKIIRN 359 (500)
T ss_dssp HHHHT-------------------------------------------------------TTCCEEEECSCHHHHHHHHH
T ss_pred HHHHC-------------------------------------------------------CCCCEEEEEEHHHHHHHHHH
T ss_conf 99872-------------------------------------------------------68868999721889999999
Q ss_pred HHHHC-CCCEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHCCC
Q ss_conf 99817-99288238997999999999997049995399960442123568554698999838999591889979320139
Q 000542 1297 SLKDS-SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIG 1375 (1433)
Q Consensus 1297 ~L~~~-gI~~~rldGsms~~eR~~~I~~Fn~d~~v~VLLlSlkAGg~GLNLt~An~VIilDp~WNPa~e~QAigRvhRiG 1375 (1433)
.|... |+.+.+++|+++.++|++++++|++++++.|+|++++++++||||+.|++||++|++|||..+.||+||++|+|
T Consensus 360 ~l~~~~~~~~~~~~g~~~~~~R~~~~~~F~~~~~~~vil~st~~~~~Glnl~~~~~vi~~d~~~~~~~~~Q~~gR~~R~G 439 (500)
T 1z63_A 360 IIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIG 439 (500)
T ss_dssp HHHHHHTCCCCEEETTSCHHHHHHHHHHHHHCTTCCCCEEECCCC-CCCCCTTCSEEEESSCCSCC---CHHHHTTTTTT
T ss_pred HHHHHHCCCEEEEECCCCHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCHHHCCEEEEECCCCCCCHHHHHHHHHHHCC
T ss_conf 99885388769997999999999999996089998779995333557774455888999589989545899999888738
Q ss_pred CCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHCC
Q ss_conf 9895999999969999999999999999999988189976764446899999873329
Q 000542 1376 QTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFMV 1433 (1433)
Q Consensus 1376 Qtr~V~VyrLi~kdTIEErIl~lqekK~~l~~~alg~d~~~~~~~rlt~~DLk~LF~~ 1433 (1433)
|+++|+||+|++++|+|++|++++++|+.+++.+++.+. .....++.+||+.||++
T Consensus 440 q~~~v~v~~lv~~~tiee~i~~~~~~K~~l~~~~~~~~~--~~~~~~~~~~l~~l~~~ 495 (500)
T 1z63_A 440 QTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSGD--SWITELSTEELRKVIEL 495 (500)
T ss_dssp TTSCEEEEEEEETTSHHHHTHHHHTTCSSSSSSGGGSTT--GGGGSSCHHHHHHHHSC
T ss_pred CCCEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHCCC--CHHCCCCHHHHHHHHCC
T ss_conf 987069999774898999999999999999999860685--02115999999999646
No 4
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription factor, RNA polymerase recycling, activator, ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Probab=1.00 E-value=1 Score=462.76 Aligned_cols=425 Identities=18% Similarity=0.258 Sum_probs=317.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCC
Q ss_conf 55677567999999999841058778773999068987699999999980999988764034554311454334443235
Q 000542 663 LAVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVN 742 (1433)
Q Consensus 663 l~v~L~phQ~~gl~wMl~rE~~~~~~~GGILADEMGLGKTIqaIALI~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 742 (1433)
..+.|+|||++++.|++.+. ..|+||||+||+|||+++++++.....
T Consensus 150 ~~~~LrpyQ~eav~~~l~~~-----~~~~LLad~tGlGKTi~Ai~~i~~l~~---------------------------- 196 (968)
T 3dmq_A 150 QRTSLIPHQLNIAHDVGRRH-----APRVLLADEVGLGKTIEAGMILHQQLL---------------------------- 196 (968)
T ss_dssp CSSCCCHHHHHHHHHHHHSS-----SCEEEECCCTTSCHHHHHHHHHHHHHH----------------------------
T ss_pred CCCCCCHHHHHHHHHHHHHC-----CCCEEEECCCCCCHHHHHHHHHHHHHH----------------------------
T ss_conf 89997099999999999705-----898898789997599999999999998----------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCEEEEECHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCC----C
Q ss_conf 643112345434345899987530134320289998389995703299999999987148999389999489878----8
Q 000542 743 GLDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPTSVLRQWAEELRNKVTSKGSLSVLVYHGSSRT----K 818 (1433)
Q Consensus 743 ~~~~~K~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~SLL~QW~~EI~k~~~~~~~L~VlvyhGs~R~----k 818 (1433)
..+.+++|||||.+|+.||..|+.+++. +.+.+|+|.... .
T Consensus 197 -------------------------------~g~~~rvLIVvP~sLl~Qw~~E~~~~f~----l~v~v~~~~~~~~~~~~ 241 (968)
T 3dmq_A 197 -------------------------------SGAAERVLIIVPETLQHQWLVEMLRRFN----LRFALFDDERYAEAQHD 241 (968)
T ss_dssp -------------------------------TSSCCCEEEECCTTTHHHHHHHHHHHSC----CCCEECCHHHHHHHHHT
T ss_pred -------------------------------HCCCCEEEEEECHHHHHHHHHHHHHHHC----CCEEEECCCHHHHHHHH
T ss_conf -------------------------------1899829999578889999999999869----98799806205554320
Q ss_pred CCCCCCCCCEEEEECHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 82001688799971012301379899998135898753117999965336766688999986446667899997310001
Q 000542 819 DPCELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIV 898 (1433)
Q Consensus 819 d~~~La~yDVVITTY~tl~~e~~k~~~~~~~d~~ek~~~e~~~~~~~~~~~~~krK~~~~~~rk~~~~kk~~~~~~~~~~ 898 (1433)
....+..++|||+||+++......
T Consensus 242 ~~~~~~~~dIvI~T~~~L~~~~~~-------------------------------------------------------- 265 (968)
T 3dmq_A 242 AYNPFDTEQLVICSLDFARRSKQR-------------------------------------------------------- 265 (968)
T ss_dssp TCSSSTTCSEEEECHHHHHTSTTT--------------------------------------------------------
T ss_pred CCCCCCCCCEEEECHHHHHHCHHH--------------------------------------------------------
T ss_conf 036445689899768998648788--------------------------------------------------------
Q ss_pred CCCCCCCCCCEEEECCCCCCCCHHHH---HHHHHHHC--CCCCEEEEECCCCCCCHHHHHHHHHCCCCCCCCCHHHHHHH
Q ss_conf 47754547009999576335784449---99999821--25829999734688995778854210255775425889866
Q 000542 899 AGPLAKVGWFRVVLDEAQSIKNHRTQ---VARACWGL--RAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSM 973 (1433)
Q Consensus 899 ~~pL~~i~W~RVILDEAH~IKN~~T~---~~kAi~~L--~Ak~RwlLTGTPIqN~l~DLyslL~FLr~~pf~~~~~F~~~ 973 (1433)
...+....|++||+||||+++|..+. .++++..| ++.++|+|||||++|++.|+|++++||.+..|..+..|...
T Consensus 266 ~~~l~~~~~dlVIvDEAH~~kn~~~~~s~~~~~l~~L~~~~~~~L~LTATPi~n~~~el~sll~~L~p~~~~~~~~f~~~ 345 (968)
T 3dmq_A 266 LEHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGMESHFARLRLLDPNRFHDFAQFVEE 345 (968)
T ss_dssp THHHHTSCCCEEEECCSSCCCCBTTBCCHHHHHHHHHHTTCSSEEESCSSCSSSCSSCTHHHHHHHCTTTCSSTHHHHHH
T ss_pred HHHHHHCCCCEEEEHHHHHHCCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHH
T ss_conf 88764158778974446762588875429999999986257858999768766987999999982593011898999999
Q ss_pred HCCCC----------CC---------------------------------CCHHHHHHHHHHH-----HHHHHHCCCCCC
Q ss_conf 33678----------88---------------------------------9623389999998-----564420011211
Q 000542 974 IKVPI----------SK---------------------------------NPVKGYKKLQAVL-----KTIMLRRTKGTL 1005 (1433)
Q Consensus 974 i~~pi----------~k---------------------------------~~~~~~~~L~~lL-----~~imLRRtK~dv 1005 (1433)
+.... .. ........+..++ ..+++|+++..+
T Consensus 346 ~~~~~~i~~~~~~l~~~~~~~~~~~~~L~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~i~~lld~~g~~~~l~r~~r~~i 425 (968)
T 3dmq_A 346 QKNYCPVADAVAMLLAGNKLSNDELNMLGEMIGEQDIEPLLQAANSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGV 425 (968)
T ss_dssp HHHHHHHHHHHHTTTTSCCCCGGGTTSSTTTTCTTCSSTTGGGTCCCSSCSTTTHHHHHHHHGGGCTTTTTEECCCTTTC
T ss_pred HHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf 98578899999987426789988999999884203367887503622233379999999999986173326563226554
Q ss_pred CCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHH
Q ss_conf 48988657998379999804999999999999999899999999705441019999999999998706710002457504
Q 000542 1006 LDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDHPLLVKGFDSNS 1085 (1433)
Q Consensus 1006 ~dG~pii~LPpk~~~vv~v~lS~eEr~lY~~L~~~sr~~~~~~~~~g~~~~~~~~IL~lLlrLRqac~HP~Lv~~~~~~s 1085 (1433)
. .+|++....+.+++++.++..|...... ........ ....+.+|..+
T Consensus 426 ~------~~p~r~~~~~~l~~~~~~~~~~~~~~~~---------~~~~~~~~----------~~~~~l~pe~~------- 473 (968)
T 3dmq_A 426 K------GFPKRELHTIKLPLPTQYQTAIKVSGIM---------GARKSAED----------RARDMLYPERI------- 473 (968)
T ss_dssp C------CCCCCCCCEEEECCCHHHHHHHHHHHHT---------TCCSSGGG----------GTHHHHCSGGG-------
T ss_pred C------CCCHHHEEEEECCCCHHHHHHHHHHHHH---------HHHHHHHH----------HHHHHCCHHHH-------
T ss_conf 5------5671115752368999999999987543---------02126677----------77641085989-------
Q ss_pred HHHHHHHHHHHCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCH
Q ss_conf 56647999841607999999998652011246779998731101358411034565420038998888532233442210
Q 000542 1086 LLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSV 1165 (1433)
Q Consensus 1086 ~~~~s~e~a~kl~~e~~~~ll~~le~~~~~C~iC~~~~~~~vlt~CgHifC~~Ci~~~l~~~~~~CP~~~C~~~l~~~~~ 1165 (1433)
T Consensus 474 -------------------------------------------------------------------------------- 473 (968)
T 3dmq_A 474 -------------------------------------------------------------------------------- 473 (968)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred --------------------------------------------------------------------------------
T ss_conf --------------------------------------------------------------------------------
Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 23421023324589999888888874223588667854453789999999996127889865554322344788668999
Q 000542 1166 FSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGD 1245 (1433)
Q Consensus 1166 ~s~~~l~~~~~~~~~~~~i~~~~s~~e~~e~~~~~~~~~~SsKikallelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~ 1245 (1433)
+. .+. . ........+.|+.++.+++...
T Consensus 474 ~~------~l~-------------~-------~~~~~~~~~~K~~~L~~ll~~~-------------------------- 501 (968)
T 3dmq_A 474 YQ------EFE-------------G-------DNATWWNFDPRVEWLMGYLTSH-------------------------- 501 (968)
T ss_dssp TT------TTT-------------S-------SSCCTTTTSHHHHHHHHHHHHT--------------------------
T ss_pred HH------HHH-------------H-------HHHCCCCCCHHHHHHHHHHHHC--------------------------
T ss_conf 98------764-------------3-------3313568567999999999837--------------------------
Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCEEEEECCCHHHHHHHHHHHHH-CCCCEEECCCCCCHHHHHHHHHHH
Q ss_conf 9998899864342035689983202201015997299992668889999999981-799288238997999999999997
Q 000542 1246 SNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKD-SSIQYRRLDGTMSVFARDKAVKDF 1324 (1433)
Q Consensus 1246 ~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~~-~gI~~~rldGsms~~eR~~~I~~F 1324 (1433)
.+.|+|||+++..+++.|...|.. .|+++..++|+|+..+|++++++|
T Consensus 502 -------------------------------~~~k~iVF~~~~~~~~~l~~~L~~~~g~~~~~lhG~~~~~~R~~~l~~F 550 (968)
T 3dmq_A 502 -------------------------------RSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWF 550 (968)
T ss_dssp -------------------------------SSSCCCEECSSTHHHHHHHHHHHTTTCCCEEEECTTSCTTHHHHHHHHH
T ss_pred -------------------------------CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHH
T ss_conf -------------------------------9997899969599999999999987498389984999999999999997
Q ss_pred HCCC-CCCEEEEECCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEEEEEECCCHHHHHHHHHHHHH
Q ss_conf 0499-953999604421235685546989998389995918899793201399895999999969999999999999999
Q 000542 1325 NTLP-EVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKR 1403 (1433)
Q Consensus 1325 n~d~-~v~VLLlSlkAGg~GLNLt~An~VIilDp~WNPa~e~QAigRvhRiGQtr~V~VyrLi~kdTIEErIl~lqekK~ 1403 (1433)
++.. .+.||| ++.++++|+|++.|++||++|++|||..+.|++||++|+||++.|+||+++.++|+|++|++++.+|.
T Consensus 551 ~~g~~~~~vLv-aT~v~~~GlDl~~~~~VI~~d~p~~~~~~~Q~~GR~~R~Gq~~~v~v~~~~~~~t~ee~i~~~~~~k~ 629 (968)
T 3dmq_A 551 AEEDTGAQVLL-CSEIGSEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRWYHEGL 629 (968)
T ss_dssp HSTTSSCEEEE-CSCCTTCSSCCTTCCEEECSSCCSSHHHHHHHHHTTSCSSSCSCCEEEEEEETTSHHHHHHHHHHHTT
T ss_pred HCCCCCCCEEE-ECCHHHCCCCCCCCCEEEEECCCCCHHHHHHHHHCCCCCCCCCEEEEEEECCCCHHHHHHHHHHHHCC
T ss_conf 47997630898-53343168885567679995699987899987011430799850899980577719999999998678
Q ss_pred HHHH
Q ss_conf 9999
Q 000542 1404 EMVA 1407 (1433)
Q Consensus 1404 ~l~~ 1407 (1433)
.++.
T Consensus 630 ~~~~ 633 (968)
T 3dmq_A 630 DAFE 633 (968)
T ss_dssp CCSS
T ss_pred CCEE
T ss_conf 7635
No 5
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus furiosus} SCOP: c.37.1.19 c.37.1.19
Probab=1.00 E-value=1 Score=377.21 Aligned_cols=465 Identities=15% Similarity=0.165 Sum_probs=285.0
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 56775679999999998410587787739990689876999999999809999887640345543114543344432356
Q 000542 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 664 ~v~L~phQ~~gl~wMl~rE~~~~~~~GGILADEMGLGKTIqaIALI~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 743 (1433)
..+|+|||++++.|+++. ++||+++||+|||+++++++.....
T Consensus 7 ~~~l~~~Q~~~i~~~~~~--------~~ll~~~tG~GKT~~~~~~~~~~~~----------------------------- 49 (494)
T 1wp9_A 7 LIQPRIYQEVIYAKCKET--------NCLIVLPTGLGKTLIAMMIAEYRLT----------------------------- 49 (494)
T ss_dssp HHCCCHHHHHHHHHGGGS--------CEEEECCTTSCHHHHHHHHHHHHHH-----------------------------
T ss_pred CCCCCHHHHHHHHHHHHC--------CEEEECCCCCCHHHHHHHHHHHHHH-----------------------------
T ss_conf 878639999999999619--------9899918998789999999999986-----------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCEEEEECH-HHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCC-C
Q ss_conf 4311234543434589998753013432028999838999570-3299999999987148999389999489878882-0
Q 000542 744 LDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPT-SVLRQWAEELRNKVTSKGSLSVLVYHGSSRTKDP-C 821 (1433)
Q Consensus 744 ~~~~K~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~-SLL~QW~~EI~k~~~~~~~L~VlvyhGs~R~kd~-~ 821 (1433)
.+.+++|||||. +|+.||.+|+.+++.. ...++..++|....... .
T Consensus 50 -------------------------------~~~~~~liv~P~~~L~~q~~~~~~~~~~~-~~~~v~~~~g~~~~~~~~~ 97 (494)
T 1wp9_A 50 -------------------------------KYGGKVLMLAPTKPLVLQHAESFRRLFNL-PPEKIVALTGEKSPEERSK 97 (494)
T ss_dssp -------------------------------HSCSCEEEECSSHHHHHHHHHHHHHHBCS-CGGGEEEECSCSCHHHHHH
T ss_pred -------------------------------CCCCEEEEEECCHHHHHHHHHHHHHHHCC-CHHHEEEEECCCCHHHHHH
T ss_conf -------------------------------47985999978889999999999987475-6111687607753355665
Q ss_pred CCCCCCEEEEECHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 01688799971012301379899998135898753117999965336766688999986446667899997310001477
Q 000542 822 ELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGP 901 (1433)
Q Consensus 822 ~La~yDVVITTY~tl~~e~~k~~~~~~~d~~ek~~~e~~~~~~~~~~~~~krK~~~~~~rk~~~~kk~~~~~~~~~~~~p 901 (1433)
.+..++|+|+||+++...+.. ..
T Consensus 98 ~~~~~~ivv~T~~~l~~~~~~---------------------------------------------------------~~ 120 (494)
T 1wp9_A 98 AWARAKVIVATPQTIENDLLA---------------------------------------------------------GR 120 (494)
T ss_dssp HHHHCSEEEECHHHHHHHHHT---------------------------------------------------------TS
T ss_pred HCCCCCEEEECHHHHHHHHHC---------------------------------------------------------CC
T ss_conf 335798999639999999860---------------------------------------------------------87
Q ss_pred CCCCCCCEEEECCCCCCCCHHHHHH--H-HHHHCCCCCEEEEECCCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHCCCC
Q ss_conf 5454700999957633578444999--9-998212582999973468899577885421025577542588986633678
Q 000542 902 LAKVGWFRVVLDEAQSIKNHRTQVA--R-ACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPI 978 (1433)
Q Consensus 902 L~~i~W~RVILDEAH~IKN~~T~~~--k-Ai~~L~Ak~RwlLTGTPIqN~l~DLyslL~FLr~~pf~~~~~F~~~i~~pi 978 (1433)
+....|.+||+||||.+++...... + ........++|+|||||. |+..+++.++.++..........+...+...+
T Consensus 121 ~~~~~~~~vIiDEaH~~~~~~~~~~~~~~~~~~~~~~~~l~lTaTp~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~ 199 (494)
T 1wp9_A 121 ISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPG-STPEKIMEVINNLGIEHIEYRSENSPDVRPYV 199 (494)
T ss_dssp CCTTSCSEEEEETGGGCSTTCHHHHHHHHHHHHCSSCCEEEEESCSC-SSHHHHHHHHHHTTCCEEEECCTTSTTTGGGC
T ss_pred CCHHHCEEEEEECCCCCCCCCCHHHHHHHHHHCCCCCEEEEEECCCC-CCCHHHHHHHHHCCHHEEECCCCCCHHHHHHC
T ss_conf 15654108999787566888819999999973288776999956998-88578999998507000502678758788752
Q ss_pred C--------CCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 8--------89623389999998564420011211489886579983799998049999999999999998999999997
Q 000542 979 S--------KNPVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAA 1050 (1433)
Q Consensus 979 ~--------k~~~~~~~~L~~lL~~imLRRtK~dv~dG~pii~LPpk~~~vv~v~lS~eEr~lY~~L~~~sr~~~~~~~~ 1050 (1433)
. .........+...+..++.+|.+.....+ .+++.. ..++..+... + ...+.....
T Consensus 200 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~-----~~~~~~~~~~---~----~~~~~~~~~ 263 (494)
T 1wp9_A 200 KGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETG----LLESSS-----PDIPKKEVLR---A----GQIINEEMA 263 (494)
T ss_dssp CCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHT----SSSCCC-----TTSCHHHHHH---H----HHHHHHHHT
T ss_pred CCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHC----CCCCCC-----CCCCHHHHHH---H----HHHHHHHHH
T ss_conf 78742689568858899999989899999999999735----565457-----7733557899---9----999998753
Q ss_pred CCC-CCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHC
Q ss_conf 054-4101999999999999870671000245750456647999841607999999998652011246779998731101
Q 000542 1051 AGT-VKQNYVNILLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVS 1129 (1433)
Q Consensus 1051 ~g~-~~~~~~~IL~lLlrLRqac~HP~Lv~~~~~~s~~~~s~e~a~kl~~e~~~~ll~~le~~~~~C~iC~~~~~~~vlt 1129 (1433)
.+. ........+..+++++.+..... ..........+..+... |........-
T Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~l~~~------~~~~~~~~~~- 317 (494)
T 1wp9_A 264 KGNHDLRGLLLYHAMALKLHHAIELLE-------------------TQGLSALRAYIKKLYEE------AKAGSTKASK- 317 (494)
T ss_dssp TTCCSTTTHHHHHHHHHHHHHHHHHHH-------------------HTCHHHHHHHHHHHHHH------HHTTCCHHHH-
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHH-------------------HHCHHHHHHHHHHHHHH------HCCCCCHHHH-
T ss_conf 356311347999988888999999998-------------------52579999999999875------2232114556-
Q ss_pred CCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 35841103456542003899888853223344221023421023324589999888888874223588667854453789
Q 000542 1130 ICGHVFCNQCICERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKI 1209 (1433)
Q Consensus 1130 ~CgHifC~~Ci~~~l~~~~~~CP~~~C~~~l~~~~~~s~~~l~~~~~~~~~~~~i~~~~s~~e~~e~~~~~~~~~~SsKi 1209 (1433)
-+++..-+... .. .... .......++|+
T Consensus 318 ---~~~~~~~~~~~----------------------~~--~~~~-------------------------~~~~~~~~~k~ 345 (494)
T 1wp9_A 318 ---EIFSDKRMKKA----------------------IS--LLVQ-------------------------AKEIGLDHPKM 345 (494)
T ss_dssp ---HHHTSHHHHHH----------------------HH--HHHH-------------------------HHHHTCSCHHH
T ss_pred ---HHHHHHHHHHH----------------------HH--HHHH-------------------------HHHCCCCCHHH
T ss_conf ---66650788989----------------------99--9998-------------------------87458998699
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCEEEEECCCHH
Q ss_conf 99999999612788986555432234478866899999988998643420356899832022010159972999926688
Q 000542 1210 KAALEVLQSLAKPRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTK 1289 (1433)
Q Consensus 1210 kallelL~~l~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~ 1289 (1433)
..+.++|..+... ..+.|+|||+++..
T Consensus 346 ~~l~~~l~~~~~~-----------------------------------------------------~~~~k~lVF~~~~~ 372 (494)
T 1wp9_A 346 DKLKEIIREQLQR-----------------------------------------------------KQNSKIIVFTNYRE 372 (494)
T ss_dssp HHHHHHHHHHHHH-----------------------------------------------------CTTCCEEEECSCHH
T ss_pred HHHHHHHHHHHCC-----------------------------------------------------CCCCEEEEEECCHH
T ss_conf 9999999998436-----------------------------------------------------89975999976689
Q ss_pred HHHHHHHHHHHCCCCEEECCC--------CCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEEEEECCCCCC
Q ss_conf 899999999817992882389--------979999999999970499953999604421235685546989998389995
Q 000542 1290 MLDLLEASLKDSSIQYRRLDG--------TMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNP 1361 (1433)
Q Consensus 1290 ~LdlLe~~L~~~gI~~~rldG--------sms~~eR~~~I~~Fn~d~~v~VLLlSlkAGg~GLNLt~An~VIilDp~WNP 1361 (1433)
+++.|...|...|+.+.+++| +|+..+|+++++.|++ +.+.||| ++.++++|+||+.+++||++|++|||
T Consensus 373 ~~~~l~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~-~~~~vLv-~T~~~~~Gldl~~~~~Vi~~d~~~~~ 450 (494)
T 1wp9_A 373 TAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFAR-GEFNVLV-ATSVGEEGLDVPEVDLVVFYEPVPSA 450 (494)
T ss_dssp HHHHHHHHHHHTTCCEEEECCSSCC-------CCHHHHHHHHHHH-TSCSEEE-ECGGGGGGGGSTTCCEEEESSCCHHH
T ss_pred HHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHC-CCCEEEE-ECCCCCCCCCCHHCCEEEEECCCCCH
T ss_conf 999999999975998079965665444445899999999999866-9946999-88841258871437989992898878
Q ss_pred CHHHHHHHHHHCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHH
Q ss_conf 9188997932013998959999999699999999999999999999
Q 000542 1362 TTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVA 1407 (1433)
Q Consensus 1362 a~e~QAigRvhRiGQtr~V~VyrLi~kdTIEErIl~lqekK~~l~~ 1407 (1433)
....|++||++|.|| +.+|+|++++|+|++++.++.+|.+++.
T Consensus 451 ~~~~Qr~GR~~R~g~---g~~~~l~~~~t~ee~~~~~~~~k~~~~~ 493 (494)
T 1wp9_A 451 IRSIQRRGRTGRHMP---GRVIILMAKGTRDEAYYWSSRQKEKIMQ 493 (494)
T ss_dssp HHHHHHHTTSCSCCC---SEEEEEEETTSHHHHHHHHCC-------
T ss_pred HHHHHHHHHCCCCCC---CEEEEEEECCCHHHHHHHHHHHHHHHHC
T ss_conf 999998752257788---4699999569878999998887898730
No 6
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination, hydrolase-recombination complex; 2.00A {Sulfolobus solfataricus} SCOP: c.37.1.19
Probab=1.00 E-value=1 Score=352.06 Aligned_cols=255 Identities=29% Similarity=0.434 Sum_probs=220.7
Q ss_pred HHHHHCCCCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf 64420011211489886579983799998049999999999999998999999997054410199999999999987067
Q 000542 995 TIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNILLMLLRLRQACDH 1074 (1433)
Q Consensus 995 ~imLRRtK~dv~dG~pii~LPpk~~~vv~v~lS~eEr~lY~~L~~~sr~~~~~~~~~g~~~~~~~~IL~lLlrLRqac~H 1074 (1433)
.--+||+|+++.. +|||+.+.+++|+|+++|+++|+.+.......+ ..........+++..+++|||+|+|
T Consensus 11 ~~~~rr~k~~v~~-----~LP~k~e~~v~v~ls~~Q~~~Y~~~~~~~~~~~----~~~~~~~~~~~~l~~l~~Lrq~~~h 81 (271)
T 1z5z_A 11 SSGLVPRGSHMAS-----DLPDKIETNVYCNLTPEQAAMYKAEVENLFNNI----DSVTGIKRKGMILSTLLKLKQIVDH 81 (271)
T ss_dssp ----------------------CEEEEEEECCCHHHHHHHHHHHHHHHHHT----TTCCHHHHHHHHHHHHHHHHHHTTC
T ss_pred CCCCCCCHHHHHH-----HCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHH----HHCCCCCHHHHHHHHHHHHHHHCCC
T ss_conf 5564164877875-----199977999981899999999999999999999----7403521288999999999998489
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHCCCCCCCCHHHHHHHHCCCCCCCCCC
Q ss_conf 10002457504566479998416079999999986520112467799987311013584110345654200389988885
Q 000542 1075 PLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCICERLTADDNQCPTR 1154 (1433)
Q Consensus 1075 P~Lv~~~~~~s~~~~s~e~a~kl~~e~~~~ll~~le~~~~~C~iC~~~~~~~vlt~CgHifC~~Ci~~~l~~~~~~CP~~ 1154 (1433)
|.++....
T Consensus 82 P~l~~~~~------------------------------------------------------------------------ 89 (271)
T 1z5z_A 82 PALLKGGE------------------------------------------------------------------------ 89 (271)
T ss_dssp THHHHCSC------------------------------------------------------------------------
T ss_pred HHHHCCCC------------------------------------------------------------------------
T ss_conf 98846873------------------------------------------------------------------------
Q ss_pred CCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf 32233442210234210233245899998888888742235886678544537899999999961278898655543223
Q 000542 1155 NCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAKPRGNTVTNHSLRH 1234 (1433)
Q Consensus 1155 ~C~~~l~~~~~~s~~~l~~~~~~~~~~~~i~~~~s~~e~~e~~~~~~~~~~SsKikallelL~~l~k~~~~~~~~~~~~~ 1234 (1433)
.....++|+.++.++|..+..
T Consensus 90 ----------------------------------------------~~~~~s~K~~~L~~ll~~~~~------------- 110 (271)
T 1z5z_A 90 ----------------------------------------------QSVRRSGKMIRTMEIIEEALD------------- 110 (271)
T ss_dssp ----------------------------------------------CCSTTCHHHHHHHHHHHHHHH-------------
T ss_pred ----------------------------------------------CCCCCCHHHHHHHHHHHHHHH-------------
T ss_conf ----------------------------------------------223468999999999999986-------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHC-CCCEEECCCCCC
Q ss_conf 4478866899999988998643420356899832022010159972999926688899999999817-992882389979
Q 000542 1235 SFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDS-SIQYRRLDGTMS 1313 (1433)
Q Consensus 1235 ~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~~~-gI~~~rldGsms 1313 (1433)
.++|+||||+|+.++++|+..|... |+++.+++|+++
T Consensus 111 ------------------------------------------~~~kvlIFs~~~~~~~~l~~~L~~~~g~~~~~l~G~~~ 148 (271)
T 1z5z_A 111 ------------------------------------------EGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELS 148 (271)
T ss_dssp ------------------------------------------TTCCEEEEESCHHHHHHHHHHHHHHHCSCCCEECTTSC
T ss_pred ------------------------------------------CCCEEEEEECCHHHHHHHHHHHHHHCCCCEEEEECCCC
T ss_conf ------------------------------------------79969999551999999999998733984799979999
Q ss_pred HHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEEEEEECCCHHH
Q ss_conf 99999999997049995399960442123568554698999838999591889979320139989599999996999999
Q 000542 1314 VFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVED 1393 (1433)
Q Consensus 1314 ~~eR~~~I~~Fn~d~~v~VLLlSlkAGg~GLNLt~An~VIilDp~WNPa~e~QAigRvhRiGQtr~V~VyrLi~kdTIEE 1393 (1433)
..+|++++++|+++++++|+|+|+++||+||||+.|++||++|+||||..+.||+||+||+||+++|+||+|++++|+||
T Consensus 149 ~~~R~~~i~~F~~~~~~~v~L~st~~~g~Glnl~~a~~VI~~d~~wnp~~~~Q~~gR~~R~Gq~~~v~v~~li~~~TiEe 228 (271)
T 1z5z_A 149 KKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEE 228 (271)
T ss_dssp HHHHHHHHHHHHHCTTCCEEEEECCTTCCCCCCTTCSEEEECSCCSCTTTC--------------CCEEEEEEETTSHHH
T ss_pred HHHHHHHHHHHCCCCCCCEEEEEHHHHCCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHH
T ss_conf 99999999983289999789972235158867644899999799998518999998523238998569999854988999
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHCC
Q ss_conf 9999999999999988189976764446899999873329
Q 000542 1394 RILALQQKKREMVASAFGEDETGGQQTRLTVDDLNYLFMV 1433 (1433)
Q Consensus 1394 rIl~lqekK~~l~~~alg~d~~~~~~~rlt~~DLk~LF~~ 1433 (1433)
+|++++++|+.+++.+++.+. .....++.+||+.||.+
T Consensus 229 ~i~~~~~~K~~l~~~~~~~~~--~~~~~~~~~~l~~l~~~ 266 (271)
T 1z5z_A 229 KIDQLLAFKRSLFKDIISSGD--SWITELSTEELRKVIEL 266 (271)
T ss_dssp HHHHHHHHCHHHHTTGGGGTT--HHHHTSCHHHHHHHHSC
T ss_pred HHHHHHHHHHHHHHHHHCCCC--HHHHCCCHHHHHHHHCC
T ss_conf 999999999999999971670--54323899999999655
No 7
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein; HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19 c.37.1.19 PDB: 2fzl_A*
Probab=1.00 E-value=1 Score=341.49 Aligned_cols=378 Identities=17% Similarity=0.170 Sum_probs=269.3
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCC
Q ss_conf 56775679999999998410587787739990689876999999999809999887640345543114543344432356
Q 000542 664 AVPLLRHQRIALSWMVQKETSSLHCSGGILADDQGLGKTISTIALILKERPPSFRTEDDNKRQLETLNLDEEDNGIQVNG 743 (1433)
Q Consensus 664 ~v~L~phQ~~gl~wMl~rE~~~~~~~GGILADEMGLGKTIqaIALI~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 743 (1433)
..+|+|||.+++.++++. ..+||+++||+|||++++.++...
T Consensus 91 ~~~l~~~Q~~ai~~i~~~-------~~~ll~~~TGsGKT~~~l~~i~~~------------------------------- 132 (472)
T 2fwr_A 91 EISLRDYQEKALERWLVD-------KRGCIVLPTGSGKTHVAMAAINEL------------------------------- 132 (472)
T ss_dssp CCCBCHHHHHHHHHHTTT-------TEEEEECCTTSCHHHHHHHHHHHH-------------------------------
T ss_pred CCCCCHHHHHHHHHHHHC-------CCEEEEECCCCCHHHHHHHHHHHC-------------------------------
T ss_conf 998688999999999965-------987999699998899999999980-------------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCCEEEEECH-HHHHHHHHHHHHHHCCCCCCE-EEEEECCCCCCCCC
Q ss_conf 4311234543434589998753013432028999838999570-329999999998714899938-99994898788820
Q 000542 744 LDLVKQESDYCRVVPNGSSAKSFNFVEQAKGRPAAGTLVVCPT-SVLRQWAEELRNKVTSKGSLS-VLVYHGSSRTKDPC 821 (1433)
Q Consensus 744 ~~~~K~~~~~c~~~~~~~~~~~~~~~~~~~~~p~~~TLIVcP~-SLL~QW~~EI~k~~~~~~~L~-VlvyhGs~R~kd~~ 821 (1433)
.+++|||||. +|+.||.+++.+ + .+. +.+++|....
T Consensus 133 ---------------------------------~~~~Lvl~P~~~L~~Q~~~~~~~-~----~~~~v~~~~g~~~~---- 170 (472)
T 2fwr_A 133 ---------------------------------STPTLIVVPTLALAEQWKERLGI-F----GEEYVGEFSGRIKE---- 170 (472)
T ss_dssp ---------------------------------CSCEEEEESSHHHHHHHHHHGGG-G----CGGGEEEBSSSCBC----
T ss_pred ---------------------------------CCCEEEEECCHHHHHHHHHHHHH-C----CCCCEEEECCCCCC----
T ss_conf ---------------------------------99999998799999999999996-7----99636998787677----
Q ss_pred CCCCCCEEEEECHHHHCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 01688799971012301379899998135898753117999965336766688999986446667899997310001477
Q 000542 822 ELAKFDVVITTYSIVSMEVPKQPLGDKEDEEEKMKIEGEDLPPMYCSSSKKRKCPPSSDRKGSKQKKGPDGLLLDIVAGP 901 (1433)
Q Consensus 822 ~La~yDVVITTY~tl~~e~~k~~~~~~~d~~ek~~~e~~~~~~~~~~~~~krK~~~~~~rk~~~~kk~~~~~~~~~~~~p 901 (1433)
..+|+|+||+.+...+.
T Consensus 171 ---~~~Ivv~T~~~l~~~~~------------------------------------------------------------ 187 (472)
T 2fwr_A 171 ---LKPLTVSTYDSAYVNAE------------------------------------------------------------ 187 (472)
T ss_dssp ---CCSEEEEEHHHHHHTHH------------------------------------------------------------
T ss_pred ---CCCEEEEECHHHHHHHH------------------------------------------------------------
T ss_conf ---67789997689997799------------------------------------------------------------
Q ss_pred CCCCCCCEEEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHCCCCCCCCCHHHHHHHHCCCCCCC
Q ss_conf 54547009999576335784449999998212582999973468899577885421025577542588986633678889
Q 000542 902 LAKVGWFRVVLDEAQSIKNHRTQVARACWGLRAKRRWCLSGTPIQNAIDDLYSYFRFLRYDPFAVYKSFCSMIKVPISKN 981 (1433)
Q Consensus 902 L~~i~W~RVILDEAH~IKN~~T~~~kAi~~L~Ak~RwlLTGTPIqN~l~DLyslL~FLr~~pf~~~~~F~~~i~~pi~k~ 981 (1433)
...-.|..||+||+|.+.+.... +.+..+.+.++++|||||.++.-.+
T Consensus 188 ~~~~~~~liIvDEaH~~~~~~~~--~~~~~~~~~~~l~lSATp~~~~~~~------------------------------ 235 (472)
T 2fwr_A 188 KLGNRFMLLIFDEVHHLPAESYV--QIAQMSIAPFRLGLTATFEREDGRH------------------------------ 235 (472)
T ss_dssp HHTTTCSEEEEETGGGTTSTTTH--HHHHTCCCSEEEEEESCCCCTTSGG------------------------------
T ss_pred HHCCCCCEEEEECCCCCCCHHHH--HHHHHCCCCEEEEEECCCCCCCCHH------------------------------
T ss_conf 73687778999897578976899--9997357781899932766889778------------------------------
Q ss_pred CHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHH
Q ss_conf 62338999999856442001121148988657998379999804999999999999999899999999705441019999
Q 000542 982 PVKGYKKLQAVLKTIMLRRTKGTLLDGEPIINLPPKVIMLKQVDFTDEERDFYSQLEINSRDQFKEYAAAGTVKQNYVNI 1061 (1433)
Q Consensus 982 ~~~~~~~L~~lL~~imLRRtK~dv~dG~pii~LPpk~~~vv~v~lS~eEr~lY~~L~~~sr~~~~~~~~~g~~~~~~~~I 1061 (1433)
..+..++.+++.++...++..+ .+++.....+.+++++.++..|..+...... +.....
T Consensus 236 -----~~l~~~~~~~~~~~~~~~l~~~----~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~l~~~~-------- 294 (472)
T 2fwr_A 236 -----EILKEVVGGKVFELFPDSLAGK----HLAKYTIKRIFVPLAEDERVEYEKREKVYKQ----FLRARG-------- 294 (472)
T ss_dssp -----GSHHHHTCCEEEECCHHHHTSC----CCCSEEECCEEECCCHHHHHHTTTTTHHHHS----CSSSCC--------
T ss_pred -----HHHHHHHCCEEEECCHHHHHCC----CCCCEEEEEEECCCCHHHHHHHHHHHHHHHH----HHHHCC--------
T ss_conf -----9999972985765478987067----6788189999858998999999999999999----998647--------
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHCCCCCCCCHHHHH
Q ss_conf 99999999870671000245750456647999841607999999998652011246779998731101358411034565
Q 000542 1062 LLMLLRLRQACDHPLLVKGFDSNSLLRSSVEMAKKLPQERQMYLLNCLEASLAICGICNDPPEDAVVSICGHVFCNQCIC 1141 (1433)
Q Consensus 1062 L~lLlrLRqac~HP~Lv~~~~~~s~~~~s~e~a~kl~~e~~~~ll~~le~~~~~C~iC~~~~~~~vlt~CgHifC~~Ci~ 1141 (1433)
........ + ...+..+
T Consensus 295 --------------~~~~~~~~---~-------------------------------------~~~~~~~---------- 310 (472)
T 2fwr_A 295 --------------ITLRRAED---F-------------------------------------NKIVMAS---------- 310 (472)
T ss_dssp --------------CTTTCCSS---S-------------------------------------TTTTTTT----------
T ss_pred --------------CCCCCHHH---H-------------------------------------HHHHHHH----------
T ss_conf --------------54224466---8-------------------------------------9999872----------
Q ss_pred HHHCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHCC
Q ss_conf 42003899888853223344221023421023324589999888888874223588667854453789999999996127
Q 000542 1142 ERLTADDNQCPTRNCKIRLSLSSVFSKATLNNSLSQRQPGQEIPTDYSDSKLVEAPSCEGVWYNSSKIKAALEVLQSLAK 1221 (1433)
Q Consensus 1142 ~~l~~~~~~CP~~~C~~~l~~~~~~s~~~l~~~~~~~~~~~~i~~~~s~~e~~e~~~~~~~~~~SsKikallelL~~l~k 1221 (1433)
..++. +...+ ...... ..-....+.|+..+.+++...
T Consensus 311 -------~~~~~--~~~~~-----~~~~~~---------------------------~~~~~~~~~k~~~l~~~l~~~-- 347 (472)
T 2fwr_A 311 -------GYDER--AYEAL-----RAWEEA---------------------------RRIAFNSKNKIRKLREILERH-- 347 (472)
T ss_dssp -------CCSSS--SSTTT-----HHHHHH---------------------------HHHHHSCSHHHHHHHHHHHHT--
T ss_pred -------CCCHH--HHHHH-----HHHHHH---------------------------HHHHHCCHHHHHHHHHHHHHC--
T ss_conf -------36988--99999-----999999---------------------------997633738999999999857--
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCEEEEECCCHHHHHHHHHHHHHC
Q ss_conf 88986555432234478866899999988998643420356899832022010159972999926688899999999817
Q 000542 1222 PRGNTVTNHSLRHSFNGSICCPGDSNDLHGGDTLDNISDENEKIAAKCSIDSIKLGGEKAIVFSQWTKMLDLLEASLKDS 1301 (1433)
Q Consensus 1222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~~~i~~~~eKvIIFSq~t~~LdlLe~~L~~~ 1301 (1433)
.+.|+|||+++..+++.|...|.
T Consensus 348 -------------------------------------------------------~~~k~lvF~~~~~~~~~l~~~l~-- 370 (472)
T 2fwr_A 348 -------------------------------------------------------RKDKIIIFTRHNELVYRISKVFL-- 370 (472)
T ss_dssp -------------------------------------------------------SSSCBCCBCSCHHHHHHHHHHTT--
T ss_pred -------------------------------------------------------CCCCEEEEECCHHHHHHHHHHHC--
T ss_conf -------------------------------------------------------89838999797999999999748--
Q ss_pred CCCEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHCCCCC-CCE
Q ss_conf 9928823899799999999999704999539996044212356855469899983899959188997932013998-959
Q 000542 1302 SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGLNMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQT-RPV 1380 (1433)
Q Consensus 1302 gI~~~rldGsms~~eR~~~I~~Fn~d~~v~VLLlSlkAGg~GLNLt~An~VIilDp~WNPa~e~QAigRvhRiGQt-r~V 1380 (1433)
+..++|.++..+|+++++.|++ +.++||+ ++.++++|+|++.+++||++|++||+....|++||++|.||. +.|
T Consensus 371 ---~~~~~g~~~~~~R~~~~~~F~~-g~~~vLv-~T~~~~~Gldlp~~~~Vi~~~~~~s~~~~~Q~~GR~~R~g~~k~~~ 445 (472)
T 2fwr_A 371 ---IPAITHRTSREEREEILEGFRT-GRFRAIV-SSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKKEA 445 (472)
T ss_dssp ---CCBCCSSSCSHHHHTHHHHHHH-SSCSBCB-CSSCCCSSSCSCCBSEEEEECCSSCCHHHHHHHHHSBCCCTTTCCE
T ss_pred ---CCEEECCCCHHHHHHHHHHHHC-CCCCEEE-ECCCHHCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCCEE
T ss_conf ---6556289999999999999867-9988899-8570514846202868999899998889999876315777998539
Q ss_pred EEEEEEECCCHHHHHHHHHHHHHHHH
Q ss_conf 99999969999999999999999999
Q 000542 1381 SVLRLTVKNTVEDRILALQQKKREMV 1406 (1433)
Q Consensus 1381 ~VyrLi~kdTIEErIl~lqekK~~l~ 1406 (1433)
.||.|+.++|+|+++.+++++|++++
T Consensus 446 ~i~~lv~~~t~ee~~~~~r~~~~~~a 471 (472)
T 2fwr_A 446 VLYELISRGTGEVNTARRRKNAAKGA 471 (472)
T ss_dssp EEEEEEECSCC---------------
T ss_pred EEEEEEECCCCHHHHHHHHHHHHCCC
T ss_conf 99999819985379999998765058
No 8
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.70A {Anas platyrhynchos}
Probab=1.00 E-value=1 Score=324.65 Aligned_cols=128 Identities=19% Similarity=0.254 Sum_probs=113.7
Q ss_pred CCCEEEEECCCHHHHHHHHHHHHHC------------CCCEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCC
Q ss_conf 9972999926688899999999817------------9928823899799999999999704999539996044212356
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS------------SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGL 1344 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~------------gI~~~rldGsms~~eR~~~I~~Fn~d~~v~VLLlSlkAGg~GL 1344 (1433)
.+.|+|||++++.+++.|..+|... |..+..++|+|+..+|.+++++|+.++.++||| +|.++++||
T Consensus 630 ~~~rvLIF~~t~~~ae~L~~~L~~~~~l~~ik~~~l~G~~~~~~hg~m~~~eR~~il~~Fr~~g~~~VLV-aT~~~~eGI 708 (936)
T 4a2w_A 630 PQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLI-ATSVADEGI 708 (936)
T ss_dssp TTCCEEEEESSHHHHHHHHHHHHHCSTTSSCCCEEC----------------------------CCSEEE-EECC-----
T ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEE-EECCHHCCC
T ss_conf 9974999969799999999998637353666616996578765678889999999999863159815999-807264277
Q ss_pred CCCCCCEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 855469899983899959188997932013998959999999699999999999999999999881
Q 000542 1345 NMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAF 1410 (1433)
Q Consensus 1345 NLt~An~VIilDp~WNPa~e~QAigRvhRiGQtr~V~VyrLi~kdTIEErIl~lqekK~~l~~~al 1410 (1433)
|++.+++||+||++|||....|++|| ||.+++.|++|+.++|+|++.. ++..|.+++..++
T Consensus 709 Dlp~v~~VI~yD~p~s~~~~iQr~GR----GR~~~g~vi~Li~~~t~ee~~~-~~~~ke~~~~~~i 769 (936)
T 4a2w_A 709 DIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTEVVENEK-CNRYKEEMMNKAV 769 (936)
T ss_dssp -CCCCSEEEEESCCSCSHHHHCC-----------CCCEEEEESCHHHHHHHH-HHHHHHHHHHHHH
T ss_pred CCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCCHHHHHH-HHHHHHHHHHHHH
T ss_conf 60558989993899988999996487----7888877999986988999999-9889999999999
No 9
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.40A {Anas platyrhynchos}
Probab=1.00 E-value=1 Score=316.39 Aligned_cols=129 Identities=19% Similarity=0.254 Sum_probs=116.6
Q ss_pred CCCEEEEECCCHHHHHHHHHHHHHC------------CCCEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCC
Q ss_conf 9972999926688899999999817------------9928823899799999999999704999539996044212356
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS------------SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGL 1344 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~------------gI~~~rldGsms~~eR~~~I~~Fn~d~~v~VLLlSlkAGg~GL 1344 (1433)
.+.|+|||++++.+++.|...|... |..+..++|+|+..+|..++++|++++.+.||| +|.+++.||
T Consensus 630 ~~~kvLIF~~~~~~~~~L~~~L~~~~~~~~~~~~~l~G~~~~~~hg~~~~~eR~~~l~~F~~~g~~~vLV-aT~~~~~GI 708 (797)
T 4a2q_A 630 PQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLI-ATSVADEGI 708 (797)
T ss_dssp SSCCEEEEESSHHHHHHHHHHHHTCSTTCSCCCEEC----------------------------CCSEEE-EECC-----
T ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCCEEEE-ECCCHHCCC
T ss_conf 9970899979589999999999747564665521898447754578989999999999851369704999-748054479
Q ss_pred CCCCCCEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 8554698999838999591889979320139989599999996999999999999999999998818
Q 000542 1345 NMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFG 1411 (1433)
Q Consensus 1345 NLt~An~VIilDp~WNPa~e~QAigRvhRiGQtr~V~VyrLi~kdTIEErIl~lqekK~~l~~~alg 1411 (1433)
|++.+++||+||++|||....|++|| ||.+++.+++|+.++++|++ ..++..|..++..++.
T Consensus 709 Dlp~v~~VI~yd~p~s~~~~iQr~GR----GR~~~g~~i~l~~~~~~ee~-~~~~~~ke~~~~~~i~ 770 (797)
T 4a2q_A 709 DIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTEVVEN-EKCNRYKEEMMNKAVE 770 (797)
T ss_dssp --CCCSEEEEESCCSCHHHHHTC-----------CCCEEEEECCHHHHHH-HHHHHHHHHHHHHHHH
T ss_pred CCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCCHHHH-HHHHHHHHHHHHHHHH
T ss_conf 75108989994899988999985388----87878659999728768899-9988899999999999
No 10
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2 RNA helicase, ATP and dsRNA binding antiviral signalling pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Probab=1.00 E-value=1 Score=310.08 Aligned_cols=140 Identities=17% Similarity=0.243 Sum_probs=120.0
Q ss_pred CCCEEEEECCCHHHHHHHHHHHHHC------------CCCEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCC
Q ss_conf 9972999926688899999999817------------9928823899799999999999704999539996044212356
Q 000542 1277 GGEKAIVFSQWTKMLDLLEASLKDS------------SIQYRRLDGTMSVFARDKAVKDFNTLPEVSVMIMSLKAASLGL 1344 (1433)
Q Consensus 1277 ~~eKvIIFSq~t~~LdlLe~~L~~~------------gI~~~rldGsms~~eR~~~I~~Fn~d~~v~VLLlSlkAGg~GL 1344 (1433)
.+.|+|||++++.+++.|...|... |..+..++|+|+..+|.+++++|++++.++||| +|.+++.||
T Consensus 389 ~~~k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~R~~~~~~F~~~g~~~vLv-aT~~~~~Gi 467 (556)
T 4a2p_A 389 PQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLI-ATSVADEGI 467 (556)
T ss_dssp TTCCEEEEESSHHHHHHHHHHHTTCSGGGSCCEEC------------------------------CCEEE-EEC------
T ss_pred CCCEEEEEECCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEE-ECCCHHCCC
T ss_conf 9854999976589999999999858775500014787367765565669899999999840469658999-767043377
Q ss_pred CCCCCCEEEEECCCCCCCHHHHHHHHHHCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCH
Q ss_conf 85546989998389995918899793201399895999999969999999999999999999988189976764446899
Q 000542 1345 NMVAACHVLLLDLWWNPTTEDQAIDRAHRIGQTRPVSVLRLTVKNTVEDRILALQQKKREMVASAFGEDETGGQQTRLTV 1424 (1433)
Q Consensus 1345 NLt~An~VIilDp~WNPa~e~QAigRvhRiGQtr~V~VyrLi~kdTIEErIl~lqekK~~l~~~alg~d~~~~~~~rlt~ 1424 (1433)
|++.+++||+||++|||....|++|| ||.+++.++.|+.++++|++ ..++..|.+++..++.. +..+..
T Consensus 468 Dip~v~~VI~~d~p~s~~~~~Qr~GR----gR~~~g~~~~l~~~~~~~~~-~~~~~~k~~~~~~~i~~------i~~~~~ 536 (556)
T 4a2p_A 468 DIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTEVVEN-EKCNRYKEEMMNKAVEK------IQKWDE 536 (556)
T ss_dssp -----CEEEEETCCSCHHHHHHC------------CCEEEEESCHHHHHH-HHHHHHHHHHHHHHHHH------HHTSCH
T ss_pred CCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCCHHHH-HHHHHHHHHHHHHHHHH------HHCCCH
T ss_conf 75217889991899978899886387----87888418999827636777-77557999999999997------206896
Q ss_pred HHHH
Q ss_conf 9998
Q 000542 1425 DDLN 1428 (1433)
Q Consensus 1425 ~DLk 1428 (1433)
+++.
T Consensus 537 ~~~~ 540 (556)
T 4a2p_A 537 ETFA 540 (556)
T ss_dssp HHHH
T ss_pred HHHH
T ss_conf 7899
Done!