Query 001475
Match_columns 1071
No_of_seqs 349 out of 2915
Neff 7.0
Searched_HMMs 29240
Date Tue Mar 26 17:26:57 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/001475.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_774-778//hhsearch_pdb/001475hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3mwy_W Chromo domain-containin 1.0 1 1 543.0 19.4 367 247-676 286-702 (800)
2 1z3i_X Similar to RAD54-like; 1.0 1 1 533.7 15.0 434 32-676 49-546 (644)
3 1z63_A Helicase of the SNF2/RA 1.0 1 1 496.6 23.7 413 32-674 31-469 (500)
4 3dmq_A RNA polymerase-associat 1.0 1 1 339.0 14.8 348 247-672 200-629 (968)
5 1wp9_A ATP-dependent RNA helic 1.0 1 1 246.5 20.2 368 248-672 53-489 (494)
6 2fwr_A DNA repair protein RAD2 1.0 1 1 231.1 13.3 308 248-671 134-467 (472)
7 1z5z_A Helicase of the SNF2/RA 1.0 1 1 206.8 7.5 205 436-675 11-241 (271)
8 4a2w_A RIG-I, retinoic acid in 1.0 1 1 199.5 22.8 351 247-665 296-756 (936)
9 4a2q_A RIG-I, retinoic acid in 1.0 1 1 192.2 22.2 119 247-392 296-424 (797)
10 3hgt_A HDA1 complex subunit 3; 1.0 1 1 183.7 1.7 197 450-670 18-249 (328)
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=542.95 Aligned_cols=367 Identities=16% Similarity=0.189 Sum_probs=279.1
Q ss_pred CCCEEEEECCHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCC-------CCCHHHHCCCCEEEEEHHHHHHHCCCC
Q ss_conf 9958999672119999999998439999709998088777554321-------010221127769998088897410467
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTS-------IMDISELVGADIVLTTYDVLKEDLSHD 319 (1071)
Q Consensus 247 ~~~tLIV~P~Sll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~-------~~~~~~l~~~dIVItTYe~l~~~~~~~ 319 (1071)
.+++|||||.+++.||.+||.+|+ |.+++.+|+|....+..... .........++|+||||+++..+..
T Consensus 286 ~~~~LIV~P~sll~qW~~E~~~~~--p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~~~~~~~dvvitTy~~l~~~~~-- 361 (800)
T 3mwy_W 286 NGPHIIVVPLSTMPAWLDTFEKWA--PDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRA-- 361 (800)
T ss_dssp CSCEEEECCTTTHHHHHHHHHHHS--TTCCEEECCCSSHHHHHHHHHHSCSCC-----CCCCCSEEEECTTHHHHTHH--
T ss_pred CCCEEEEECCHHHHHHHHHHHHHC--CCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCCCCCCEEEECHHHHHHHHH--
T ss_conf 998899988038999999999977--9964999827777788988877622630013445667889906999986499--
Q ss_pred CCCCCCHHHHHHHCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHCCCCC
Q ss_conf 78776502343210248874211112332127815200137968899999994013825897176887991333102234
Q 001475 320 SDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRF 399 (1071)
Q Consensus 320 ~~~~~~~~~~~r~~kry~~~~s~L~~i~w~rVIlDEaH~iKn~~Sk~~k~l~~L~a~~Rw~LTGTPiqN~l~DL~~Ll~f 399 (1071)
.|..+.|++||+||||++||+.++.++++..+.+.+||+|||||++|++.|||++++|
T Consensus 362 ----------------------~l~~~~w~~vIvDEaH~lkn~~s~~~~~l~~l~~~~rl~LTgTPiqN~l~el~~ll~f 419 (800)
T 3mwy_W 362 ----------------------ELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNF 419 (800)
T ss_dssp ----------------------HHHTSEEEEEEETTGGGGCCSSSHHHHHHTTSEEEEEEEECSCCCSSCSHHHHHHHHH
T ss_pred ----------------------HHHCCCCCEEEHHHHHHHCCCHHHHHHHHHHHHHCCEEEEECCCCCCCHHHHHHHHHH
T ss_conf ----------------------9833773256413444414710199999997522438972278577999999999998
Q ss_pred CCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHH
Q ss_conf 58989997235688754887688432799999999887643034332345799995189999519999999999999998
Q 001475 400 LKSSPFSISRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETC 479 (1071)
Q Consensus 400 L~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vi~v~lS~~E~~~Y~~~~~~~ 479 (1071)
|.|+.|+....|..... ..........|+.+++|+|+||+|.+|... |||+.+.+++|+|++.|+.+|+.+....
T Consensus 420 L~p~~~~~~~~~~~~~~---~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~--LP~k~~~~v~v~ls~~q~~~Y~~i~~~~ 494 (800)
T 3mwy_W 420 LMPGRFTIDQEIDFENQ---DEEQEEYIHDLHRRIQPFILRRLKKDVEKS--LPSKTERILRVELSDVQTEYYKNILTKN 494 (800)
T ss_dssp HCSCCC---------CC---TTHHHHHHHHHHHTTGGGEEECCGGGGTTT--SCCEEEEEEEECCCHHHHHHHHHHHHHC
T ss_pred HCCCCCCCHHHHCCCCC---CHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CCCCEEEEEEECCCHHHHHHHHHHHHHH
T ss_conf 58663674344232223---146899999999997577753208766431--6882799997079999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC----CCCCCH---
Q ss_conf 8799999999999886304999988887657200246499999999999998069878888844446----899999---
Q 001475 480 VGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQ----QSPLSM--- 552 (1071)
Q Consensus 480 ~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~----~~~~t~--- 552 (1071)
....... .......+++.+++||++|+||.+......... ....+.
T Consensus 495 ~~~l~~~---------------------------~~~~~~~~l~~l~~Lrk~~~hp~l~~~~~~~~~~~~~~~~~~~~~~ 547 (800)
T 3mwy_W 495 YSALTAG---------------------------AKGGHFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKMTRENV 547 (800)
T ss_dssp CC-------------------------------------CTHHHHHHHHHHHHHCGGGSSSHHHHHCCCC----CCSHHH
T ss_pred HHHHHHC---------------------------CCCCHHHHHHHHHHHHHHHCCHHHHCCHHHHHHHHCCCCCCCHHHH
T ss_conf 9998610---------------------------3545446999999999873586542355789988615665557788
Q ss_pred ----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-----HHHHHHHHHHHCCCCCCC
Q ss_conf ----------99999999998985245100598886458669999986879898999-----999999997410278977
Q 001475 553 ----------DEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYK-----EAMAVVEEHSEDFRLDPL 617 (1071)
Q Consensus 553 ----------~eiL~~Ll~~~~~e~e~~~rkvlvfsq~~a~L~ii~~~~~~a~~~y~-----~~l~~~~~~~~~f~~d~~ 617 (1071)
-.+|..++.+ ..+.++++|||+|+..++++|+..+......|. .....+++.++.|+....
T Consensus 548 ~~~l~~~s~K~~~L~~lL~~----~~~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~~~i~~F~~~~~ 623 (800)
T 3mwy_W 548 LRGLIMSSGKMVLLDQLLTR----LKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDS 623 (800)
T ss_dssp HHHHHHTCHHHHHHHHHHHH----HTTTTCCEEEEESCHHHHHHHHHHHHHHTCCCEEESTTSCHHHHHHHHHTTSSTTC
T ss_pred HHHHHHCCHHHHHHHHHHHH----HHHCCCEEEEEECHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCC
T ss_conf 88766427699999999999----75279818999635999999999998679978999699999999999999608999
Q ss_pred C---CC-----------------EEEEECCCCCCHHHHHHH-HHHHCCCCCCEEEEECCCCCCCCCCCHHHHHHHCCCCC
Q ss_conf 6---71-----------------157607867810123444-53203898762798610059732120467542102445
Q 001475 618 L---NI-----------------HLHHNLTEILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSRE 676 (1071)
Q Consensus 618 ~---~l-----------------h~~~nl~~wnp~~~~QA~-R~hRiGQ~~~V~vyrlit~~TiEE~~~~~~k~~~~~~~ 676 (1071)
. .+ .++++. +|||+.+.||+ |+|||||+++|.||||++++||||++.+.+++|.....
T Consensus 624 ~~~v~LlSt~agg~GlNL~~a~~VI~~D~-~wnp~~~~Qa~gR~~RiGQ~k~V~Vyrlv~~~TiEe~i~~~~~~K~~l~~ 702 (800)
T 3mwy_W 624 NDFVFLLSTRAGGLGINLMTADTVVIFDS-DWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEY 702 (800)
T ss_dssp SCCCEEEEHHHHTTTCCCTTCCEEEESSC-CSCSHHHHHHHTTTSCSSCCSCEEEEEEEETTSHHHHHHHHHHHHTTSCC
T ss_pred CCEEEEEECCCCCCCCCCCCCCEEEEECC-CCCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHH
T ss_conf 82599974544567877601636899468-78811689999998855898637999986199899999999999888999
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=533.68 Aligned_cols=434 Identities=18% Similarity=0.247 Sum_probs=319.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCEE
Q ss_conf 78867988399999999999701099999812210124678866553347776205305689655798888888668311
Q 001475 32 LPDLLPLLRPYQRRAAYWMVQREKGDSASSSERERSQFFSPLCMPMDFLDTYSTLFYNPFSGSLSLSPDYTSSYVFGGIL 111 (1071)
Q Consensus 32 ~p~L~~~LrpyQ~~av~WMl~rE~~~~~~~~~~~~~~~~~p~w~~~~~~~~~~~~y~n~~tg~~~~~~~~~~~~v~GGIL 111 (1071)
.|.+..+|||||++||.||+....+... ...+||||
T Consensus 49 ~p~l~~~LrpyQ~~gv~~l~~~~~~~~~--------------------------------------------~~~~g~IL 84 (644)
T 1z3i_X 49 DPVLSKVLRPHQREGVKFLWDCVTGRRI--------------------------------------------ENSYGCIM 84 (644)
T ss_dssp CHHHHTTCCHHHHHHHHHHHHHHTTSSS--------------------------------------------TTCCEEEE
T ss_pred CHHHHHCCCHHHHHHHHHHHHHHHCCCC--------------------------------------------CCCCCEEE
T ss_conf 8564003519999999999984233544--------------------------------------------58887596
Q ss_pred ECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 26988877999999999804999997311011112320345678774333355330355531112465310232343345
Q 001475 112 ADEMGLGKTVELLACIFAHRKPASDDSIFIDTAVQVTDDQKVNLRRLKRERVECICGAVSESRKYKGLWVQCDICDAWQH 191 (1071)
Q Consensus 112 ADEMGLGKTve~LalIl~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~c~c~~~~~~~~~~~~~v~c~~c~~w~h 191 (1071)
|||||||||+++|++|.........
T Consensus 85 ad~mGlGKT~~~i~~i~~l~~~~~~------------------------------------------------------- 109 (644)
T 1z3i_X 85 ADEMGLGKTLQCITLIWTLLKQSPD------------------------------------------------------- 109 (644)
T ss_dssp CCCTTSCHHHHHHHHHHHHHHCCTT-------------------------------------------------------
T ss_pred EECCCCHHHHHHHHHHHHHHHHCCC-------------------------------------------------------
T ss_conf 1078742999999999999974866-------------------------------------------------------
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCC
Q ss_conf 65456678987764035653201355543220257854431001232016898999958999672119999999998439
Q 001475 192 ADCVGYSPRGKKRRSTFELKKHTRKKDMTNIVVRDGEHICQWCDELIEATDSPVATGATLIVCPAPILAQWDAEITRHTR 271 (1071)
Q Consensus 192 ~~cv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~~~~tLIV~P~Sll~qW~~Ei~k~~~ 271 (1071)
.....+++|||||.+++.||.+||.+|++
T Consensus 110 ---------------------------------------------------~~p~~~~~LiV~P~sll~qW~~E~~~~~~ 138 (644)
T 1z3i_X 110 ---------------------------------------------------CKPEIDKVIVVSPSSLVRNWYNEVGKWLG 138 (644)
T ss_dssp ---------------------------------------------------SSCSCSCEEEEECHHHHHHHHHHHHHHHG
T ss_pred ---------------------------------------------------CCCCCCCEEEEECHHHHHHHHHHHHHHCC
T ss_conf ---------------------------------------------------56777857999658998879999999758
Q ss_pred CCCCEEEEEECCCCCCCCCCCCCCHHH------HCCCCEEEEEHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCC
Q ss_conf 999709998088777554321010221------12776999808889741046778776502343210248874211112
Q 001475 272 PGSLKTCIYEGARNSSLSDTSIMDISE------LVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTR 345 (1071)
Q Consensus 272 ~~~l~v~vy~G~~~~~~~~~~~~~~~~------l~~~dIVItTYe~l~~~~~~~~~~~~~~~~~~r~~kry~~~~s~L~~ 345 (1071)
. .+.++.++|....... ...... ...++|+||||++++.+.. .+..
T Consensus 139 ~-~~~~~~~~~g~~~~~~---~~~~~~~~~~~~~~~~~vvi~ty~~l~~~~~------------------------~l~~ 190 (644)
T 1z3i_X 139 G-RVQPVAIDGGSKDEID---SKLVNFISQQGMRIPTPILIISYETFRLHAE------------------------VLHK 190 (644)
T ss_dssp G-GCCEEEECSSCHHHHH---HHHHHHHCCCSSCCSCCEEEEEHHHHHHHTT------------------------TTTT
T ss_pred C-CEEEEEEECCCHHHHH---HHHHHHHHHCCCCCCCCEEEEEHHHHHHHHH------------------------HHHC
T ss_conf 8-7259998089889999---9999998733777787579963899876578------------------------7504
Q ss_pred CCCCEEEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHCCCCCCCCCCCCCHHHHHHHHCCCCCCCC--
Q ss_conf 332127815200137968899999994013825897176887991333102234589899972356887548876884--
Q 001475 346 IFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFSISRWWIEVIRDPYENGD-- 423 (1071)
Q Consensus 346 i~w~rVIlDEaH~iKn~~Sk~~k~l~~L~a~~Rw~LTGTPiqN~l~DL~~Ll~fL~~~~~~~~~~f~~~~~~p~~~~~-- 423 (1071)
..|++||+||||++||+.++.++++..+.+.+||+|||||++|++.|||++++||.|++|++...|.+.|..|+..+.
T Consensus 191 ~~~~~vI~DEaH~ikn~~~~~~~al~~l~~~~rl~LTgTPiqN~l~El~sll~fl~p~~l~~~~~F~~~f~~pi~~~~~~ 270 (644)
T 1z3i_X 191 GKVGLVICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDA 270 (644)
T ss_dssp SCCCEEEETTGGGCCTTCHHHHHHHHHHCCSEEEEECSSCSGGGGGGCHHHHHHHHHHHHCCHHHHHHHTHHHHHHHHST
T ss_pred CCCCEEEEECCEECCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCHHHHCCCC
T ss_conf 88657998786224780459999998555673799846734588999999998618876899999998632615416776
Q ss_pred ----------HHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf ----------3279999999988764303433234579999518999951999999999999999887999999999998
Q 001475 424 ----------VGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVIQRLKDN 493 (1071)
Q Consensus 424 ----------~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vi~v~lS~~E~~~Y~~~~~~~~~~~~~~~~~~~~~ 493 (1071)
......|+.+++|+|+||+|.++... |||+.+.+++|+||+.|+.+|+.+.+.....
T Consensus 271 ~~~~~~~~~~~~~~~~L~~~l~~~~lRR~k~~v~~~--LP~k~~~~v~~~ls~~q~~lY~~~~~~~~~~----------- 337 (644)
T 1z3i_X 271 DASDKDRAAGEQKLQELISIVNRCLIRRTSDILSKY--LPVKIEQVVCCNLTPLQKELYKLFLKQAKPV----------- 337 (644)
T ss_dssp TCCSHHHHHHHHHHHHHHHHHHHHEECCCGGGGGGT--SCCEEEEEEEECCCHHHHHHHHHHHHHHCGG-----------
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--CCCCEEEEEEECCCHHHHHHHHHHHHHHHHH-----------
T ss_conf 778889999999999999998899987108767642--7983699998379989999999999989999-----------
Q ss_pred HHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCC-------CCC----CCC---------CCCCHH
Q ss_conf 863049999888876572002464999999999999980698788888-------444----468---------999999
Q 001475 494 ILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSG-------LRS----LQQ---------SPLSMD 553 (1071)
Q Consensus 494 ~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~-------~~~----~~~---------~~~t~~ 553 (1071)
... ..+ .....++..+++|||+|+||.+.... ... ... ......
T Consensus 338 ---~~~-----~~g--------~~~~~~l~~l~~Lrk~c~hp~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~ 401 (644)
T 1z3i_X 338 ---ESL-----QTG--------KISVSSLSSITSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEPQLSGKM 401 (644)
T ss_dssp ---GSS-----CTT--------CCCHHHHHHHHHHHHHHHCTHHHHHHHHHTCTTCTTGGGTSCSSCCSSSCCGGGSHHH
T ss_pred ---HHH-----HCC--------CCCHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHHCCCCCCCCCCCCCCCHHH
T ss_conf ---987-----627--------6214599999999999579998888874154003557764542111000570117489
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHH--HHHHHHHHHCCCCCCCC---CC-----
Q ss_conf 999999999898524510059888645866999998687989899---999--99999974102789776---71-----
Q 001475 554 EILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLY---KEA--MAVVEEHSEDFRLDPLL---NI----- 620 (1071)
Q Consensus 554 eiL~~Ll~~~~~e~e~~~rkvlvfsq~~a~L~ii~~~~~~a~~~y---~~~--l~~~~~~~~~f~~d~~~---~l----- 620 (1071)
.++..++...... ..+++++|+|+..++++|+..+......| .+. ...+++.++.|+.+... .+
T Consensus 402 ~~l~~ll~~~~~~---~~~k~lIFs~~~~~~~~l~~~l~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~L~st~a 478 (644)
T 1z3i_X 402 LVLDYILAMTRTT---TSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKA 478 (644)
T ss_dssp HHHHHHHHHHHHH---CCCEEEEEESCHHHHHHHHHHHHHHTCCEEEECSSCCHHHHHHHHHHHHSTTCCCCEEEEEGGG
T ss_pred HHHHHHHHHHHHC---CCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHCCCCCCCEEEEEECCC
T ss_conf 9999999998646---9987999980599999999999977997899839999999999999963999996799984455
Q ss_pred ------------EEEEECCCCCCHHHHHHH-HHHHCCCCCCEEEEECCCCCCCCCCCHHHHHHHCCCCC
Q ss_conf ------------157607867810123444-53203898762798610059732120467542102445
Q 001475 621 ------------HLHHNLTEILPMVANCAT-ELSQNEQHFPGCSEKAFKIHSIETCDENARKCQRVSRE 676 (1071)
Q Consensus 621 ------------h~~~nl~~wnp~~~~QA~-R~hRiGQ~~~V~vyrlit~~TiEE~~~~~~k~~~~~~~ 676 (1071)
.++++. +|||+.+.||+ |+|||||+++|.|||+++.|||||++..++.+|+-...
T Consensus 479 ~g~Glnl~~a~~Vi~~d~-~wnp~~~~Qa~gR~~R~Gq~~~v~v~~lv~~~tiEe~i~~~~~~K~~l~~ 546 (644)
T 1z3i_X 479 GGCGLNLIGANRLVMFDP-DWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKILQRQAHKKALSS 546 (644)
T ss_dssp SCTTCCCTTEEEEEECSC-CSSHHHHHHHHTTSSSTTCCSCEEEEEEEETTSHHHHHHHHHHHHHHTSC
T ss_pred CCCCCCCCCCCEEEEECC-CCCCCHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHH
T ss_conf 667846523898999799-99813799998840322898726999988798899999999999999999
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=496.64 Aligned_cols=413 Identities=24% Similarity=0.328 Sum_probs=321.9
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCEE
Q ss_conf 78867988399999999999701099999812210124678866553347776205305689655798888888668311
Q 001475 32 LPDLLPLLRPYQRRAAYWMVQREKGDSASSSERERSQFFSPLCMPMDFLDTYSTLFYNPFSGSLSLSPDYTSSYVFGGIL 111 (1071)
Q Consensus 32 ~p~L~~~LrpyQ~~av~WMl~rE~~~~~~~~~~~~~~~~~p~w~~~~~~~~~~~~y~n~~tg~~~~~~~~~~~~v~GGIL 111 (1071)
++.+..+|+|||++|+.||...+..+ +||||
T Consensus 31 p~~~~~~L~~~Q~~~v~~l~~~~~~~-------------------------------------------------~~~il 61 (500)
T 1z63_A 31 PYNIKANLRPYQIKGFSWMRFMNKLG-------------------------------------------------FGICL 61 (500)
T ss_dssp CCSCSSCCCHHHHHHHHHHHHHHHTT-------------------------------------------------CCEEE
T ss_pred CHHHHCCCHHHHHHHHHHHHHHHHCC-------------------------------------------------CCEEE
T ss_conf 83320033699999999999974179-------------------------------------------------98899
Q ss_pred ECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 26988877999999999804999997311011112320345678774333355330355531112465310232343345
Q 001475 112 ADEMGLGKTVELLACIFAHRKPASDDSIFIDTAVQVTDDQKVNLRRLKRERVECICGAVSESRKYKGLWVQCDICDAWQH 191 (1071)
Q Consensus 112 ADEMGLGKTve~LalIl~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~v~c~c~~~~~~~~~~~~~v~c~~c~~w~h 191 (1071)
||+||+|||+++++++......
T Consensus 62 ad~~GlGKT~~ai~~i~~~~~~---------------------------------------------------------- 83 (500)
T 1z63_A 62 ADDMGLGKTLQTIAVFSDAKKE---------------------------------------------------------- 83 (500)
T ss_dssp CCCTTSCHHHHHHHHHHHHHHT----------------------------------------------------------
T ss_pred EECCCCCHHHHHHHHHHHHHHC----------------------------------------------------------
T ss_conf 8089973899999999988755----------------------------------------------------------
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCEEEEECCHHHHHHHHHHHHHCC
Q ss_conf 65456678987764035653201355543220257854431001232016898999958999672119999999998439
Q 001475 192 ADCVGYSPRGKKRRSTFELKKHTRKKDMTNIVVRDGEHICQWCDELIEATDSPVATGATLIVCPAPILAQWDAEITRHTR 271 (1071)
Q Consensus 192 ~~cv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~c~~~~~~~~~~~~~~~tLIV~P~Sll~qW~~Ei~k~~~ 271 (1071)
...+++|||||.+++.||.+|+.+|+
T Consensus 84 -----------------------------------------------------~~~~~~LIv~P~~l~~qw~~e~~~~~- 109 (500)
T 1z63_A 84 -----------------------------------------------------NELTPSLVICPLSVLKNWEEELSKFA- 109 (500)
T ss_dssp -----------------------------------------------------TCCSSEEEEECSTTHHHHHHHHHHHC-
T ss_pred -----------------------------------------------------CCCCCEEEECCHHHHHHHHHHHHHHC-
T ss_conf -----------------------------------------------------89997899903899999999999977-
Q ss_pred CCCCEEEEEECCCCCCCCCCCCCCHHHHCCCCEEEEEHHHHHHHCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCEE
Q ss_conf 99970999808877755432101022112776999808889741046778776502343210248874211112332127
Q 001475 272 PGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGDRRFMRFQKRYPVIPTLLTRIFWWRI 351 (1071)
Q Consensus 272 ~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dIVItTYe~l~~~~~~~~~~~~~~~~~~r~~kry~~~~s~L~~i~w~rV 351 (1071)
+.+++.+++|.... .....++|+|+||+++..+. .+....|++|
T Consensus 110 -~~~~v~~~~g~~~~----------~~~~~~~ivi~t~~~l~~~~-------------------------~l~~~~~~~v 153 (500)
T 1z63_A 110 -PHLRFAVFHEDRSK----------IKLEDYDIILTTYAVLLRDT-------------------------RLKEVEWKYI 153 (500)
T ss_dssp -TTSCEEECSSSTTS----------CCGGGSSEEEEEHHHHTTCH-------------------------HHHTCCEEEE
T ss_pred -CCCEEEEEECCCHH----------CCCCCCCEEEEEHHHHHCCC-------------------------HHCCCCCCEE
T ss_conf -99559997267021----------00357768996379972630-------------------------2117872879
Q ss_pred EECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHCCCCCCCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf 81520013796889999999401382589717688799133310223458989997235688754887688432799999
Q 001475 352 CLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPFSISRWWIEVIRDPYENGDVGAMEFTH 431 (1071)
Q Consensus 352 IlDEaH~iKn~~Sk~~k~l~~L~a~~Rw~LTGTPiqN~l~DL~~Ll~fL~~~~~~~~~~f~~~~~~p~~~~~~~~~~~L~ 431 (1071)
|+||||+++|..++.++++..+.+.++|+|||||++|++.|||+++.||.|++|++...|.+.|..|+..++....+.|+
T Consensus 154 IvDEaH~~kn~~~~~~~~l~~l~~~~~l~LTaTP~~n~~~el~~ll~~l~p~~~~~~~~f~~~~~~~~~~~~~~~~~~l~ 233 (500)
T 1z63_A 154 VIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKGDNMAKEELK 233 (500)
T ss_dssp EEETGGGGSCTTSHHHHHHHTSCEEEEEEECSSCSTTCHHHHHHHHHHHSTTTTCCHHHHHTTTHHHHHTTCHHHHHHHH
T ss_pred EEECCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHH
T ss_conf 98084101787689999999600471899746777799999999999858775799899999852511146688999999
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf 99988764303433234579999518999951999999999999999887999999999998863049999888876572
Q 001475 432 KFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNP 511 (1071)
Q Consensus 432 ~~L~~~mlRRtK~dV~~el~LPpk~e~vi~v~lS~~E~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 511 (1071)
.+++++++||+|.+......|||+.+.+++++|++.|+.+|+.+.+....... ..
T Consensus 234 ~~l~~~~lrr~k~~~~~~~~lp~~~~~~v~~~l~~~~~~~y~~~~~~~~~~~~-------------------~~------ 288 (500)
T 1z63_A 234 AIISPFILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNID-------------------SV------ 288 (500)
T ss_dssp HHHTTTEECCCTTCHHHHTTSCSEEEEEEEECCCHHHHHHHHHHHHHHTTTTT-------------------TC------
T ss_pred HHHHHHEEEECCCCCCHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHH-------------------HH------
T ss_conf 99766745502554241122999758999818999999999999999999998-------------------64------
Q ss_pred CCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 00246499999999999998069878888844446899999999999999989852451005988864586699999868
Q 001475 512 IITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNL 591 (1071)
Q Consensus 512 ~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~eiL~~Ll~~~~~e~e~~~rkvlvfsq~~a~L~ii~~~~ 591 (1071)
........++..+++|||+|+||.+...+..... ....-..+..++.+... ..+++++|+++..+++.+...+
T Consensus 289 -~~~~~~~~~~~~l~~lr~~~~~p~l~~~~~~~~~--~s~K~~~l~~~l~~~~~----~~~k~lvF~~~~~~~~~l~~~l 361 (500)
T 1z63_A 289 -TGIKRKGMILSTLLKLKQIVDHPALLKGGEQSVR--RSGKMIRTMEIIEEALD----EGDKIAIFTQFVDMGKIIRNII 361 (500)
T ss_dssp -CTHHHHHHHHHHHHHHHHHTTCTHHHHCSCCCST--TCHHHHHHHHHHHHHHT----TTCCEEEECSCHHHHHHHHHHH
T ss_pred -HCCCCHHHHHHHHHHHHHHHCCHHHHCCCCCHHH--CCHHHHHHHHHHHHHHC----CCCCEEEEEEHHHHHHHHHHHH
T ss_conf -2321067999999999988179988438520111--15529999999999872----6886899972188999999999
Q ss_pred HHH-HH---HHHHH--HHHHHHHHHCCCCCCC-----------------CCC--EEEEECCCCCCHHHHHHH-HHHHCCC
Q ss_conf 798-98---99999--9999997410278977-----------------671--157607867810123444-5320389
Q 001475 592 SQA-VS---LYKEA--MAVVEEHSEDFRLDPL-----------------LNI--HLHHNLTEILPMVANCAT-ELSQNEQ 645 (1071)
Q Consensus 592 ~~a-~~---~y~~~--l~~~~~~~~~f~~d~~-----------------~~l--h~~~nl~~wnp~~~~QA~-R~hRiGQ 645 (1071)
... .. .+.+. ...+++..+.|+.++. +.+ .+.+++ +|||+...||+ |+||+||
T Consensus 362 ~~~~~~~~~~~~g~~~~~~R~~~~~~F~~~~~~~vil~st~~~~~Glnl~~~~~vi~~d~-~~~~~~~~Q~~gR~~R~Gq 440 (500)
T 1z63_A 362 EKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDR-WWNPAVEDQATDRVYRIGQ 440 (500)
T ss_dssp HHHHTCCCCEEETTSCHHHHHHHHHHHHHCTTCCCCEEECCCC-CCCCCTTCSEEEESSC-CSCC---CHHHHTTTTTTT
T ss_pred HHHHCCCEEEEECCCCHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCHHHCCEEEEECC-CCCCCHHHHHHHHHHHCCC
T ss_conf 885388769997999999999999996089998779995333557774455888999589-9895458999998887389
Q ss_pred CCCEEEEECCCCCCCCCCCHHHHHHHCCC
Q ss_conf 87627986100597321204675421024
Q 001475 646 HFPGCSEKAFKIHSIETCDENARKCQRVS 674 (1071)
Q Consensus 646 ~~~V~vyrlit~~TiEE~~~~~~k~~~~~ 674 (1071)
+++|.||++++++||||.+.+++.+|.-.
T Consensus 441 ~~~v~v~~lv~~~tiee~i~~~~~~K~~l 469 (500)
T 1z63_A 441 TRNVIVHKLISVGTLEEKIDQLLAFKRSL 469 (500)
T ss_dssp TSCEEEEEEEETTSHHHHTHHHHTTCSSS
T ss_pred CCEEEEEEEEECCCHHHHHHHHHHHHHHH
T ss_conf 87069999774898999999999999999
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=339.05 Aligned_cols=348 Identities=14% Similarity=0.130 Sum_probs=229.8
Q ss_pred CCCEEEEECCHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCHHHHCCCCEEEEEHHHHHHHCCCCCCCCCCH
Q ss_conf 99589996721199999999984399997099980887775543210102211277699980888974104677877650
Q 001475 247 TGATLIVCPAPILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 247 ~~~tLIV~P~Sll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dIVItTYe~l~~~~~~~~~~~~~~ 326 (1071)
.+++|||||.+++.||..|+.+++ .+++.+|+|...... .......+..++|+|+||+++.++....
T Consensus 200 ~~rvLIVvP~sLl~Qw~~E~~~~f---~l~v~v~~~~~~~~~---~~~~~~~~~~~dIvI~T~~~L~~~~~~~------- 266 (968)
T 3dmq_A 200 AERVLIIVPETLQHQWLVEMLRRF---NLRFALFDDERYAEA---QHDAYNPFDTEQLVICSLDFARRSKQRL------- 266 (968)
T ss_dssp CCCEEEECCTTTHHHHHHHHHHHS---CCCCEECCHHHHHHH---HHTTCSSSTTCSEEEECHHHHHTSTTTT-------
T ss_pred CCEEEEEECHHHHHHHHHHHHHHH---CCCEEEECCCHHHHH---HHHCCCCCCCCCEEEECHHHHHHCHHHH-------
T ss_conf 982999957888999999999986---998799806205554---3200364456898997689986487888-------
Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHH---HHHHHHHC--CCCCEEEEECCCCCCCHHHHHCCCCCCC
Q ss_conf 234321024887421111233212781520013796889---99999940--1382589717688799133310223458
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAA---ATEMALRL--YAKHRWCITGTPIQRKLDDLYGLLRFLK 401 (1071)
Q Consensus 327 ~~~~r~~kry~~~~s~L~~i~w~rVIlDEaH~iKn~~Sk---~~k~l~~L--~a~~Rw~LTGTPiqN~l~DL~~Ll~fL~ 401 (1071)
..+....|++||+||||+++|..+. .++++..+ .+.++|+|||||++|++.|+|+++.|+.
T Consensus 267 --------------~~l~~~~~dlVIvDEAH~~kn~~~~~s~~~~~l~~L~~~~~~~L~LTATPi~n~~~el~sll~~L~ 332 (968)
T 3dmq_A 267 --------------EHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGMESHFARLRLLD 332 (968)
T ss_dssp --------------HHHHTSCCCEEEECCSSCCCCBTTBCCHHHHHHHHHHTTCSSEEESCSSCSSSCSSCTHHHHHHHC
T ss_pred --------------HHHHHCCCCEEEEHHHHHHCCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHCC
T ss_conf --------------876415877897444676258887542999999998625785899976876698799999998259
Q ss_pred CCCCCCHHHHHHHHCCC---------CCCC----------------------------------CHHHHHHHHHHH----
Q ss_conf 98999723568875488---------7688----------------------------------432799999999----
Q 001475 402 SSPFSISRWWIEVIRDP---------YENG----------------------------------DVGAMEFTHKFF---- 434 (1071)
Q Consensus 402 ~~~~~~~~~f~~~~~~p---------~~~~----------------------------------~~~~~~~L~~~L---- 434 (1071)
|+.|++...|...+... +..+ .......+..++
T Consensus 333 p~~~~~~~~f~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~L~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~i~~lld~~g 412 (968)
T 3dmq_A 333 PNRFHDFAQFVEEQKNYCPVADAVAMLLAGNKLSNDELNMLGEMIGEQDIEPLLQAANSDSEDAQSARQELVSMLMDRHG 412 (968)
T ss_dssp TTTCSSTHHHHHHHHHHHHHHHHHHTTTTSCCCCGGGTTSSTTTTCTTCSSTTGGGTCCCSSCSTTTHHHHHHHHGGGCT
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHC
T ss_conf 30118989999999857889999998742678998899999988420336788750362223337999999999998617
Q ss_pred -HHHHHHCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf -8876430343323457999951899995199999999999999988799999999999886304999988887657200
Q 001475 435 -KEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPII 513 (1071)
Q Consensus 435 -~~~mlRRtK~dV~~el~LPpk~e~vi~v~lS~~E~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 513 (1071)
..+++|+++..+. .+|++....+.+++++.++..|...... .+ .....
T Consensus 413 ~~~~l~r~~r~~i~---~~p~r~~~~~~l~~~~~~~~~~~~~~~~-----------------~~--------~~~~~--- 461 (968)
T 3dmq_A 413 TSRVLFRNTRNGVK---GFPKRELHTIKLPLPTQYQTAIKVSGIM-----------------GA--------RKSAE--- 461 (968)
T ss_dssp TTTTEECCCTTTCC---CCCCCCCCEEEECCCHHHHHHHHHHHHT-----------------TC--------CSSGG---
T ss_pred CCHHHHHHHHHHHC---CCCHHHEEEEECCCCHHHHHHHHHHHHH-----------------HH--------HHHHH---
T ss_conf 33265632265545---5671115752368999999999987543-----------------02--------12667---
Q ss_pred CHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC---CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 246499999999999998069878888844446---89999999999999998985245100598886458669999986
Q 001475 514 THAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQ---QSPLSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKN 590 (1071)
Q Consensus 514 ~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~---~~~~t~~eiL~~Ll~~~~~e~e~~~rkvlvfsq~~a~L~ii~~~ 590 (1071)
.....+.+|......+.... .......+.+..++.. ....++++|++.....+.+...
T Consensus 462 -------------~~~~~~l~pe~~~~~l~~~~~~~~~~~~K~~~L~~ll~~------~~~~k~iVF~~~~~~~~~l~~~ 522 (968)
T 3dmq_A 462 -------------DRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTS------HRSQKVLVICAKAATALQLEQV 522 (968)
T ss_dssp -------------GGTHHHHCSGGGTTTTTSSSCCTTTTSHHHHHHHHHHHH------TSSSCCCEECSSTHHHHHHHHH
T ss_pred -------------HHHHHHCCHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHH------CCCCCEEEEECCHHHHHHHHHH
T ss_conf -------------777641085989987643331356856799999999983------7999789996959999999999
Q ss_pred HHHH----HHHHHHHH--HHHHHHHHCCCCCC--C---------------CCC--EEEEECCCCCCHHHHHHH-HHHHCC
Q ss_conf 8798----98999999--99999741027897--7---------------671--157607867810123444-532038
Q 001475 591 LSQA----VSLYKEAM--AVVEEHSEDFRLDP--L---------------LNI--HLHHNLTEILPMVANCAT-ELSQNE 644 (1071)
Q Consensus 591 ~~~a----~~~y~~~l--~~~~~~~~~f~~d~--~---------------~~l--h~~~nl~~wnp~~~~QA~-R~hRiG 644 (1071)
+... ...+.+.+ ..++...+.|+.+. . +.+ .+.+++ +|||....|+. |++|+|
T Consensus 523 L~~~~g~~~~~lhG~~~~~~R~~~l~~F~~g~~~~~vLvaT~v~~~GlDl~~~~~VI~~d~-p~~~~~~~Q~~GR~~R~G 601 (968)
T 3dmq_A 523 LREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDL-PFNPDLLEQRIGRLDRIG 601 (968)
T ss_dssp HHTTTCCCEEEECTTSCTTHHHHHHHHHHSTTSSCEEEECSCCTTCSSCCTTCCEEECSSC-CSSHHHHHHHHHTTSCSS
T ss_pred HHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCCEEEECCHHHCCCCCCCCCEEEEECC-CCCHHHHHHHHHCCCCCC
T ss_conf 9987498389984999999999999997479976308985334316888556767999569-998789998701143079
Q ss_pred CCCCEEEEECCCCCCCCCCCHHHHHHHC
Q ss_conf 9876279861005973212046754210
Q 001475 645 QHFPGCSEKAFKIHSIETCDENARKCQR 672 (1071)
Q Consensus 645 Q~~~V~vyrlit~~TiEE~~~~~~k~~~ 672 (1071)
|+++|.+|++++.+|+||.+....++|.
T Consensus 602 q~~~v~v~~~~~~~t~ee~i~~~~~~k~ 629 (968)
T 3dmq_A 602 QAHDIQIHVPYLEKTAQSVLVRWYHEGL 629 (968)
T ss_dssp SCSCCEEEEEEETTSHHHHHHHHHHHTT
T ss_pred CCCEEEEEEECCCCHHHHHHHHHHHHCC
T ss_conf 9850899980577719999999998678
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=246.48 Aligned_cols=368 Identities=11% Similarity=0.032 Sum_probs=204.6
Q ss_pred CCEEEEECC-HHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCHHHHCCCCEEEEEHHHHHHHCCCCCCCCCCH
Q ss_conf 958999672-1199999999984399997099980887775543210102211277699980888974104677877650
Q 001475 248 GATLIVCPA-PILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEGD 326 (1071)
Q Consensus 248 ~~tLIV~P~-Sll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dIVItTYe~l~~~~~~~~~~~~~~ 326 (1071)
+++|||||. +++.||.+|+.+++..+..++.+++|..... ........++|+|+||+.+......
T Consensus 53 ~~~liv~P~~~L~~q~~~~~~~~~~~~~~~v~~~~g~~~~~------~~~~~~~~~~ivv~T~~~l~~~~~~-------- 118 (494)
T 1wp9_A 53 GKVLMLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPE------ERSKAWARAKVIVATPQTIENDLLA-------- 118 (494)
T ss_dssp SCEEEECSSHHHHHHHHHHHHHHBCSCGGGEEEECSCSCHH------HHHHHHHHCSEEEECHHHHHHHHHT--------
T ss_pred CEEEEEECCHHHHHHHHHHHHHHHCCCHHHEEEEECCCCHH------HHHHHCCCCCEEEECHHHHHHHHHC--------
T ss_conf 85999978889999999999987475611168760775335------5665335798999639999999860--------
Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHH--HHHHHHH-HCCCCCEEEEECCCCCCCHHHHHCCCCCCCCC
Q ss_conf 23432102488742111123321278152001379688--9999999-40138258971768879913331022345898
Q 001475 327 RRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAA--AATEMAL-RLYAKHRWCITGTPIQRKLDDLYGLLRFLKSS 403 (1071)
Q Consensus 327 ~~~~r~~kry~~~~s~L~~i~w~rVIlDEaH~iKn~~S--k~~k~l~-~L~a~~Rw~LTGTPiqN~l~DL~~Ll~fL~~~ 403 (1071)
..+....|..||+||||.+++..+ .....+. ..+..++|+|||||. ++..+++.++.++...
T Consensus 119 --------------~~~~~~~~~~vIiDEaH~~~~~~~~~~~~~~~~~~~~~~~~l~lTaTp~-~~~~~~~~l~~~l~~~ 183 (494)
T 1wp9_A 119 --------------GRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPG-STPEKIMEVINNLGIE 183 (494)
T ss_dssp --------------TSCCTTSCSEEEEETGGGCSTTCHHHHHHHHHHHHCSSCCEEEEESCSC-SSHHHHHHHHHHTTCC
T ss_pred --------------CCCCHHHCEEEEEECCCCCCCCCCHHHHHHHHHHCCCCCEEEEEECCCC-CCCHHHHHHHHHCCHH
T ss_conf --------------8715654108999787566888819999999973288776999956998-8857899999850700
Q ss_pred CCCC---HHHHHHHHCCCCC-----CCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHH
Q ss_conf 9997---2356887548876-----8843279999999988764303433234579999518999951999999999999
Q 001475 404 PFSI---SRWWIEVIRDPYE-----NGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQ 475 (1071)
Q Consensus 404 ~~~~---~~~f~~~~~~p~~-----~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vi~v~lS~~E~~~Y~~~ 475 (1071)
.... ...+...+..+.. ..-+.....+...+.+++.++.+......+ +++.. ..++..+.......
T Consensus 184 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~-----~~~~~~~~~~~~~~ 257 (494)
T 1wp9_A 184 HIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKEVRKLLREMLRDALKPLAETGL-LESSS-----PDIPKKEVLRAGQI 257 (494)
T ss_dssp EEEECCTTSTTTGGGCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHTS-SSCCC-----TTSCHHHHHHHHHH
T ss_pred EEECCCCCCHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCC-----CCCCHHHHHHHHHH
T ss_conf 0502678758788752787426895688588999999898999999999997355-65457-----77335578999999
Q ss_pred HHHHHHH--------H--HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCC---
Q ss_conf 9998879--------9--99999999988630499998888765720024649999999999999806987888884---
Q 001475 476 HETCVGY--------A--REVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGL--- 542 (1071)
Q Consensus 476 ~~~~~~~--------~--~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~--- 542 (1071)
....... . ......+..... .........+...+..|...|.|+.......
T Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~ 321 (494)
T 1wp9_A 258 INEEMAKGNHDLRGLLLYHAMALKLHHAIE----------------LLETQGLSALRAYIKKLYEEAKAGSTKASKEIFS 321 (494)
T ss_dssp HHHHHTTTCCSTTTHHHHHHHHHHHHHHHH----------------HHHHTCHHHHHHHHHHHHHHHHTTCCHHHHHHHT
T ss_pred HHHHHHCCCCCHHHHHHHHHHHHHHHHHHH----------------HHHHHCHHHHHHHHHHHHHHHCCCCCHHHHHHHH
T ss_conf 998753356311347999988888999999----------------9985257999999999987522321145566665
Q ss_pred ----CC---------CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHH------
Q ss_conf ----44---------4689999999999999998985245100598886458669999986879898---9999------
Q 001475 543 ----RS---------LQQSPLSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVS---LYKE------ 600 (1071)
Q Consensus 543 ----~~---------~~~~~~t~~eiL~~Ll~~~~~e~e~~~rkvlvfsq~~a~L~ii~~~~~~a~~---~y~~------ 600 (1071)
.. ........-+.+..++.+.... ....++++|+++...++.+.+.+..... .+.+
T Consensus 322 ~~~~~~~~~~~~~~~~~~~~~~k~~~l~~~l~~~~~~--~~~~k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~ 399 (494)
T 1wp9_A 322 DKRMKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQR--KQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKEN 399 (494)
T ss_dssp SHHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHH--CTTCCEEEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC--
T ss_pred HHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCC--CCCCEEEEEECCHHHHHHHHHHHHHCCCCCEEEECCCCCCC
T ss_conf 0788989999998874589986999999999998436--89975999976689999999999975998079965665444
Q ss_pred --HH--HHHHHHHHCCCCCCCC-----------------CCEEEEECCCCCCHHHHHHH-HHHHCCCCCCEEEEECCCCC
Q ss_conf --99--9999974102789776-----------------71157607867810123444-53203898762798610059
Q 001475 601 --AM--AVVEEHSEDFRLDPLL-----------------NIHLHHNLTEILPMVANCAT-ELSQNEQHFPGCSEKAFKIH 658 (1071)
Q Consensus 601 --~l--~~~~~~~~~f~~d~~~-----------------~lh~~~nl~~wnp~~~~QA~-R~hRiGQ~~~V~vyrlit~~ 658 (1071)
.+ ..+++..+.|+.+... ...+.++. +|||+...|+. |++|.|| +.+|+|++.+
T Consensus 400 ~~~~~~~~r~~~~~~F~~~~~~vLv~T~~~~~Gldl~~~~~Vi~~d~-~~~~~~~~Qr~GR~~R~g~---g~~~~l~~~~ 475 (494)
T 1wp9_A 400 DRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEP-VPSAIRSIQRRGRTGRHMP---GRVIILMAKG 475 (494)
T ss_dssp -----CCHHHHHHHHHHHTSCSEEEECGGGGGGGGSTTCCEEEESSC-CHHHHHHHHHHTTSCSCCC---SEEEEEEETT
T ss_pred CCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCHHCCEEEEECC-CCCHHHHHHHHHHCCCCCC---CEEEEEEECC
T ss_conf 44589999999999986699469998884125887143798999289-8878999998752257788---4699999569
Q ss_pred CCCCCCHHHHHHHC
Q ss_conf 73212046754210
Q 001475 659 SIETCDENARKCQR 672 (1071)
Q Consensus 659 TiEE~~~~~~k~~~ 672 (1071)
|+||.+...+.+|.
T Consensus 476 t~ee~~~~~~~~k~ 489 (494)
T 1wp9_A 476 TRDEAYYWSSRQKE 489 (494)
T ss_dssp SHHHHHHHHCC---
T ss_pred CHHHHHHHHHHHHH
T ss_conf 87899999888789
No 6
>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=231.11 Aligned_cols=308 Identities=13% Similarity=0.097 Sum_probs=185.1
Q ss_pred CCEEEEECC-HHHHHHHHHHHHHCCCCCCE-EEEEECCCCCCCCCCCCCCHHHHCCCCEEEEEHHHHHHHCCCCCCCCCC
Q ss_conf 958999672-11999999999843999970-9998088777554321010221127769998088897410467787765
Q 001475 248 GATLIVCPA-PILAQWDAEITRHTRPGSLK-TCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 248 ~~tLIV~P~-Sll~qW~~Ei~k~~~~~~l~-v~vy~G~~~~~~~~~~~~~~~~l~~~dIVItTYe~l~~~~~~~~~~~~~ 325 (1071)
+++|||||. +|+.||.+++.+| .++ +.+++|.... ..+|+|+||+.+......
T Consensus 134 ~~~Lvl~P~~~L~~Q~~~~~~~~----~~~~v~~~~g~~~~--------------~~~Ivv~T~~~l~~~~~~------- 188 (472)
T 2fwr_A 134 TPTLIVVPTLALAEQWKERLGIF----GEEYVGEFSGRIKE--------------LKPLTVSTYDSAYVNAEK------- 188 (472)
T ss_dssp SCEEEEESSHHHHHHHHHHGGGG----CGGGEEEBSSSCBC--------------CCSEEEEEHHHHHHTHHH-------
T ss_pred CCEEEEECCHHHHHHHHHHHHHC----CCCCEEEECCCCCC--------------CCCEEEEECHHHHHHHHH-------
T ss_conf 99999987999999999999967----99636998787677--------------677899976899977997-------
Q ss_pred HHHHHHHCCCCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHCCCCCCCCCCC
Q ss_conf 02343210248874211112332127815200137968899999994013825897176887991333102234589899
Q 001475 326 DRRFMRFQKRYPVIPTLLTRIFWWRICLDEAQMVESNAAAATEMALRLYAKHRWCITGTPIQRKLDDLYGLLRFLKSSPF 405 (1071)
Q Consensus 326 ~~~~~r~~kry~~~~s~L~~i~w~rVIlDEaH~iKn~~Sk~~k~l~~L~a~~Rw~LTGTPiqN~l~DL~~Ll~fL~~~~~ 405 (1071)
+ .-.|..||+||+|.+.++... ..+..+.+.+++++||||..++-.+
T Consensus 189 -----------------~-~~~~~liIvDEaH~~~~~~~~--~~~~~~~~~~~l~lSATp~~~~~~~------------- 235 (472)
T 2fwr_A 189 -----------------L-GNRFMLLIFDEVHHLPAESYV--QIAQMSIAPFRLGLTATFEREDGRH------------- 235 (472)
T ss_dssp -----------------H-TTTCSEEEEETGGGTTSTTTH--HHHHTCCCSEEEEEESCCCCTTSGG-------------
T ss_pred -----------------H-CCCCCEEEEECCCCCCCHHHH--HHHHHCCCCEEEEEECCCCCCCCHH-------------
T ss_conf -----------------3-687778999897578976899--9997357781899932766889778-------------
Q ss_pred CCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 97235688754887688432799999999887643034332345799995189999519999999999999998879999
Q 001475 406 SISRWWIEVIRDPYENGDVGAMEFTHKFFKEIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYARE 485 (1071)
Q Consensus 406 ~~~~~f~~~~~~p~~~~~~~~~~~L~~~L~~~mlRRtK~dV~~el~LPpk~e~vi~v~lS~~E~~~Y~~~~~~~~~~~~~ 485 (1071)
..+..++.+.+.+....++... -+++.....+.+++++.++..|+.+......
T Consensus 236 ----------------------~~l~~~~~~~~~~~~~~~l~~~-~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---- 288 (472)
T 2fwr_A 236 ----------------------EILKEVVGGKVFELFPDSLAGK-HLAKYTIKRIFVPLAEDERVEYEKREKVYKQ---- 288 (472)
T ss_dssp ----------------------GSHHHHTCCEEEECCHHHHTSC-CCCSEEECCEEECCCHHHHHHTTTTTHHHHS----
T ss_pred ----------------------HHHHHHHCCEEEECCHHHHHCC-CCCCEEEEEEECCCCHHHHHHHHHHHHHHHH----
T ss_conf ----------------------9999972985765478987067-6788189999858998999999999999999----
Q ss_pred HHHHHHHHHHHCCCCCCC--CCCCCCCCCC---CHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHH
Q ss_conf 999999988630499998--8887657200---24649999999999999806987888884444689999999999999
Q 001475 486 VIQRLKDNILKRNVPGHA--SSDALYNPII---THAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDEILMVLI 560 (1071)
Q Consensus 486 ~~~~~~~~~~~~~~~g~~--~~~~~~~~~~---~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~eiL~~Ll 560 (1071)
.+... +.. ...+...... ........+......+.++++.. ..-+.+..++
T Consensus 289 --------~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------~k~~~l~~~l 344 (472)
T 2fwr_A 289 --------FLRAR--GITLRRAEDFNKIVMASGYDERAYEALRAWEEARRIAFNSK--------------NKIRKLREIL 344 (472)
T ss_dssp --------CSSSC--CCTTTCCSSSTTTTTTTCCSSSSSTTTHHHHHHHHHHHSCS--------------HHHHHHHHHH
T ss_pred --------HHHHC--CCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHCCH--------------HHHHHHHHHH
T ss_conf --------99864--75422446689999872369889999999999999763373--------------8999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC-----------------CCCCEEE
Q ss_conf 99898524510059888645866999998687989899999999999741027897-----------------7671157
Q 001475 561 GKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYKEAMAVVEEHSEDFRLDP-----------------LLNIHLH 623 (1071)
Q Consensus 561 ~~~~~e~e~~~rkvlvfsq~~a~L~ii~~~~~~a~~~y~~~l~~~~~~~~~f~~d~-----------------~~~lh~~ 623 (1071)
.+ ....++++|++....++.+.+.+.............+++..+.|+.+. .....+.
T Consensus 345 ~~------~~~~k~lvF~~~~~~~~~l~~~l~~~~~~g~~~~~~R~~~~~~F~~g~~~vLv~T~~~~~Gldlp~~~~Vi~ 418 (472)
T 2fwr_A 345 ER------HRKDKIIIFTRHNELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVI 418 (472)
T ss_dssp HH------TSSSCBCCBCSCHHHHHHHHHHTTCCBCCSSSCSHHHHTHHHHHHHSSCSBCBCSSCCCSSSCSCCBSEEEE
T ss_pred HH------CCCCCEEEEECCHHHHHHHHHHHCCCEEECCCCHHHHHHHHHHHHCCCCCEEEECCCHHCCCCCCCCCEEEE
T ss_conf 85------789838999797999999999748655628999999999999986799888998570514846202868999
Q ss_pred EECCCCCCHHHHHHH-HHHHCCCC-CCEEEEECCCCCCCCCCCHHHHHHH
Q ss_conf 607867810123444-53203898-7627986100597321204675421
Q 001475 624 HNLTEILPMVANCAT-ELSQNEQH-FPGCSEKAFKIHSIETCDENARKCQ 671 (1071)
Q Consensus 624 ~nl~~wnp~~~~QA~-R~hRiGQ~-~~V~vyrlit~~TiEE~~~~~~k~~ 671 (1071)
++.. |+|+...|+. |++|+||. +.|.+|.+++++|+||.+...++.|
T Consensus 419 ~~~~-~s~~~~~Q~~GR~~R~g~~k~~~~i~~lv~~~t~ee~~~~~r~~~ 467 (472)
T 2fwr_A 419 MSGS-GSAREYIQRLGRILRPSKGKKEAVLYELISRGTGEVNTARRRKNA 467 (472)
T ss_dssp ECCS-SCCHHHHHHHHHSBCCCTTTCCEEEEEEEECSCC-----------
T ss_pred ECCC-CCHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCHHHHHHHHHHH
T ss_conf 8999-988899998763157779985399999981998537999999876
No 7
>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=206.79 Aligned_cols=205 Identities=16% Similarity=0.122 Sum_probs=144.5
Q ss_pred HHHHHCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCH
Q ss_conf 87643034332345799995189999519999999999999998879999999999988630499998888765720024
Q 001475 436 EIMCRSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITH 515 (1071)
Q Consensus 436 ~~mlRRtK~dV~~el~LPpk~e~vi~v~lS~~E~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~ 515 (1071)
.--+||+|++|..+ |||+.+.+++|+||+.|+.+|+.+.+.....+. . .. ..
T Consensus 11 ~~~~rr~k~~v~~~--LP~k~e~~v~v~ls~~Q~~~Y~~~~~~~~~~~~------------~-------~~-------~~ 62 (271)
T 1z5z_A 11 SSGLVPRGSHMASD--LPDKIETNVYCNLTPEQAAMYKAEVENLFNNID------------S-------VT-------GI 62 (271)
T ss_dssp -------------------CEEEEEEECCCHHHHHHHHHHHHHHHHHTT------------T-------CC-------HH
T ss_pred CCCCCCCHHHHHHH--CCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHH------------H-------CC-------CC
T ss_conf 55641648778751--999779999818999999999999999999997------------4-------03-------52
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-
Q ss_conf 6499999999999998069878888844446899999999999999989852451005988864586699999868798-
Q 001475 516 AEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQA- 594 (1071)
Q Consensus 516 ~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~eiL~~Ll~~~~~e~e~~~rkvlvfsq~~a~L~ii~~~~~~a- 594 (1071)
.....+++.+++|||+|+||.+...+.. . ......-+.|..++.+.... .+++++|+|+..++++|...+...
T Consensus 63 ~~~~~~l~~l~~Lrq~~~hP~l~~~~~~-~-~~~s~K~~~L~~ll~~~~~~----~~kvlIFs~~~~~~~~l~~~L~~~~ 136 (271)
T 1z5z_A 63 KRKGMILSTLLKLKQIVDHPALLKGGEQ-S-VRRSGKMIRTMEIIEEALDE----GDKIAIFTQFVDMGKIIRNIIEKEL 136 (271)
T ss_dssp HHHHHHHHHHHHHHHHTTCTHHHHCSCC-C-STTCHHHHHHHHHHHHHHHT----TCCEEEEESCHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHCCCHHHHCCCCC-C-CCCCHHHHHHHHHHHHHHHC----CCEEEEEECCHHHHHHHHHHHHHHC
T ss_conf 1288999999999998489988468732-2-34689999999999999867----9969999551999999999998733
Q ss_pred HHH---HHHH--HHHHHHHHHCCCCCCCCC-------------------CEEEEECCCCCCHHHHHHH-HHHHCCCCCCE
Q ss_conf 989---9999--999999741027897767-------------------1157607867810123444-53203898762
Q 001475 595 VSL---YKEA--MAVVEEHSEDFRLDPLLN-------------------IHLHHNLTEILPMVANCAT-ELSQNEQHFPG 649 (1071)
Q Consensus 595 ~~~---y~~~--l~~~~~~~~~f~~d~~~~-------------------lh~~~nl~~wnp~~~~QA~-R~hRiGQ~~~V 649 (1071)
... +.+. ...+++.++.|+.++-.. ..+++++ +|||+.+.||+ |+||+||+++|
T Consensus 137 g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~v~L~st~~~g~Glnl~~a~~VI~~d~-~wnp~~~~Q~~gR~~R~Gq~~~v 215 (271)
T 1z5z_A 137 NTEVPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDR-WWNPAVEDQATDRVYRIGQTRNV 215 (271)
T ss_dssp CSCCCEECTTSCHHHHHHHHHHHHHCTTCCEEEEECCTTCCCCCCTTCSEEEECSC-CSCTTTC--------------CC
T ss_pred CCCEEEEECCCCHHHHHHHHHHHCCCCCCCEEEEEHHHHCCCCCCCCCCEEEEECC-CCCHHHHHHHHHHCCCCCCCCCE
T ss_conf 98479997999999999999983289999789972235158867644899999799-99851899999852323899856
Q ss_pred EEEECCCCCCCCCCCHHHHHHHCCCC
Q ss_conf 79861005973212046754210244
Q 001475 650 CSEKAFKIHSIETCDENARKCQRVSR 675 (1071)
Q Consensus 650 ~vyrlit~~TiEE~~~~~~k~~~~~~ 675 (1071)
.||++++.+||||++..++.+|.-..
T Consensus 216 ~v~~li~~~TiEe~i~~~~~~K~~l~ 241 (271)
T 1z5z_A 216 IVHKLISVGTLEEKIDQLLAFKRSLF 241 (271)
T ss_dssp EEEEEEETTSHHHHHHHHHHHCHHHH
T ss_pred EEEEEEECCCHHHHHHHHHHHHHHHH
T ss_conf 99998549889999999999999999
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=199.54 Aligned_cols=351 Identities=11% Similarity=0.034 Sum_probs=177.7
Q ss_pred CCCEEEEECCH-HHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCHHHHCCCCEEEEEHHHHHHHCCCCCCCCCC
Q ss_conf 99589996721-19999999998439999709998088777554321010221127769998088897410467787765
Q 001475 247 TGATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 247 ~~~tLIV~P~S-ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dIVItTYe~l~~~~~~~~~~~~~ 325 (1071)
.+++|||||.. |+.||..++.+++....+++.+++|....... .......++|+|+||+.+...+...
T Consensus 296 ~~~vLvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~G~~~~~~~-----~~~~~~~~~IvI~Tp~~L~~~l~~~------ 364 (936)
T 4a2w_A 296 KAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVS-----VEKVIEDSDIIVVTPQILVNSFEDG------ 364 (936)
T ss_dssp CCCEEEECSSHHHHHHHHHHHHHHHHTTTCCEEEECCC-----C-----CHHHHHHCSEEEECHHHHHHHHHSS------
T ss_pred CCEEEEEECCHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHH-----HHHHCCCCCEEEECHHHHHHHHHCC------
T ss_conf 98599996989999999999999712169559999799631257-----8974169999994499999998717------
Q ss_pred HHHHHHHCCCCCCCCCCC-CCCCCCEEEECCCCCCCCHHHHHHHHHHHCC--------CCCEEEEECCCCCCCHHHH---
Q ss_conf 023432102488742111-1233212781520013796889999999401--------3825897176887991333---
Q 001475 326 DRRFMRFQKRYPVIPTLL-TRIFWWRICLDEAQMVESNAAAATEMALRLY--------AKHRWCITGTPIQRKLDDL--- 393 (1071)
Q Consensus 326 ~~~~~r~~kry~~~~s~L-~~i~w~rVIlDEaH~iKn~~Sk~~k~l~~L~--------a~~Rw~LTGTPiqN~l~DL--- 393 (1071)
.+ ..-.|..||+||||.+.+..+....+...+. ...++++||||.+++..++
T Consensus 365 ----------------~~~~l~~~~liViDEaH~~~~~~~~~~i~~~~~~~~~~~~~~~~~~l~LSATp~~~~~~~l~~~ 428 (936)
T 4a2w_A 365 ----------------TLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEET 428 (936)
T ss_dssp ----------------SCCCGGGCSEEEEETGGGCSTTCHHHHHHHHHHHHHHTTCSCCCEEEEEESCCCCTTCCSHHHH
T ss_pred ----------------CCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCHHHHHH
T ss_conf ----------------6453367879999873135998669999999999863137886739986388554540208999
Q ss_pred -------HCCCCCCCCCC-CCCHHHHHHHHCCCCCCC------CH-H---HH----HHHHHHHHHHHH------------
Q ss_conf -------10223458989-997235688754887688------43-2---79----999999988764------------
Q 001475 394 -------YGLLRFLKSSP-FSISRWWIEVIRDPYENG------DV-G---AM----EFTHKFFKEIMC------------ 439 (1071)
Q Consensus 394 -------~~Ll~fL~~~~-~~~~~~f~~~~~~p~~~~------~~-~---~~----~~L~~~L~~~ml------------ 439 (1071)
+..+..-.... ......+...+..|.... .. . .. ..+..++..++-
T Consensus 429 ~~~i~~L~~~L~~~~i~~~~~~~~~l~~~~~~p~~~~~~~~~~~~~~~~~~l~~l~~~i~~~~~~~l~~~~l~~~~~~~~ 508 (936)
T 4a2w_A 429 IEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIAYVDTLSQNSKKDF 508 (936)
T ss_dssp HHHHHHHHHHHTCSEEECCCSSHHHHHHHSCCCCEEEEECCCCSCCHHHHHHHHHHHHHHHHHHHC------------CC
T ss_pred HHHHHHHHHHCCCCEEECCCCCHHHHHHHCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCC
T ss_conf 99999999854971553465448999875367762377336556757999999999999999998876655532022332
Q ss_pred ----------HCCCCCCCCCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHH------------------HHHHHH
Q ss_conf ----------3034332345799995189999519999999999999998879999------------------999999
Q 001475 440 ----------RSSKVHVSDELQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYARE------------------VIQRLK 491 (1071)
Q Consensus 440 ----------RRtK~dV~~el~LPpk~e~vi~v~lS~~E~~~Y~~~~~~~~~~~~~------------------~~~~~~ 491 (1071)
...+... ...+|.. ..+..+|..+... ....+. .+..+.
T Consensus 509 g~~~y~~~l~~l~k~~~--~~~l~~~----------~~~~~~~~~l~~~-~~~l~~~~~al~i~~~~~~~~~~~~l~~~~ 575 (936)
T 4a2w_A 509 GTQNYEHWIVVTQRKCR--LLQLEDK----------EEESRICRALFIC-TEHLRKYNDALIISEDARIIDALSYLTEFF 575 (936)
T ss_dssp SSHHHHHHHHHHHHHHH--HCCCSCH----------HHHHHHHHHHHHH-HHHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHH--HHCCCCC----------CHHHHHHHHHHHH-HHHHHHHHHHHHHHCCHHHHHHHHHHHHHH
T ss_conf 25779999999999887--7405532----------1035799999999-999999888875002042888999999999
Q ss_pred HHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 98863049999888876572002464999999999999980698788888444468999999999999999898524510
Q 001475 492 DNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLRQACCHPQVGSSGLRSLQQSPLSMDEILMVLIGKTKIEGEEAL 571 (1071)
Q Consensus 492 ~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLRQiC~HP~L~~~~~~~~~~~~~t~~eiL~~Ll~~~~~e~e~~~ 571 (1071)
...... +... ....-...+...+..|...+..|...+ ..-+.|..++.+... ....
T Consensus 576 ~~~~~~---------~~~~--~e~~l~~~~~~~~~~l~~~~~~~~~~~-----------~K~~~L~~lL~~~~~--~~~~ 631 (936)
T 4a2w_A 576 TNVKNG---------PYTE--LEQHLTAKFQEKEPELIALSKDETNEN-----------PKLEELVCILDDAYR--YNPQ 631 (936)
T ss_dssp HHHHHT---------TCCH--HHHHHHHHHHHHHHHHHHHHTSTTCCC-----------HHHHHHHHHHHHTTT--SCTT
T ss_pred HHHHHC---------CCCH--HHHHHHHHHHHHHHHHHHHHHCCCCCC-----------HHHHHHHHHHHHHHC--CCCC
T ss_conf 987632---------5887--899999989999999997640567789-----------799999999999853--5899
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHH--HHHHHHHCCCC-CCC----------------
Q ss_conf 05988864586699999868798---------------989999999--99997410278-977----------------
Q 001475 572 RKLVMALNGLAGIALIEKNLSQA---------------VSLYKEAMA--VVEEHSEDFRL-DPL---------------- 617 (1071)
Q Consensus 572 rkvlvfsq~~a~L~ii~~~~~~a---------------~~~y~~~l~--~~~~~~~~f~~-d~~---------------- 617 (1071)
.++++|+++..+++.+...+... ...+.+.+. .+.+..+.|+. +..
T Consensus 632 ~rvLIF~~t~~~ae~L~~~L~~~~~l~~ik~~~l~G~~~~~~hg~m~~~eR~~il~~Fr~~g~~~VLVaT~~~~eGIDlp 711 (936)
T 4a2w_A 632 TRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIV 711 (936)
T ss_dssp CCEEEEESSHHHHHHHHHHHHHCSTTSSCCCEEC----------------------------CCSEEEEECC------CC
T ss_pred CEEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCEEEEEEECCHHCCCCCH
T ss_conf 74999969799999999998637353666616996578765678889999999999863159815999807264277605
Q ss_pred -CCCEEEEECCCCCCHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCH
Q ss_conf -671157607867810123444532038987627986100597321204
Q 001475 618 -LNIHLHHNLTEILPMVANCATELSQNEQHFPGCSEKAFKIHSIETCDE 665 (1071)
Q Consensus 618 -~~lh~~~nl~~wnp~~~~QA~R~hRiGQ~~~V~vyrlit~~TiEE~~~ 665 (1071)
....+.+++. |||....|+. .| ||.+++.+|.|++.+|+||...
T Consensus 712 ~v~~VI~yD~p-~s~~~~iQr~--GR-GR~~~g~vi~Li~~~t~ee~~~ 756 (936)
T 4a2w_A 712 QCNLVVLYEYS-GNVTKMIQVR--GR-GRAAGSKCILVTSKTEVVENEK 756 (936)
T ss_dssp CCSEEEEESCC-SCSHHHHCC----------CCCEEEEESCHHHHHHHH
T ss_pred HCCEEEEECCC-CCHHHHHHHC--CC-CCCCCCEEEEEEECCCHHHHHH
T ss_conf 58989993899-9889999964--87-7888877999986988999999
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=192.17 Aligned_cols=119 Identities=13% Similarity=0.105 Sum_probs=82.7
Q ss_pred CCCEEEEECCH-HHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCHHHHCCCCEEEEEHHHHHHHCCCCCCCCCC
Q ss_conf 99589996721-19999999998439999709998088777554321010221127769998088897410467787765
Q 001475 247 TGATLIVCPAP-ILAQWDAEITRHTRPGSLKTCIYEGARNSSLSDTSIMDISELVGADIVLTTYDVLKEDLSHDSDRHEG 325 (1071)
Q Consensus 247 ~~~tLIV~P~S-ll~qW~~Ei~k~~~~~~l~v~vy~G~~~~~~~~~~~~~~~~l~~~dIVItTYe~l~~~~~~~~~~~~~ 325 (1071)
.+++|||||.. +..||.+++.+++....+++..++|....... .......++|+|+||+.+...+...
T Consensus 296 ~~~~Lvl~Pt~~L~~Q~~~~~~~~~~~~~~~v~~~~g~~~~~~~-----~~~~~~~~~Ivv~Tp~~l~~~l~~~------ 364 (797)
T 4a2q_A 296 KAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVS-----VEKVIEDSDIIVVTPQILVNSFEDG------ 364 (797)
T ss_dssp CCCEEEECSSHHHHHHHHHHHHHHHGGGTCCEEEECCC-----C-----HHHHHHTCSEEEECHHHHHHHHHSS------
T ss_pred CCEEEEEECCHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHH-----HHHHHCCCCEEEECHHHHHHHHHHC------
T ss_conf 99699996989999999999998614379469999699623246-----9974079999997669999999826------
Q ss_pred HHHHHHHCCCCCCCCCCC-CCCCCCEEEECCCCCCCCHHHHHHHHHHHCC--------CCCEEEEECCCCCCCHHH
Q ss_conf 023432102488742111-1233212781520013796889999999401--------382589717688799133
Q 001475 326 DRRFMRFQKRYPVIPTLL-TRIFWWRICLDEAQMVESNAAAATEMALRLY--------AKHRWCITGTPIQRKLDD 392 (1071)
Q Consensus 326 ~~~~~r~~kry~~~~s~L-~~i~w~rVIlDEaH~iKn~~Sk~~k~l~~L~--------a~~Rw~LTGTPiqN~l~D 392 (1071)
.+ ..-.|..||+||||.+.+.......+...+. ...++++||||.+++..+
T Consensus 365 ----------------~~~~~~~~~~iViDEaH~~~~~~~~~~i~~~~~~~~~~~~~~~~~~l~lSATp~~~~~~~ 424 (797)
T 4a2q_A 365 ----------------TLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKN 424 (797)
T ss_dssp ----------------SCCCGGGCSEEEETTGGGCSTTSHHHHHHHHHHHHHHTTCCCCCEEEEEESCCCCTTCCS
T ss_pred ----------------CCCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCC
T ss_conf ----------------546513377899988635588764999999999976314788785999727755455224
No 10
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain, chromatin regulator, coiled coil, nucleus, repressor, transcription; 2.20A {Saccharomyces cerevisiae} PDB: 3hgq_A
Probab=1.00 E-value=1 Score=183.68 Aligned_cols=197 Identities=9% Similarity=-0.090 Sum_probs=129.0
Q ss_pred CCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 79999518999951999999999999999887999999999998863049999888876572002464999999999999
Q 001475 450 LQLPPQEECVSWLTFSPIEEHFYQSQHETCVGYAREVIQRLKDNILKRNVPGHASSDALYNPIITHAEAAKLLNSLLKLR 529 (1071)
Q Consensus 450 l~LPpk~e~vi~v~lS~~E~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~il~~L~rLR 529 (1071)
+..|++.|++++++||+.|+.+|+.+.......+.+.+.. + .+. ...-...+.+.++.||
T Consensus 18 ~~~~~~~E~~Lpv~Ms~~QK~lY~~il~~~~~~I~~~~~~--------~-------~~~-----~~~~~~sl~nli~qLR 77 (328)
T 3hgt_A 18 ISGNTSGDYWLPTTMSLYQKELTDQIVSLHYSDILRYFET--------S-------HYK-----EDVILESMKTMCLNGS 77 (328)
T ss_dssp ----CCSEEEEEECCCHHHHHHHHHHHHHTHHHHHHHHHT--------T-------TTC-----CHHHHHHHHHHHHHHH
T ss_pred CCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHC--------C-------CCC-----CCHHHHHHHHHHHHHH
T ss_conf 7789885499954788899999999999649999999706--------7-------876-----4218999999999999
Q ss_pred HHCCCCCCCCCCCCCCCCCCC----------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 980698788888444468999----------9999999999998985245100598886458669999986879898999
Q 001475 530 QACCHPQVGSSGLRSLQQSPL----------SMDEILMVLIGKTKIEGEEALRKLVMALNGLAGIALIEKNLSQAVSLYK 599 (1071)
Q Consensus 530 QiC~HP~L~~~~~~~~~~~~~----------t~~eiL~~Ll~~~~~e~e~~~rkvlvfsq~~a~L~ii~~~~~~a~~~y~ 599 (1071)
++||||+|............. ..-.+|+.|+.+++. .++++++|||++.+++++|+.+......|.
T Consensus 78 kicnHP~L~~d~~~p~~~~~~~~~~~l~~~SGKf~~L~~LL~~l~~----~~~kVLIfsq~t~~LDilE~~l~~~~~~y~ 153 (328)
T 3hgt_A 78 LVATHPYLLIDHYMPKSLITRDVPAHLAENSGKFSVLRDLINLVQE----YETETAIVCRPGRTMDLLEALLLGNKVHIK 153 (328)
T ss_dssp HHHHCGGGTCCTTCCSCSCSTTHHHHHHHTCHHHHHHHHHHHHHTT----SCEEEEEEECSTHHHHHHHHHHTTSSCEEE
T ss_pred HHCCCHHHHCCCCCCCCCCCCCHHHHHHHCCCCHHHHHHHHHHHHH----CCCEEEEEECCHHHHHHHHHHHHCCCCCEE
T ss_conf 8738910310545776644443046899849529999999999985----899799997981699999999952898547
Q ss_pred HHHH---HHHHHH--HCCCCCCCCC-CEEEEE-----CC----------CCCCHHH-HHHH-HHHHC--CCCCCEEEEEC
Q ss_conf 9999---999974--1027897767-115760-----78----------6781012-3444-53203--89876279861
Q 001475 600 EAMA---VVEEHS--EDFRLDPLLN-IHLHHN-----LT----------EILPMVA-NCAT-ELSQN--EQHFPGCSEKA 654 (1071)
Q Consensus 600 ~~l~---~~~~~~--~~f~~d~~~~-lh~~~n-----l~----------~wnp~~~-~QA~-R~hRi--GQ~~~V~vyrl 654 (1071)
...+ ..+... ..+.+--+.. ...+.| +. +|||++| .||+ ||||| ||+++|.||||
T Consensus 154 RlDG~~~~~~~k~~~~~~~i~Lltsag~~gin~~~~nl~~aD~VI~~DsdwNp~~d~iQa~~r~~R~~~gq~k~v~V~RL 233 (328)
T 3hgt_A 154 RYDGHSIKSAAAANDFSCTVHLFSSEGINFTKYPIKSKARFDMLICLDTTVDTSQKDIQYLLQYKRERKGLERYAPIVRL 233 (328)
T ss_dssp ESSSCCC-------CCSEEEEEEESSCCCTTTSCCCCCSCCSEEEECSTTCCTTSHHHHHHHCCC---------CCEEEE
T ss_pred ECCCCCHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCEEEEE
T ss_conf 17999635443023688169998788777757653347888889997899898985899999986411589970649999
Q ss_pred CCCCCCCCCCHHHHHH
Q ss_conf 0059732120467542
Q 001475 655 FKIHSIETCDENARKC 670 (1071)
Q Consensus 655 it~~TiEE~~~~~~k~ 670 (1071)
++.+||||.+++..|.
T Consensus 234 vt~~TiEh~~l~~~~~ 249 (328)
T 3hgt_A 234 VAINSIDHCRLFFGKK 249 (328)
T ss_dssp EETTSHHHHHHHHHHH
T ss_pred ECCCCHHHHHHHCCCC
T ss_conf 4899999999880688
Done!