Query 000811
Match_columns 1272
No_of_seqs 637 out of 4061
Neff 7.3
Searched_HMMs 29240
Date Tue Mar 26 16:24:30 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000811.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_582-585//hhsearch_pdb/000811hhsearch_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 1016.1 40.0 705 98-836 36-788 (800)
2 1z3i_X Similar to RAD54-like; 1.0 1 1 678.6 36.2 476 284-779 54-573 (644)
3 1z63_A Helicase of the SNF2/RA 1.0 1 1 606.9 38.1 455 278-777 31-496 (500)
4 3dmq_A RNA polymerase-associat 1.0 1 1 462.3 26.8 420 284-754 152-633 (968)
5 1wp9_A ATP-dependent RNA helic 1.0 1 1 388.2 32.9 421 284-753 8-492 (494)
6 2fwr_A DNA repair protein RAD2 1.0 1 1 362.2 19.8 378 282-753 90-471 (472)
7 1z5z_A Helicase of the SNF2/RA 1.0 1 1 355.0 20.8 253 515-779 12-269 (271)
8 4a2w_A RIG-I, retinoic acid in 1.0 1 1 348.4 29.5 434 283-772 246-782 (936)
9 4a2q_A RIG-I, retinoic acid in 1.0 1 1 341.5 33.2 431 282-772 245-782 (797)
10 4a2p_A RIG-I, retinoic acid in 1.0 1 1 326.6 34.0 436 284-773 6-542 (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=1016.14 Aligned_cols=705 Identities=41% Similarity=0.714 Sum_probs=586.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCH---HHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHC
Q ss_conf 88654333334446676699984335621---244677774325887666554675769887312915898898665410
Q 000811 98 PLNDIDKILDCEMRPTVAGDSDVSKLGSK---QIFVKQYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQM 174 (1272)
Q Consensus 98 ~~~~iekIL~~R~rP~~~~~~~~~~~~~k---~~~~~eYlVKWkg~Sy~h~~Wvpe~~L~~~~~~~~~~~~kl~~f~k~~ 174 (1272)
....||+||++|.+++..........-.+ .....||||||+|+||+||||+|+++|.+ .++++ ++.+|.++.
T Consensus 36 ~~~~ve~vl~~r~~~~~~~~~~~~~~~~~~~~~~~~~eylvKWkg~s~~hntWe~~e~L~~----~~~~~-~~~~~~k~~ 110 (800)
T 3mwy_W 36 DFHGIDIVINHRLKTSLEEGKVLEKTVPDLNNCKENYEFLIKWTDESHLHNTWETYESIGQ----VRGLK-RLDNYCKQF 110 (800)
T ss_dssp CCCBCSEEEEEECCCC--------CCSCCHHHHHHHCEEEEECSSSCTTSCEEECHHHHCS----CBTTH-HHHHHHHHH
T ss_pred CCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCEEECCCCCHHHHHH----CCHHH-HHHHHHHHH
T ss_conf 8874021201654654567741013676767886762799996886111054138787743----41579-999999986
Q ss_pred CC--------CCCCCHH----------HCCCCCCCCCHHHHHHHCC-----CCCCCEEEEECCCCCCCCCCCCCCCCCC-
Q ss_conf 25--------9997011----------1018997521112422136-----8986237864044453544224455534-
Q 000811 175 SS--------NNNAEED----------FVAIRPEWTTVDRILACRG-----EDDEKEYLVKYKELSYDECYWEYESDIS- 230 (1272)
Q Consensus 175 ~~--------~~~~~~~----------~~~~~~~~~~veRIi~~r~-----~~~~~eyLVKWk~L~Y~~~tWE~~~~~~- 230 (1272)
.. ...+.++ .....++|+.|||||+++. ..+..+|||||++|||++||||...++.
T Consensus 111 ~~~~~~~~~~~~~~~e~~e~~~~~~e~~~~~~~~~~~veRii~~~~~~~~~~~~~~~yLvKW~~L~y~~~tWe~~~~~~~ 190 (800)
T 3mwy_W 111 IIEDQQVRLDPYVTAEDIEIMDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEATWENATDIVK 190 (800)
T ss_dssp THHHHHHTCSTTSCHHHHHHHHHHHHHHHHHHTTTTCEEEECCCCCEECTTSCEECBCCEEETTSCSTTCBCCBHHHHTT
T ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCCCCCCEEEEEEECCCCCCCCCCCCHHHHHH
T ss_conf 32778875189998788888756665420001113534689864113467898865999981578734264336344333
Q ss_pred CCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEE
Q ss_conf 22589999997741135444675799994322235798334443478988889999288999999999833179856999
Q 000811 231 AFQPEIERFIKIQSRSHRSSCNKQKSSPQDVTESTKKPKEFQQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILA 310 (1272)
Q Consensus 231 ~~~~~i~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILa 310 (1272)
..+..++.|..+......... ........+.|..+..+|+++.+++|||||++|++||...|.++.+||||
T Consensus 191 ~~~~~i~~~~~r~~~~~~~~~---------~~~~~~~~~~~~~~~~~p~~~~~~~Lr~yQ~egv~~l~~~~~~~~~~ILa 261 (800)
T 3mwy_W 191 LAPEQVKHFQNRENSKILPQY---------SSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKGDNGILA 261 (800)
T ss_dssp TCHHHHHHHHHTTTCTTCSTT---------CCCCCSCCCCCCCCSSCCTTCCSSCCCTHHHHHHHHHHHHHTTTCCEEEC
T ss_pred HHHHHHHHHHHHHHCCCCCCC---------HHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEE
T ss_conf 319999999976313447751---------01034557764002569986579975899999999999985138998998
Q ss_pred ECCCCHHHHHHHHHHHHHHH--CCCCCEEEEECCCCHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHCCCCCCHHH
Q ss_conf 08998099999999999840--8999679996671289999999988799909999757257789998520279990222
Q 000811 311 DEMGLGKTIQSIAFLASLFG--ERISPHLVVAPLSTLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKV 388 (1272)
Q Consensus 311 DemGlGKTiqaia~l~~l~~--~~~~p~LIVvP~sll~qW~~E~~~~~p~~~vv~~~G~~~~r~~i~~~e~~~~~~~~~~ 388 (1272)
|+||+|||+|+++++.+++. ...+|+|||||.+++.||.+||.+|+|.+++++|+|....+..++.++++.......
T Consensus 262 demGlGKT~~ai~~i~~l~~~~~~~~~~LIV~P~sll~qW~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~- 340 (800)
T 3mwy_W 262 DEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKG- 340 (800)
T ss_dssp CCTTSSTTHHHHHHHHHHHHHHSCCSCEEEECCTTTHHHHHHHHHHHSTTCCEEECCCSSHHHHHHHHHHSCSCC-----
T ss_pred ECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCC-
T ss_conf 2787532999999999999860779988999880389999999999779964999827777788988877622630013-
Q ss_pred HCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCHHHHHHHHHCCCCCEEEEECCCCC
Q ss_conf 10136753212222235553999018888731101378741258705443357811189999982002557897056899
Q 000811 389 KKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQ 468 (1272)
Q Consensus 389 ~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~L~~~~w~~vIiDEaHrlKn~~s~~~~~l~~l~~~~rllLTGTPlq 468 (1272)
....+++|+||||+++..+...+..+.|++|||||||++||..++.++++..+.+.+||+|||||+|
T Consensus 341 -------------~~~~~~dvvitTy~~l~~~~~~l~~~~w~~vIvDEaH~lkn~~s~~~~~l~~l~~~~rl~LTgTPiq 407 (800)
T 3mwy_W 341 -------------KKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQ 407 (800)
T ss_dssp --------------CCCCCSEEEECTTHHHHTHHHHHTSEEEEEEETTGGGGCCSSSHHHHHHTTSEEEEEEEECSCCCS
T ss_pred -------------CCCCCCCEEEECHHHHHHHHHHHHCCCCCEEEHHHHHHHCCCHHHHHHHHHHHHHCCEEEEECCCCC
T ss_conf -------------4456678899069999864999833773256413444414710199999997522438972278577
Q ss_pred CCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHH
Q ss_conf 99889999998423799899588999983021399999999972024677777667311999604998505899999999
Q 000811 469 NNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYY 548 (1272)
Q Consensus 469 Nn~~EL~~ll~fL~p~~f~~~~~F~~~f~~~~~~~~i~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y 548 (1272)
|++.|||++++||.|+.|.....|............+..|+.++.|+++||+|.++...+|++.+.++.|.|++.|+.+|
T Consensus 408 N~l~el~~ll~fL~p~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~LP~k~~~~v~v~ls~~q~~~Y 487 (800)
T 3mwy_W 408 NNIKELAALVNFLMPGRFTIDQEIDFENQDEEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYY 487 (800)
T ss_dssp SCSHHHHHHHHHHCSCCC---------CCTTHHHHHHHHHHHTTGGGEEECCGGGGTTTSCCEEEEEEEECCCHHHHHHH
T ss_pred CCHHHHHHHHHHHCCCCCCCHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHH
T ss_conf 99999999999858663674344232223146899999999997577753208766431688279999707999999999
Q ss_pred HHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHHHCCCCCCCCCCC--------CCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999999999932-89602699999999998178653458899--------9546069999988421279999999999
Q 000811 549 KAILTRNYQILTRR-GGAQISLINVVMELRKLCCHPYMLEGVEP--------DIEDTNESFKQLLESSGKLQLLDKMMVK 619 (1272)
Q Consensus 549 ~~il~~~~~~l~~~-~~~~~~l~~~l~~Lrk~c~hP~L~~~~e~--------~~~~~~~~~~~li~~SgKl~~L~klL~~ 619 (1272)
+.++.++...+... .+...+++++++.||++|+||+++...+. ...........++..|+|+.+|.++|..
T Consensus 488 ~~i~~~~~~~l~~~~~~~~~~~l~~l~~Lrk~~~hp~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~s~K~~~L~~lL~~ 567 (800)
T 3mwy_W 488 KNILTKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTR 567 (800)
T ss_dssp HHHHHHCCC----------CTHHHHHHHHHHHHHCGGGSSSHHHHHCCCC----CCSHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCHHHHCCHHHHHHHHCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHH
T ss_conf 99999999998610354544699999999987358654235578998861566555778888766427699999999999
Q ss_pred HHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEE
Q ss_conf 99708628998212226999999987279808999577898999999999712699942899624533345475678889
Q 000811 620 LKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699 (1272)
Q Consensus 620 l~~~g~kVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~Rq~~Id~Fn~~~s~~~vfLlSTragg~GINL~~Ad~V 699 (1272)
+.+.|+||||||||+.++++|+++|...|+++.+++|+++..+|+.++++|+++++..++||+||+|||+||||++|++|
T Consensus 568 ~~~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~~~i~~F~~~~~~~~v~LlSt~agg~GlNL~~a~~V 647 (800)
T 3mwy_W 568 LKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTV 647 (800)
T ss_dssp HTTTTCCEEEEESCHHHHHHHHHHHHHHTCCCEEESTTSCHHHHHHHHHTTSSTTCSCCCEEEEHHHHTTTCCCTTCCEE
T ss_pred HHHCCCEEEEEECHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEE
T ss_conf 75279818999635999999999998679978999699999999999999608999825999745445678776016368
Q ss_pred EEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCHH--------CCCCCHHHHH
Q ss_conf 99669999413889999452209999359999950898999999999999999999851000--------0489999999
Q 000811 700 IIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRLK--------AQNINQEELD 771 (1272)
Q Consensus 700 Ii~D~dWNP~~d~Qa~gRahRiGQ~k~V~VyrLit~~TvEE~I~~~~~~K~~L~~~v~g~~~--------~~~~~~~el~ 771 (1272)
|+||++|||+.++||+||+||+||+++|.||+|++++|+||+|++++.+|+.|+++|++.+. ...++.+++.
T Consensus 648 I~~D~~wnp~~~~Qa~gR~~RiGQ~k~V~Vyrlv~~~TiEe~i~~~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~el~ 727 (800)
T 3mwy_W 648 VIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLGVTDGNKYTKKNEPNAGELS 727 (800)
T ss_dssp EESSCCSCSHHHHHHHTTTSCSSCCSCEEEEEEEETTSHHHHHHHHHHHHTTSCC----------------CCCCHHHHH
T ss_pred EEECCCCCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHH
T ss_conf 99468788116899999988558986379999861998999999999998889999970375665321123478999999
Q ss_pred HHHHHCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCC--CCHHHHHHHHHHHCCC
Q ss_conf 9998221211036566788854567898899997446877764357897--3024477562541100
Q 000811 772 DIIRYGSKELFADENDEGGKSRQIHYDDAAIDRLLDRDQVGDEEASLDD--EDEDGFLKAFKVANFE 836 (1272)
Q Consensus 772 ~ll~~ga~~lf~~~~~~~~~~~~~~~~~~~id~~l~r~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ 836 (1272)
+||++|+..+|...+.+ ..+.+.+||.||+|++...+...+.. ..+++|+++|++++|.
T Consensus 728 ~ll~~g~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 (800)
T 3mwy_W 728 AILKFGAGNMFTATDNQ------KKLEDLNLDDVLNHAEDHVTTPDLGESHLGGEEFLKQFEVTDYK 788 (800)
T ss_dssp HHHSSCSSSSCCSHHHH------HHHHTCCHHHHHHHCEECCCSCCCCCCEESCHHHHHTTC-----
T ss_pred HHHHCCHHHHHHCCCCC------CCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHCEEEECC
T ss_conf 99971657651145764------32540579999874343244646556565568898612003023
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=678.57 Aligned_cols=476 Identities=33% Similarity=0.553 Sum_probs=400.4
Q ss_pred CCCCHHHHHHHHHHHHHH-----CCCCCEEEEECCCCHHHHHHHHHHHHHHHCC------CCCEEEEECCCCHHHHHHHH
Q ss_conf 999288999999999833-----1798569990899809999999999984089------99679996671289999999
Q 000811 284 GSLHPYQLEGLNFLRFSW-----SKQTHVILADEMGLGKTIQSIAFLASLFGER------ISPHLVVAPLSTLRNWEREF 352 (1272)
Q Consensus 284 ~~LrpyQlegv~wL~~~~-----~~~~~~ILaDemGlGKTiqaia~l~~l~~~~------~~p~LIVvP~sll~qW~~E~ 352 (1272)
..|||||.+|++||...+ ..+.+|||||+||+|||+|+|+++..+...+ .+++|||||.+++.||.+||
T Consensus 54 ~~LrpyQ~~gv~~l~~~~~~~~~~~~~g~ILad~mGlGKT~~~i~~i~~l~~~~~~~~p~~~~~LiV~P~sll~qW~~E~ 133 (644)
T 1z3i_X 54 KVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPSSLVRNWYNEV 133 (644)
T ss_dssp TTCCHHHHHHHHHHHHHHTTSSSTTCCEEEECCCTTSCHHHHHHHHHHHHHHCCTTSSCSCSCEEEEECHHHHHHHHHHH
T ss_pred HCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEECHHHHHHHHHHH
T ss_conf 03519999999999984233544588875961078742999999999999974866567778579996589988799999
Q ss_pred HHHCCC-CEEEEEECCHH-HHH-HHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHCCCCCCC
Q ss_conf 988799-90999975725-778-999852027999022210136753212222235553999018888731101378741
Q 000811 353 ATWAPQ-MNVVMYVGTSQ-ARN-IIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKW 429 (1272)
Q Consensus 353 ~~~~p~-~~vv~~~G~~~-~r~-~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~L~~~~w 429 (1272)
.+|+|. +.++.+++... .+. .+..+ ... ......++|+|+||+++..+...+....|
T Consensus 134 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~--~~~------------------~~~~~~~~vvi~ty~~l~~~~~~l~~~~~ 193 (644)
T 1z3i_X 134 GKWLGGRVQPVAIDGGSKDEIDSKLVNF--ISQ------------------QGMRIPTPILIISYETFRLHAEVLHKGKV 193 (644)
T ss_dssp HHHHGGGCCEEEECSSCHHHHHHHHHHH--HCC------------------CSSCCSCCEEEEEHHHHHHHTTTTTTSCC
T ss_pred HHHCCCCEEEEEEECCCHHHHHHHHHHH--HHH------------------CCCCCCCCEEEEEHHHHHHHHHHHHCCCC
T ss_conf 9975887259998089889999999999--873------------------37777875799638998765787504886
Q ss_pred EEEEECCCCCCCCCCHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHH---------
Q ss_conf 25870544335781118999998200255789705689999889999998423799899588999983021---------
Q 000811 430 QCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN--------- 500 (1272)
Q Consensus 430 ~~vIiDEaHrlKn~~s~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~f~~~~--------- 500 (1272)
++||+||||++||..++.++++..+.+.+||+|||||+||++.|||++++|+.|+.+++...|...|....
T Consensus 194 ~~vI~DEaH~ikn~~~~~~~al~~l~~~~rl~LTgTPiqN~l~El~sll~fl~p~~l~~~~~F~~~f~~pi~~~~~~~~~ 273 (644)
T 1z3i_X 194 GLVICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADAS 273 (644)
T ss_dssp CEEEETTGGGCCTTCHHHHHHHHHHCCSEEEEECSSCSGGGGGGCHHHHHHHHHHHHCCHHHHHHHTHHHHHHHHSTTCC
T ss_pred CEEEEECCEECCCHHHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCHHHHCCCCCCC
T ss_conf 57998786224780459999998555673799846734588999999998618876899999998632615416776778
Q ss_pred ------HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHH-CCCCHHHHHHHH
Q ss_conf ------3999999999720246777776673119996049985058999999999999999999993-289602699999
Q 000811 501 ------QEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTR-RGGAQISLINVV 573 (1272)
Q Consensus 501 ------~~~~i~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~-~~~~~~~l~~~l 573 (1272)
....+..|+.++.|+++||++.++...||++.+.+++|+|++.|+.+|+.++......... .+......+..+
T Consensus 274 ~~~~~~~~~~~~~L~~~l~~~~lRR~k~~v~~~LP~k~~~~v~~~ls~~q~~lY~~~~~~~~~~~~~~~g~~~~~~l~~l 353 (644)
T 1z3i_X 274 DKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQAKPVESLQTGKISVSSLSSI 353 (644)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHEECCCGGGGGGTSCCEEEEEEEECCCHHHHHHHHHHHHHHCGGGSSCTTCCCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHH
T ss_conf 88999999999999999889998710876764279836999983799899999999999899999876276214599999
Q ss_pred HHHHHHHCCCCCCCCC----CCCCCCCHH-------HHHHHHHHHHHHHHHHHHHHHHHH-CCCEEEEEECCHHHHHHHH
Q ss_conf 9999981786534588----999546069-------999988421279999999999997-0862899821222699999
Q 000811 574 MELRKLCCHPYMLEGV----EPDIEDTNE-------SFKQLLESSGKLQLLDKMMVKLKE-QGHRVLIYSQFQHMLDLLE 641 (1272)
Q Consensus 574 ~~Lrk~c~hP~L~~~~----e~~~~~~~~-------~~~~li~~SgKl~~L~klL~~l~~-~g~kVLIFsq~~~~ldiL~ 641 (1272)
+.||++|+||+++... +........ ........|+|+.+|..++..+.. .++|+||||+++.++++|+
T Consensus 354 ~~Lrk~c~hp~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~K~~~l~~ll~~~~~~~~~k~lIFs~~~~~~~~l~ 433 (644)
T 1z3i_X 354 TSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEPQLSGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFE 433 (644)
T ss_dssp HHHHHHHHCTHHHHHHHHHTCTTCTTGGGTSCSSCCSSSCCGGGSHHHHHHHHHHHHHHHHCCCEEEEEESCHHHHHHHH
T ss_pred HHHHHHHCCHHHHHHHHHCCCCHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHH
T ss_conf 99999957999888887415400355776454211100057011748999999999986469987999980599999999
Q ss_pred HHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHC
Q ss_conf 99872798089995778989999999997126999428996245333454756788899966999941388999945220
Q 000811 642 DYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRL 721 (1272)
Q Consensus 642 ~~L~~~g~~~~ridG~~~~~~Rq~~Id~Fn~~~s~~~vfLlSTragg~GINL~~Ad~VIi~D~dWNP~~d~Qa~gRahRi 721 (1272)
.+|...|+.+.+++|+++..+|+.++++|+++.+..++||+||++||+||||+.|++||+||++|||..+.||+||+||+
T Consensus 434 ~~l~~~g~~~~~l~G~~~~~~R~~~i~~F~~~~~~~~v~L~st~a~g~Glnl~~a~~Vi~~d~~wnp~~~~Qa~gR~~R~ 513 (644)
T 1z3i_X 434 KLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRD 513 (644)
T ss_dssp HHHHHHTCCEEEECSSCCHHHHHHHHHHHHSTTCCCCEEEEEGGGSCTTCCCTTEEEEEECSCCSSHHHHHHHHTTSSST
T ss_pred HHHHHCCCCEEEEECCCCHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCCCHHHHHHHHHHHC
T ss_conf 99997799789983999999999999996399999679998445566784652389899979999813799998840322
Q ss_pred CCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCH--HCCCCCHHHHHHHHHHCHH
Q ss_conf 999935999995089899999999999999999985100--0048999999999982212
Q 000811 722 GQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRL--KAQNINQEELDDIIRYGSK 779 (1272)
Q Consensus 722 GQ~k~V~VyrLit~~TvEE~I~~~~~~K~~L~~~v~g~~--~~~~~~~~el~~ll~~ga~ 779 (1272)
||+++|.||+|++.+|+||+|++++..|..|...|++.. ....++.+++.+++.++..
T Consensus 514 Gq~~~v~v~~lv~~~tiEe~i~~~~~~K~~l~~~v~~~~~~~~~~~~~~~l~~Lf~~~~~ 573 (644)
T 1z3i_X 514 GQKKTCYIYRLLSTGTIEEKILQRQAHKKALSSCVVDEEQDVERHFSLGELRELFSLNEK 573 (644)
T ss_dssp TCCSCEEEEEEEETTSHHHHHHHHHHHHHHTSCCCCSCSSSCCCSSCHHHHHHHTCCCSS
T ss_pred CCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCHHHCCCCHHHHHHHHCCCCC
T ss_conf 898726999988798899999999999999999985686054337899999998678987
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=606.86 Aligned_cols=455 Identities=31% Similarity=0.584 Sum_probs=398.1
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHCC-CCCEEEEECCCCHHHHHHHHHHHC
Q ss_conf 9888899992889999999998331798569990899809999999999984089-996799966712899999999887
Q 000811 278 PEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWEREFATWA 356 (1272)
Q Consensus 278 P~~~~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~sll~qW~~E~~~~~ 356 (1272)
|..+. .+|+|||.+|++|+...+..+.++||||+||+|||+++++++..+...+ .+++|||||.+++.||.+||.+|+
T Consensus 31 p~~~~-~~L~~~Q~~~v~~l~~~~~~~~~~ilad~~GlGKT~~ai~~i~~~~~~~~~~~~LIv~P~~l~~qw~~e~~~~~ 109 (500)
T 1z63_A 31 PYNIK-ANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKKENELTPSLVICPLSVLKNWEEELSKFA 109 (500)
T ss_dssp CCSCS-SCCCHHHHHHHHHHHHHHHTTCCEEECCCTTSCHHHHHHHHHHHHHHTTCCSSEEEEECSTTHHHHHHHHHHHC
T ss_pred CHHHH-CCCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHHC
T ss_conf 83320-03369999999999997417998899808997389999999998875589997899903899999999999977
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHCCCCCCCEEEEECC
Q ss_conf 99909999757257789998520279990222101367532122222355539990188887311013787412587054
Q 000811 357 PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDE 436 (1272)
Q Consensus 357 p~~~vv~~~G~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~L~~~~w~~vIiDE 436 (1272)
|.+++.+++|.... .....++|+|+||+++..+.. +....|++||+||
T Consensus 110 ~~~~v~~~~g~~~~-------------------------------~~~~~~~ivi~t~~~l~~~~~-l~~~~~~~vIvDE 157 (500)
T 1z63_A 110 PHLRFAVFHEDRSK-------------------------------IKLEDYDIILTTYAVLLRDTR-LKEVEWKYIVIDE 157 (500)
T ss_dssp TTSCEEECSSSTTS-------------------------------CCGGGSSEEEEEHHHHTTCHH-HHTCCEEEEEEET
T ss_pred CCCEEEEEECCCHH-------------------------------CCCCCCCEEEEEHHHHHCCCH-HCCCCCCEEEEEC
T ss_conf 99559997267021-------------------------------003577689963799726302-1178728799808
Q ss_pred CCCCCCCCHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHH---HHHHHHHHHHHHHH
Q ss_conf 433578111899999820025578970568999988999999842379989958899998302---13999999999720
Q 000811 437 GHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDI---NQEEQISRLHRMLA 513 (1272)
Q Consensus 437 aHrlKn~~s~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~f~~~---~~~~~i~~L~~~L~ 513 (1272)
||+++|..++.++++..+.+.++|+|||||++|++.|||++++|+.|+.+++...|...|... ........|+.++.
T Consensus 158 aH~~kn~~~~~~~~l~~l~~~~~l~LTaTP~~n~~~el~~ll~~l~p~~~~~~~~f~~~~~~~~~~~~~~~~~~l~~~l~ 237 (500)
T 1z63_A 158 AQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKGDNMAKEELKAIIS 237 (500)
T ss_dssp GGGGSCTTSHHHHHHHTSCEEEEEEECSSCSTTCHHHHHHHHHHHSTTTTCCHHHHHTTTHHHHHTTCHHHHHHHHHHHT
T ss_pred CCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHCCCCCCCCHHHHHHHHHHHH
T ss_conf 41017876899999996004718997467777999999999998587757998999998525111466889999999976
Q ss_pred HHHHHHHHHH--HHHCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 2467777766--73119996049985058999999999999999999993289--6026999999999981786534588
Q 000811 514 PHLLRRVKKD--VMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGG--AQISLINVVMELRKLCCHPYMLEGV 589 (1272)
Q Consensus 514 p~~lRR~k~d--v~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~--~~~~l~~~l~~Lrk~c~hP~L~~~~ 589 (1272)
|+++||++.+ +...+|++.+..+.|+|++.|+..|+.+.......+....+ ....++..++.|+++|+||.++...
T Consensus 238 ~~~lrr~k~~~~~~~~lp~~~~~~v~~~l~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~l~~lr~~~~~p~l~~~~ 317 (500)
T 1z63_A 238 PFILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLKGG 317 (500)
T ss_dssp TTEECCCTTCHHHHTTSCSEEEEEEEECCCHHHHHHHHHHHHHHTTTTTTCCTHHHHHHHHHHHHHHHHHTTCTHHHHCS
T ss_pred HHEEEECCCCCCHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCHHHHCCC
T ss_conf 67455025542411229997589998189999999999999999999986423210679999999999881799884385
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHC-CCCEEEEECCCCHHHHHHHHH
Q ss_conf 9995460699999884212799999999999970862899821222699999998727-980899957789899999999
Q 000811 590 EPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-KWQYERIDGKVGGAERQIRID 668 (1272)
Q Consensus 590 e~~~~~~~~~~~~li~~SgKl~~L~klL~~l~~~g~kVLIFsq~~~~ldiL~~~L~~~-g~~~~ridG~~~~~~Rq~~Id 668 (1272)
+. ....++|+..+.+++..+...|+|+||||+++.+++.|..+|... |+.+.+++|+++..+|+.+++
T Consensus 318 ~~-----------~~~~s~K~~~l~~~l~~~~~~~~k~lvF~~~~~~~~~l~~~l~~~~~~~~~~~~g~~~~~~R~~~~~ 386 (500)
T 1z63_A 318 EQ-----------SVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIIS 386 (500)
T ss_dssp CC-----------CSTTCHHHHHHHHHHHHHHTTTCCEEEECSCHHHHHHHHHHHHHHHTCCCCEEETTSCHHHHHHHHH
T ss_pred CC-----------HHHCCHHHHHHHHHHHHHHCCCCCEEEEEEHHHHHHHHHHHHHHHHCCCEEEEECCCCHHHHHHHHH
T ss_conf 20-----------1111552999999999987268868999721889999999998853887699979999999999999
Q ss_pred HHHCCCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHHHHHHHH
Q ss_conf 97126999428996245333454756788899966999941388999945220999935999995089899999999999
Q 000811 669 RFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKK 748 (1272)
Q Consensus 669 ~Fn~~~s~~~vfLlSTragg~GINL~~Ad~VIi~D~dWNP~~d~Qa~gRahRiGQ~k~V~VyrLit~~TvEE~I~~~~~~ 748 (1272)
+|++++... ++|+||+++++||||+.|++||+||++|||..+.|++||+||+||+++|.||+|++++|+||+|++++..
T Consensus 387 ~F~~~~~~~-vil~st~~~~~Glnl~~~~~vi~~d~~~~~~~~~Q~~gR~~R~Gq~~~v~v~~lv~~~tiee~i~~~~~~ 465 (500)
T 1z63_A 387 KFQNNPSVK-FIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAF 465 (500)
T ss_dssp HHHHCTTCC-CCEEECCCC-CCCCCTTCSEEEESSCCSCC---CHHHHTTTTTTTTSCEEEEEEEETTSHHHHTHHHHTT
T ss_pred HHCCCCCCC-EEEEECCCCCCCCCHHHCCEEEEECCCCCCCHHHHHHHHHHHCCCCCEEEEEEEEECCCHHHHHHHHHHH
T ss_conf 960899987-7999533355777445588899958998954589999988873898706999977489899999999999
Q ss_pred HHHHHHHHHCCH--HCCCCCHHHHHHHHHHC
Q ss_conf 999999985100--00489999999999822
Q 000811 749 KMVLEHLVVGRL--KAQNINQEELDDIIRYG 777 (1272)
Q Consensus 749 K~~L~~~v~g~~--~~~~~~~~el~~ll~~g 777 (1272)
|..+...+++.. ....++.+++.+++.+.
T Consensus 466 K~~l~~~~~~~~~~~~~~~~~~~l~~l~~~~ 496 (500)
T 1z63_A 466 KRSLFKDIISSGDSWITELSTEELRKVIELS 496 (500)
T ss_dssp CSSSSSSGGGSTTGGGGSSCHHHHHHHHSCC
T ss_pred HHHHHHHHHHCCCCHHCCCCHHHHHHHHCCC
T ss_conf 9999999860685021159999999996468
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=462.27 Aligned_cols=420 Identities=20% Similarity=0.260 Sum_probs=325.1
Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHCC-CCCEEEEECCCCHHHHHHHHHHHCCCCEEE
Q ss_conf 9992889999999998331798569990899809999999999984089-996799966712899999999887999099
Q 000811 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWEREFATWAPQMNVV 362 (1272)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIVvP~sll~qW~~E~~~~~p~~~vv 362 (1272)
.+|+|||.+++.|+.. ..+.++||||+||+|||+++++++..+...+ .+++|||||.+++.||..||.+|+ ++++.
T Consensus 152 ~~LrpyQ~eav~~~l~--~~~~~~LLad~tGlGKTi~Ai~~i~~l~~~g~~~rvLIVvP~sLl~Qw~~E~~~~f-~l~v~ 228 (968)
T 3dmq_A 152 TSLIPHQLNIAHDVGR--RHAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPETLQHQWLVEMLRRF-NLRFA 228 (968)
T ss_dssp SCCCHHHHHHHHHHHH--SSSCEEEECCCTTSCHHHHHHHHHHHHHHTSSCCCEEEECCTTTHHHHHHHHHHHS-CCCCE
T ss_pred CCCCHHHHHHHHHHHH--HCCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHH-CCCEE
T ss_conf 9970999999999997--05898898789997599999999999998189982999957888999999999986-99879
Q ss_pred EEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHH---HCCCCCCCEEEEECCCCC
Q ss_conf 99757257789998520279990222101367532122222355539990188887311---013787412587054433
Q 000811 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS---ASLKPIKWQCMIVDEGHR 439 (1272)
Q Consensus 363 ~~~G~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~---~~L~~~~w~~vIiDEaHr 439 (1272)
+++|.......... ......++|+|+||+++..+. ..+....|++||+||||+
T Consensus 229 v~~~~~~~~~~~~~------------------------~~~~~~~dIvI~T~~~L~~~~~~~~~l~~~~~dlVIvDEAH~ 284 (968)
T 3dmq_A 229 LFDDERYAEAQHDA------------------------YNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDLLVVDEAHH 284 (968)
T ss_dssp ECCHHHHHHHHHTT------------------------CSSSTTCSEEEECHHHHHTSTTTTHHHHTSCCCEEEECCSSC
T ss_pred EECCCHHHHHHHHC------------------------CCCCCCCCEEEECHHHHHHCHHHHHHHHHCCCCEEEEHHHHH
T ss_conf 98062055543200------------------------364456898997689986487888876415877897444676
Q ss_pred CCCCCHH---HHHHHHHC--CCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHH-----------
Q ss_conf 5781118---99999820--0255789705689999889999998423799899588999983021399-----------
Q 000811 440 LKNKDSK---LFSSLKQY--STRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEE----------- 503 (1272)
Q Consensus 440 lKn~~s~---~~~~l~~l--~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~f~~~~~~~----------- 503 (1272)
++|..+. .++.+..+ .+.++|+|||||++|++.|+|++++|+.|..|++...|...+.....-.
T Consensus 285 ~kn~~~~~s~~~~~l~~L~~~~~~~L~LTATPi~n~~~el~sll~~L~p~~~~~~~~f~~~~~~~~~i~~~~~~l~~~~~ 364 (968)
T 3dmq_A 285 LVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGMESHFARLRLLDPNRFHDFAQFVEEQKNYCPVADAVAMLLAGNK 364 (968)
T ss_dssp CCCBTTBCCHHHHHHHHHHTTCSSEEESCSSCSSSCSSCTHHHHHHHCTTTCSSTHHHHHHHHHHHHHHHHHHTTTTSCC
T ss_pred HCCCCCCCHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf 25888754299999999862578589997687669879999999825930118989999999857889999998742678
Q ss_pred -----------------------------------HHHHHHHHH-----HHHHHHHHHHHHHHCCCCCEEEEEEECCCHH
Q ss_conf -----------------------------------999999972-----0246777776673119996049985058999
Q 000811 504 -----------------------------------QISRLHRML-----APHLLRRVKKDVMKELPPKKELILRVELSSK 543 (1272)
Q Consensus 504 -----------------------------------~i~~L~~~L-----~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~ 543 (1272)
....+..++ ...++|+++..+ ..+|++....+.+.+++.
T Consensus 365 ~~~~~~~~L~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~i~~lld~~g~~~~l~r~~r~~i-~~~p~r~~~~~~l~~~~~ 443 (968)
T 3dmq_A 365 LSNDELNMLGEMIGEQDIEPLLQAANSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGV-KGFPKRELHTIKLPLPTQ 443 (968)
T ss_dssp CCGGGTTSSTTTTCTTCSSTTGGGTCCCSSCSTTTHHHHHHHHGGGCTTTTTEECCCTTTC-CCCCCCCCCEEEECCCHH
T ss_pred CCHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH-CCCCHHHEEEEECCCCHH
T ss_conf 9988999999884203367887503622233379999999999986173326563226554-556711157523689999
Q ss_pred HHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCC-CCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999999999999932896026999999999981786534-588999546069999988421279999999999997
Q 000811 544 QKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYML-EGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKE 622 (1272)
Q Consensus 544 Q~~~Y~~il~~~~~~l~~~~~~~~~l~~~l~~Lrk~c~hP~L~-~~~e~~~~~~~~~~~~li~~SgKl~~L~klL~~l~~ 622 (1272)
....|...... ........ .... +.+|..+ ....... ...+..+.|+..|.+++.. .
T Consensus 444 ~~~~~~~~~~~-----~~~~~~~~-------~~~~-~l~pe~~~~~l~~~~-------~~~~~~~~K~~~L~~ll~~--~ 501 (968)
T 3dmq_A 444 YQTAIKVSGIM-----GARKSAED-------RARD-MLYPERIYQEFEGDN-------ATWWNFDPRVEWLMGYLTS--H 501 (968)
T ss_dssp HHHHHHHHHHT-----TCCSSGGG-------GTHH-HHCSGGGTTTTTSSS-------CCTTTTSHHHHHHHHHHHH--T
T ss_pred HHHHHHHHHHH-----HHHHHHHH-------HHHH-HCCHHHHHHHHHHHH-------HCCCCCCHHHHHHHHHHHH--C
T ss_conf 99999987543-----02126677-------7764-108598998764333-------1356856799999999983--7
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHH-CCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEEE
Q ss_conf 086289982122269999999872-7980899957789899999999971269994289962453334547567888999
Q 000811 623 QGHRVLIYSQFQHMLDLLEDYLTF-KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVII 701 (1272)
Q Consensus 623 ~g~kVLIFsq~~~~ldiL~~~L~~-~g~~~~ridG~~~~~~Rq~~Id~Fn~~~s~~~vfLlSTragg~GINL~~Ad~VIi 701 (1272)
.+.++||||++..+++.|...|.. .|+++..++|+++..+|+.+++.|+++.+ .+.+|++|+++++|||++.+++||+
T Consensus 502 ~~~k~iVF~~~~~~~~~l~~~L~~~~g~~~~~lhG~~~~~~R~~~l~~F~~g~~-~~~vLvaT~v~~~GlDl~~~~~VI~ 580 (968)
T 3dmq_A 502 RSQKVLVICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDT-GAQVLLCSEIGSEGRNFQFASHMVM 580 (968)
T ss_dssp SSSCCCEECSSTHHHHHHHHHHHTTTCCCEEEECTTSCTTHHHHHHHHHHSTTS-SCEEEECSCCTTCSSCCTTCCEEEC
T ss_pred CCCCEEEEECCHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCC-CCCEEEECCHHHCCCCCCCCCEEEE
T ss_conf 999789996959999999999998749838998499999999999999747997-6308985334316888556767999
Q ss_pred ECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHH
Q ss_conf 66999941388999945220999935999995089899999999999999999
Q 000811 702 YDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEH 754 (1272)
Q Consensus 702 ~D~dWNP~~d~Qa~gRahRiGQ~k~V~VyrLit~~TvEE~I~~~~~~K~~L~~ 754 (1272)
||++|||..+.|++||++|+||++.|.||++++.+|+|++|++...+|+.+..
T Consensus 581 ~d~p~~~~~~~Q~~GR~~R~Gq~~~v~v~~~~~~~t~ee~i~~~~~~k~~~~~ 633 (968)
T 3dmq_A 581 FDLPFNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRWYHEGLDAFE 633 (968)
T ss_dssp SSCCSSHHHHHHHHHTTSCSSSCSCCEEEEEEETTSHHHHHHHHHHHTTCCSS
T ss_pred ECCCCCHHHHHHHHHCCCCCCCCCEEEEEEECCCCHHHHHHHHHHHHCCCCEE
T ss_conf 56999878999870114307998508999805777199999999986787635
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=388.20 Aligned_cols=421 Identities=14% Similarity=0.178 Sum_probs=298.7
Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHCCCCCEEEEECC-CCHHHHHHHHHHHC--CCCE
Q ss_conf 99928899999999983317985699908998099999999999840899967999667-12899999999887--9990
Q 000811 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWA--PQMN 360 (1272)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~--p~~~ 360 (1272)
.+|+|||.+++.|+ ..+ ++||+++||+|||++++.++..+.....+++|||||. +++.||.+++.+|+ |..+
T Consensus 8 ~~l~~~Q~~~i~~~----~~~-~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P~~~L~~q~~~~~~~~~~~~~~~ 82 (494)
T 1wp9_A 8 IQPRIYQEVIYAKC----KET-NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEK 82 (494)
T ss_dssp HCCCHHHHHHHHHG----GGS-CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSSHHHHHHHHHHHHHHBCSCGGG
T ss_pred CCCCHHHHHHHHHH----HHC-CEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHHHCCCHHH
T ss_conf 78639999999999----619-9899918998789999999999986479859999788899999999999874756111
Q ss_pred EEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHH--CCCCCCCEEEEECCCC
Q ss_conf 99997572577899985202799902221013675321222223555399901888873110--1378741258705443
Q 000811 361 VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SLKPIKWQCMIVDEGH 438 (1272)
Q Consensus 361 vv~~~G~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~--~L~~~~w~~vIiDEaH 438 (1272)
+..++|.......... ...++|+|+||+.+..... .+....|++||+||||
T Consensus 83 v~~~~g~~~~~~~~~~---------------------------~~~~~ivv~T~~~l~~~~~~~~~~~~~~~~vIiDEaH 135 (494)
T 1wp9_A 83 IVALTGEKSPEERSKA---------------------------WARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAH 135 (494)
T ss_dssp EEEECSCSCHHHHHHH---------------------------HHHCSEEEECHHHHHHHHHTTSCCTTSCSEEEEETGG
T ss_pred EEEEECCCCHHHHHHH---------------------------CCCCCEEEECHHHHHHHHHCCCCCHHHCEEEEEECCC
T ss_conf 6876077533556653---------------------------3579899963999999986087156541089997875
Q ss_pred CCCCCCHHH--HHHHHH-CCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCC---CHHHHHHH-HH-------HHHHHHH
Q ss_conf 357811189--999982-0025578970568999988999999842379989---95889999-83-------0213999
Q 000811 439 RLKNKDSKL--FSSLKQ-YSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFG---SLEEFQEE-FK-------DINQEEQ 504 (1272)
Q Consensus 439 rlKn~~s~~--~~~l~~-l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~---~~~~F~~~-f~-------~~~~~~~ 504 (1272)
++++..+.. ...+.. ....++++|||||. ++..+++.++.++.+.... ....+... +. .......
T Consensus 136 ~~~~~~~~~~~~~~~~~~~~~~~~l~lTaTp~-~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 214 (494)
T 1wp9_A 136 RAVGNYAYVFIAREYKRQAKNPLVIGLTASPG-STPEKIMEVINNLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEI 214 (494)
T ss_dssp GCSTTCHHHHHHHHHHHHCSSCCEEEEESCSC-SSHHHHHHHHHHTTCCEEEECCTTSTTTGGGCCCCCEEEEEECCCHH
T ss_pred CCCCCCCHHHHHHHHHHCCCCCEEEEEECCCC-CCCHHHHHHHHHCCHHEEECCCCCCHHHHHHCCCCCEEEEECCCCHH
T ss_conf 66888819999999973288776999956998-88578999998507000502678758788752787426895688588
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHH-----------------------
Q ss_conf 999999720246777776673119996049985058999999999999999999993-----------------------
Q 000811 505 ISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTR----------------------- 561 (1272)
Q Consensus 505 i~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~----------------------- 561 (1272)
...+...+.+++.++.+......+..... ..++..........+ ...+..
T Consensus 215 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 (494)
T 1wp9_A 215 YKEVRKLLREMLRDALKPLAETGLLESSS----PDIPKKEVLRAGQII---NEEMAKGNHDLRGLLLYHAMALKLHHAIE 287 (494)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTSSSCCC----TTSCHHHHHHHHHHH---HHHHTTTCCSTTTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCC----CCCCHHHHHHHHHHH---HHHHHCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 99999989899999999999735565457----773355789999999---98753356311347999988888999999
Q ss_pred --CCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHH----------HHHHHHHHHHHHHHHHHHH--HCCCEE
Q ss_conf --28960269999999999817865345889995460699999----------8842127999999999999--708628
Q 000811 562 --RGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNESFKQ----------LLESSGKLQLLDKMMVKLK--EQGHRV 627 (1272)
Q Consensus 562 --~~~~~~~l~~~l~~Lrk~c~hP~L~~~~e~~~~~~~~~~~~----------li~~SgKl~~L~klL~~l~--~~g~kV 627 (1272)
.......+...+..+...+.|+...... . ......+.. ....++|+..|.++|.... ..++|+
T Consensus 288 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~~~~~~~~~~~k~~~l~~~l~~~~~~~~~~k~ 364 (494)
T 1wp9_A 288 LLETQGLSALRAYIKKLYEEAKAGSTKASK--E-IFSDKRMKKAISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKI 364 (494)
T ss_dssp HHHHTCHHHHHHHHHHHHHHHHTTCCHHHH--H-HHTSHHHHHHHHHHHHHHHHTCSCHHHHHHHHHHHHHHHHCTTCCE
T ss_pred HHHHHCHHHHHHHHHHHHHHHCCCCCHHHH--H-HHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCEE
T ss_conf 998525799999999998752232114556--6-6650788989999998874589986999999999998436899759
Q ss_pred EEEECCHHHHHHHHHHHHHCCCCEEEEEC--------CCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEE
Q ss_conf 99821222699999998727980899957--------7898999999999712699942899624533345475678889
Q 000811 628 LIYSQFQHMLDLLEDYLTFKKWQYERIDG--------KVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699 (1272)
Q Consensus 628 LIFsq~~~~ldiL~~~L~~~g~~~~ridG--------~~~~~~Rq~~Id~Fn~~~s~~~vfLlSTragg~GINL~~Ad~V 699 (1272)
|||+++..+++.|.++|...|+.+.+++| +++..+|+.+++.|+++.. .+|++|.++++||||+.+++|
T Consensus 365 lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~~~~---~vLv~T~~~~~Gldl~~~~~V 441 (494)
T 1wp9_A 365 IVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEF---NVLVATSVGEEGLDVPEVDLV 441 (494)
T ss_dssp EEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC-------CCHHHHHHHHHHHTSC---SEEEECGGGGGGGGSTTCCEE
T ss_pred EEEECCHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCC---EEEEECCCCCCCCCCHHCCEE
T ss_conf 99976689999999999975998079965665444445899999999999866994---699988841258871437989
Q ss_pred EEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHH
Q ss_conf 996699994138899994522099993599999508989999999999999999
Q 000811 700 IIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLE 753 (1272)
Q Consensus 700 Ii~D~dWNP~~d~Qa~gRahRiGQ~k~V~VyrLit~~TvEE~I~~~~~~K~~L~ 753 (1272)
|+||++|||..+.|++||++|.|| +.+|+|++.+|+||+++.++.+|..+.
T Consensus 442 i~~d~~~~~~~~~Qr~GR~~R~g~---g~~~~l~~~~t~ee~~~~~~~~k~~~~ 492 (494)
T 1wp9_A 442 VFYEPVPSAIRSIQRRGRTGRHMP---GRVIILMAKGTRDEAYYWSSRQKEKIM 492 (494)
T ss_dssp EESSCCHHHHHHHHHHTTSCSCCC---SEEEEEEETTSHHHHHHHHCC------
T ss_pred EEECCCCCHHHHHHHHHHCCCCCC---CEEEEEEECCCHHHHHHHHHHHHHHHH
T ss_conf 992898878999998752257788---469999956987899999888789873
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=362.17 Aligned_cols=378 Identities=16% Similarity=0.215 Sum_probs=280.2
Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHCCCCCEEEEECC-CCHHHHHHHHHHHCCCCE
Q ss_conf 8999928899999999983317985699908998099999999999840899967999667-128999999998879990
Q 000811 282 SGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMN 360 (1272)
Q Consensus 282 ~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIVvP~-sll~qW~~E~~~~~p~~~ 360 (1272)
.+.+|+|||.++++++ ..+.++||+++||+|||++++.++..+ ..++|||||. +++.||.++|.+| ..+
T Consensus 90 ~~~~l~~~Q~~ai~~i----~~~~~~ll~~~TGsGKT~~~l~~i~~~----~~~~Lvl~P~~~L~~Q~~~~~~~~--~~~ 159 (472)
T 2fwr_A 90 AEISLRDYQEKALERW----LVDKRGCIVLPTGSGKTHVAMAAINEL----STPTLIVVPTLALAEQWKERLGIF--GEE 159 (472)
T ss_dssp CCCCBCHHHHHHHHHH----TTTTEEEEECCTTSCHHHHHHHHHHHH----CSCEEEEESSHHHHHHHHHHGGGG--CGG
T ss_pred CCCCCCHHHHHHHHHH----HHCCCEEEEECCCCCHHHHHHHHHHHC----CCCEEEEECCHHHHHHHHHHHHHC--CCC
T ss_conf 8998688999999999----965987999699998899999999980----999999987999999999999967--996
Q ss_pred -EEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHCCCCCCCEEEEECCCCC
Q ss_conf -9999757257789998520279990222101367532122222355539990188887311013787412587054433
Q 000811 361 -VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHR 439 (1272)
Q Consensus 361 -vv~~~G~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~L~~~~w~~vIiDEaHr 439 (1272)
+.+++|... ...+|+|+||+.+......+. -.|++||+||||+
T Consensus 160 ~v~~~~g~~~-----------------------------------~~~~Ivv~T~~~l~~~~~~~~-~~~~liIvDEaH~ 203 (472)
T 2fwr_A 160 YVGEFSGRIK-----------------------------------ELKPLTVSTYDSAYVNAEKLG-NRFMLLIFDEVHH 203 (472)
T ss_dssp GEEEBSSSCB-----------------------------------CCCSEEEEEHHHHHHTHHHHT-TTCSEEEEETGGG
T ss_pred CEEEECCCCC-----------------------------------CCCCEEEEECHHHHHHHHHHC-CCCCEEEEECCCC
T ss_conf 3699878767-----------------------------------767789997689997799736-8777899989757
Q ss_pred CCCCCHHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 57811189999982002557897056899998899999984237998995889999830213999999999720246777
Q 000811 440 LKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRR 519 (1272)
Q Consensus 440 lKn~~s~~~~~l~~l~~~~rllLTGTPlqNn~~EL~~ll~fL~p~~f~~~~~F~~~f~~~~~~~~i~~L~~~L~p~~lRR 519 (1272)
+.+.... ..+..+...++++|||||.+++..+ ..+..++.+.+.++
T Consensus 204 ~~~~~~~--~~~~~~~~~~~l~lSATp~~~~~~~--------------------------------~~l~~~~~~~~~~~ 249 (472)
T 2fwr_A 204 LPAESYV--QIAQMSIAPFRLGLTATFEREDGRH--------------------------------EILKEVVGGKVFEL 249 (472)
T ss_dssp TTSTTTH--HHHHTCCCSEEEEEESCCCCTTSGG--------------------------------GSHHHHTCCEEEEC
T ss_pred CCCHHHH--HHHHHCCCCEEEEEECCCCCCCCHH--------------------------------HHHHHHHCCEEEEC
T ss_conf 8976899--9997357781899932766889778--------------------------------99999729857654
Q ss_pred HHHHHHH-CCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHH
Q ss_conf 7766731-199960499850589999999999999999999932896026999999999981786534588999546069
Q 000811 520 VKKDVMK-ELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNE 598 (1272)
Q Consensus 520 ~k~dv~~-~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~~l~~Lrk~c~hP~L~~~~e~~~~~~~~ 598 (1272)
...++.. .+++.....+.+.+++.+...|..+.......+............ +..+-.++. ..+...........
T Consensus 250 ~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~~~~~~~~~---~~~~~~~~~~~~~~ 325 (472)
T 2fwr_A 250 FPDSLAGKHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAED-FNKIVMASG---YDERAYEALRAWEE 325 (472)
T ss_dssp CHHHHTSCCCCSEEECCEEECCCHHHHHHTTTTTHHHHSCSSSCCCTTTCCSS-STTTTTTTC---CSSSSSTTTHHHHH
T ss_pred CHHHHHCCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHH-HHHHHHHHC---CCHHHHHHHHHHHH
T ss_conf 78987067678818999985899899999999999999999864754224466-899998723---69889999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCE
Q ss_conf 99998842127999999999999708628998212226999999987279808999577898999999999712699942
Q 000811 599 SFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRF 678 (1272)
Q Consensus 599 ~~~~li~~SgKl~~L~klL~~l~~~g~kVLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~Rq~~Id~Fn~~~s~~~ 678 (1272)
........+.|+..|.+++.. ..++++|||+++..+++.|...|. +..++|.++..+|+.+++.|+++..
T Consensus 326 ~~~~~~~~~~k~~~l~~~l~~--~~~~k~lvF~~~~~~~~~l~~~l~-----~~~~~g~~~~~~R~~~~~~F~~g~~--- 395 (472)
T 2fwr_A 326 ARRIAFNSKNKIRKLREILER--HRKDKIIIFTRHNELVYRISKVFL-----IPAITHRTSREEREEILEGFRTGRF--- 395 (472)
T ss_dssp HHHHHHSCSHHHHHHHHHHHH--TSSSCBCCBCSCHHHHHHHHHHTT-----CCBCCSSSCSHHHHTHHHHHHHSSC---
T ss_pred HHHHHHCCHHHHHHHHHHHHH--CCCCCEEEEECCHHHHHHHHHHHC-----CCEEECCCCHHHHHHHHHHHHCCCC---
T ss_conf 999763373899999999985--789838999797999999999748-----6556289999999999999867998---
Q ss_pred EEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCC-CCEEEEEEEECCCHHHHHHHHHHHHHHHH
Q ss_conf 8996245333454756788899966999941388999945220999-93599999508989999999999999999
Q 000811 679 CFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQT-NKVMIFRLITRGSIEERMMQMTKKKMVLE 753 (1272)
Q Consensus 679 vfLlSTragg~GINL~~Ad~VIi~D~dWNP~~d~Qa~gRahRiGQ~-k~V~VyrLit~~TvEE~I~~~~~~K~~L~ 753 (1272)
.+|++|+++++|||++.+++||++|++|||..+.|++||++|.||. +.|.||+|++++|+||++.++..+|..++
T Consensus 396 ~vLv~T~~~~~Gldlp~~~~Vi~~~~~~s~~~~~Q~~GR~~R~g~~k~~~~i~~lv~~~t~ee~~~~~r~~~~~~a 471 (472)
T 2fwr_A 396 RAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKKEAVLYELISRGTGEVNTARRRKNAAKGA 471 (472)
T ss_dssp SBCBCSSCCCSSSCSCCBSEEEEECCSSCCHHHHHHHHHSBCCCTTTCCEEEEEEEECSCC---------------
T ss_pred CEEEECCCHHCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCHHHHHHHHHHHHCCC
T ss_conf 8899857051484620286899989999888999987631577799853999999819985379999998765058
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=355.03 Aligned_cols=253 Identities=27% Similarity=0.440 Sum_probs=225.0
Q ss_pred HHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 46777776673119996049985058999999999999999999993289--6026999999999981786534588999
Q 000811 515 HLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGG--AQISLINVVMELRKLCCHPYMLEGVEPD 592 (1272)
Q Consensus 515 ~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~--~~~~l~~~l~~Lrk~c~hP~L~~~~e~~ 592 (1272)
--+||+|++|..+|||+.+.+++|+||+.|+++|+.++.+....+....+ ....+++.++.||++|+||+++....
T Consensus 12 ~~~rr~k~~v~~~LP~k~e~~v~v~ls~~Q~~~Y~~~~~~~~~~~~~~~~~~~~~~~l~~l~~Lrq~~~hP~l~~~~~-- 89 (271)
T 1z5z_A 12 SGLVPRGSHMASDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLKGGE-- 89 (271)
T ss_dssp ----------------CEEEEEEECCCHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHTTCTHHHHCSC--
T ss_pred CCCCCCHHHHHHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCHHHHCCCC--
T ss_conf 564164877875199977999981899999999999999999999740352128899999999999848998846873--
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHC-CCCEEEEECCCCHHHHHHHHHHHH
Q ss_conf 5460699999884212799999999999970862899821222699999998727-980899957789899999999971
Q 000811 593 IEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-KWQYERIDGKVGGAERQIRIDRFN 671 (1272)
Q Consensus 593 ~~~~~~~~~~li~~SgKl~~L~klL~~l~~~g~kVLIFsq~~~~ldiL~~~L~~~-g~~~~ridG~~~~~~Rq~~Id~Fn 671 (1272)
.++..|+|+..|.++|..+.+.|+|+||||+++.++++|..+|... |+.+.+++|+++..+|+.+++.|+
T Consensus 90 ---------~~~~~s~K~~~L~~ll~~~~~~~~kvlIFs~~~~~~~~l~~~L~~~~g~~~~~l~G~~~~~~R~~~i~~F~ 160 (271)
T 1z5z_A 90 ---------QSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQ 160 (271)
T ss_dssp ---------CCSTTCHHHHHHHHHHHHHHHTTCCEEEEESCHHHHHHHHHHHHHHHCSCCCEECTTSCHHHHHHHHHHHH
T ss_pred ---------CCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHC
T ss_conf ---------22346899999999999998679969999551999999999998733984799979999999999999832
Q ss_pred CCCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHHHHHHHHHHH
Q ss_conf 26999428996245333454756788899966999941388999945220999935999995089899999999999999
Q 000811 672 AKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMV 751 (1272)
Q Consensus 672 ~~~s~~~vfLlSTragg~GINL~~Ad~VIi~D~dWNP~~d~Qa~gRahRiGQ~k~V~VyrLit~~TvEE~I~~~~~~K~~ 751 (1272)
+++... +||+||++||+||||+.|++||+||++|||..+.||+||+||+||+++|.||+|++.+|+||+|++++..|..
T Consensus 161 ~~~~~~-v~L~st~~~g~Glnl~~a~~VI~~d~~wnp~~~~Q~~gR~~R~Gq~~~v~v~~li~~~TiEe~i~~~~~~K~~ 239 (271)
T 1z5z_A 161 NNPSVK-FIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRS 239 (271)
T ss_dssp HCTTCC-EEEEECCTTCCCCCCTTCSEEEECSCCSCTTTC--------------CCEEEEEEETTSHHHHHHHHHHHCHH
T ss_pred CCCCCC-EEEEEHHHHCCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHHHHHHHHHHHHH
T ss_conf 899997-8997223515886764489999979999851899999852323899856999985498899999999999999
Q ss_pred HHHHHHCCHH--CCCCCHHHHHHHHHHCHH
Q ss_conf 9999851000--048999999999982212
Q 000811 752 LEHLVVGRLK--AQNINQEELDDIIRYGSK 779 (1272)
Q Consensus 752 L~~~v~g~~~--~~~~~~~el~~ll~~ga~ 779 (1272)
+...+++... ...++.+++.+++.++..
T Consensus 240 l~~~~~~~~~~~~~~~~~~~l~~l~~~~~~ 269 (271)
T 1z5z_A 240 LFKDIISSGDSWITELSTEELRKVIELSVG 269 (271)
T ss_dssp HHTTGGGGTTHHHHTSCHHHHHHHHSCCCT
T ss_pred HHHHHHCCCCHHHHCCCHHHHHHHHCCCCC
T ss_conf 999997167054323899999999655889
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=348.44 Aligned_cols=434 Identities=14% Similarity=0.165 Sum_probs=264.8
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHCC----CCCEEEEECC-CCHHHHHHHHHHHCC
Q ss_conf 99992889999999998331798569990899809999999999984089----9967999667-128999999998879
Q 000811 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER----ISPHLVVAPL-STLRNWEREFATWAP 357 (1272)
Q Consensus 283 ~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~----~~p~LIVvP~-sll~qW~~E~~~~~p 357 (1272)
..+|+|||.+++.++ ..+.++|++++||+|||++++..+....... .+++|||||+ +++.||.++|.+|++
T Consensus 246 ~~~~r~~Q~~ai~~i----l~g~~~ll~a~TGsGKTl~~~~~i~~~l~~~~~~~~~~vLvl~Pt~~L~~Q~~~~~~~~~~ 321 (936)
T 4a2w_A 246 TKKARSYQIELAQPA----INGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFE 321 (936)
T ss_dssp --CCCHHHHHHHHHH----HTTCCEEEECCTTSCHHHHHHHHHHTTTTTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHH----HCCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHHHC
T ss_conf 898779999999999----8099899996998459999999999999736556898599996989999999999999712
Q ss_pred --CCEEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHC--C-CCCCCEEE
Q ss_conf --990999975725778999852027999022210136753212222235553999018888731101--3-78741258
Q 000811 358 --QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS--L-KPIKWQCM 432 (1272)
Q Consensus 358 --~~~vv~~~G~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~--L-~~~~w~~v 432 (1272)
.+++..++|+...+..... .....+|+|+||+.+...... + ....|++|
T Consensus 322 ~~~~~v~~~~G~~~~~~~~~~--------------------------~~~~~~IvI~Tp~~L~~~l~~~~~~~l~~~~li 375 (936)
T 4a2w_A 322 RQGYSVQGISGENFSNVSVEK--------------------------VIEDSDIIVVTPQILVNSFEDGTLTSLSIFTLM 375 (936)
T ss_dssp TTTCCEEEECCC-----CCHH--------------------------HHHHCSEEEECHHHHHHHHHSSSCCCGGGCSEE
T ss_pred CCCCEEEEEECCCCHHHHHHH--------------------------HCCCCCEEEECHHHHHHHHHCCCCCCCCCCCEE
T ss_conf 169559999799631257897--------------------------416999999449999999871764533678799
Q ss_pred EECCCCCCCCCCHHHHHHHHHC-C--------CCCEEEEECCCCCCCHHHHHHH-------HHHHCCC----CCCCHHHH
Q ss_conf 7054433578111899999820-0--------2557897056899998899999-------9842379----98995889
Q 000811 433 IVDEGHRLKNKDSKLFSSLKQY-S--------TRHRVLLTGTPLQNNLDELFML-------MHFLDAG----KFGSLEEF 492 (1272)
Q Consensus 433 IiDEaHrlKn~~s~~~~~l~~l-~--------~~~rllLTGTPlqNn~~EL~~l-------l~fL~p~----~f~~~~~F 492 (1272)
|+||||++.+..+ ....+..+ . ...+++|||||.+++..++... ...+... .......+
T Consensus 376 ViDEaH~~~~~~~-~~~i~~~~~~~~~~~~~~~~~~l~LSATp~~~~~~~l~~~~~~i~~L~~~L~~~~i~~~~~~~~~l 454 (936)
T 4a2w_A 376 IFDECHNTTGNHP-YNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQEL 454 (936)
T ss_dssp EEETGGGCSTTCH-HHHHHHHHHHHHHTTCSCCCEEEEEESCCCCTTCCSHHHHHHHHHHHHHHHTCSEEECCCSSHHHH
T ss_pred EEECCCCCCCCCC-HHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEECCCCCHHHH
T ss_conf 9987313599866-999999999986313788673998638855454020899999999999854971553465448999
Q ss_pred HHHHHHHH-------------HH----HHHHHHHHHHHH----------------------HHHHHHHHHHHHCCCCCEE
Q ss_conf 99983021-------------39----999999997202----------------------4677777667311999604
Q 000811 493 QEEFKDIN-------------QE----EQISRLHRMLAP----------------------HLLRRVKKDVMKELPPKKE 533 (1272)
Q Consensus 493 ~~~f~~~~-------------~~----~~i~~L~~~L~p----------------------~~lRR~k~dv~~~LP~k~e 533 (1272)
...+.... .. .....++.++.. ++....+......+|..
T Consensus 455 ~~~~~~p~~~~~~~~~~~~~~~~~~l~~l~~~i~~~~~~~l~~~~l~~~~~~~~g~~~y~~~l~~l~k~~~~~~l~~~-- 532 (936)
T 4a2w_A 455 QRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIAYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDK-- 532 (936)
T ss_dssp HHHSCCCCEEEEECCCCSCCHHHHHHHHHHHHHHHHHHHC------------CCSSHHHHHHHHHHHHHHHHCCCSCH--
T ss_pred HHHCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCC--
T ss_conf 875367762377336556757999999999999999998876655532022332257799999999998877405532--
Q ss_pred EEEEECCCHHHHHHHHHHHHH------HHHHH--HHCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHH----HH
Q ss_conf 998505899999999999999------99999--9328960269999999999817865345889995460699----99
Q 000811 534 LILRVELSSKQKEYYKAILTR------NYQIL--TRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNES----FK 601 (1272)
Q Consensus 534 ~~v~v~ls~~Q~~~Y~~il~~------~~~~l--~~~~~~~~~l~~~l~~Lrk~c~hP~L~~~~e~~~~~~~~~----~~ 601 (1272)
..+...+..+... ....+ ....+ .......+...+....- .+..+........ ..
T Consensus 533 --------~~~~~~~~~l~~~~~~l~~~~~al~i~~~~~----~~~~~~~l~~~~~~~~~-~~~~~~e~~l~~~~~~~~~ 599 (936)
T 4a2w_A 533 --------EEESRICRALFICTEHLRKYNDALIISEDAR----IIDALSYLTEFFTNVKN-GPYTELEQHLTAKFQEKEP 599 (936)
T ss_dssp --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC----HHHHHHHHHHHHHHHHH-TTCCHHHHHHHHHHHHHHH
T ss_pred --------CHHHHHHHHHHHHHHHHHHHHHHHHHHCCHH----HHHHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHH
T ss_conf --------1035799999999999999888875002042----88899999999998763-2588789999998999999
Q ss_pred HH-------HHHHHHHHHHHHHHHHHH--HCCCEEEEEECCHHHHHHHHHHHHHC------------CCCEEEEECCCCH
Q ss_conf 98-------842127999999999999--70862899821222699999998727------------9808999577898
Q 000811 602 QL-------LESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTFK------------KWQYERIDGKVGG 660 (1272)
Q Consensus 602 ~l-------i~~SgKl~~L~klL~~l~--~~g~kVLIFsq~~~~ldiL~~~L~~~------------g~~~~ridG~~~~ 660 (1272)
.+ ...++|+..|.++|.... ..++|+||||+++.+++.|.++|... |..+..++|+++.
T Consensus 600 ~l~~~~~~~~~~~~K~~~L~~lL~~~~~~~~~~rvLIF~~t~~~ae~L~~~L~~~~~l~~ik~~~l~G~~~~~~hg~m~~ 679 (936)
T 4a2w_A 600 ELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTL 679 (936)
T ss_dssp HHHHHHTSTTCCCHHHHHHHHHHHHTTTSCTTCCEEEEESSHHHHHHHHHHHHHCSTTSSCCCEEC--------------
T ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCCCCCCH
T ss_conf 99976405677897999999999998535899749999697999999999986373536666169965787656788899
Q ss_pred HHHHHHHHHHHC-CCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHH
Q ss_conf 999999999712-6999428996245333454756788899966999941388999945220999935999995089899
Q 000811 661 AERQIRIDRFNA-KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIE 739 (1272)
Q Consensus 661 ~~Rq~~Id~Fn~-~~s~~~vfLlSTragg~GINL~~Ad~VIi~D~dWNP~~d~Qa~gRahRiGQ~k~V~VyrLit~~TvE 739 (1272)
.+|+.++++|++ +.. .+|++|+++++|||++.+++||+||++|||..++|++|| |+.+.+.+|.|++.+|+|
T Consensus 680 ~eR~~il~~Fr~~g~~---~VLVaT~~~~eGIDlp~v~~VI~yD~p~s~~~~iQr~GR----GR~~~g~vi~Li~~~t~e 752 (936)
T 4a2w_A 680 PSQKGVLDAFKTSKDN---RLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTEVV 752 (936)
T ss_dssp --------------CC---SEEEEECC------CCCCSEEEEESCCSCSHHHHCC-----------CCCEEEEESCHHHH
T ss_pred HHHHHHHHHHHCCCCE---EEEEEECCHHCCCCCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCCHH
T ss_conf 9999999986315981---599980726427760558989993899988999996487----788887799998698899
Q ss_pred HHHHHHHHHHHHHHHHHHCCHHCCCCCHHHHHH
Q ss_conf 999999999999999985100004899999999
Q 000811 740 ERMMQMTKKKMVLEHLVVGRLKAQNINQEELDD 772 (1272)
Q Consensus 740 E~I~~~~~~K~~L~~~v~g~~~~~~~~~~el~~ 772 (1272)
++.. ....|..+...++..+ +.++.+++..
T Consensus 753 e~~~-~~~~ke~~~~~~i~~l--~~~~~~~~~~ 782 (936)
T 4a2w_A 753 ENEK-CNRYKEEMMNKAVEKI--QKWDEETFAK 782 (936)
T ss_dssp HHHH-HHHHHHHHHHHHHHHH--HTSCHHHHHH
T ss_pred HHHH-HHHHHHHHHHHHHHHH--HCCCHHHHHH
T ss_conf 9999-9889999999999986--4479999999
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=341.49 Aligned_cols=431 Identities=14% Similarity=0.171 Sum_probs=266.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHCC----CCCEEEEECC-CCHHHHHHHHHHHC
Q ss_conf 899992889999999998331798569990899809999999999984089----9967999667-12899999999887
Q 000811 282 SGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER----ISPHLVVAPL-STLRNWEREFATWA 356 (1272)
Q Consensus 282 ~~~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~----~~p~LIVvP~-sll~qW~~E~~~~~ 356 (1272)
...+|+|||.+++.++ ..+.++|++++||+|||++++..+....... .+++|||||. +++.||.++|.+|+
T Consensus 245 g~~~l~~~Q~~~i~~~----l~~~~~ll~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~Lvl~Pt~~L~~Q~~~~~~~~~ 320 (797)
T 4a2q_A 245 ETKKARSYQIELAQPA----INGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHF 320 (797)
T ss_dssp ---CCCHHHHHHHHHH----HTTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHH
T ss_pred CCCCCCHHHHHHHHHH----HHCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHHC
T ss_conf 8899999999999999----809998999699972999999999999984665679969999698999999999999861
Q ss_pred C--CCEEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHC--C-CCCCCEE
Q ss_conf 9--990999975725778999852027999022210136753212222235553999018888731101--3-7874125
Q 000811 357 P--QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS--L-KPIKWQC 431 (1272)
Q Consensus 357 p--~~~vv~~~G~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~--L-~~~~w~~ 431 (1272)
+ .+++..++|+.......... ....+|+|+||+.+...... + ....|++
T Consensus 321 ~~~~~~v~~~~g~~~~~~~~~~~--------------------------~~~~~Ivv~Tp~~l~~~l~~~~~~~~~~~~~ 374 (797)
T 4a2q_A 321 ERQGYSVQGISGENFSNVSVEKV--------------------------IEDSDIIVVTPQILVNSFEDGTLTSLSIFTL 374 (797)
T ss_dssp GGGTCCEEEECCC-----CHHHH--------------------------HHTCSEEEECHHHHHHHHHSSSCCCGGGCSE
T ss_pred CCCCCEEEEEECCCCHHHHHHHH--------------------------HCCCCEEEECHHHHHHHHHHCCCCCCCCCCE
T ss_conf 43794699996996232469974--------------------------0799999976699999998265465133778
Q ss_pred EEECCCCCCCCCCHHHHHHHHHC-C--------CCCEEEEECCCCCCCHHHHHH-------HHHHHCCC----CCCCHHH
Q ss_conf 87054433578111899999820-0--------255789705689999889999-------99842379----9899588
Q 000811 432 MIVDEGHRLKNKDSKLFSSLKQY-S--------TRHRVLLTGTPLQNNLDELFM-------LMHFLDAG----KFGSLEE 491 (1272)
Q Consensus 432 vIiDEaHrlKn~~s~~~~~l~~l-~--------~~~rllLTGTPlqNn~~EL~~-------ll~fL~p~----~f~~~~~ 491 (1272)
||+||||++.+..+ ....+..+ . ..++++|||||.+++..++.. +...+... .......
T Consensus 375 iViDEaH~~~~~~~-~~~i~~~~~~~~~~~~~~~~~~l~lSATp~~~~~~~~~~~~~~i~~l~~~L~~~~i~~~~~~~~~ 453 (797)
T 4a2q_A 375 MIFDECHNTTGNHP-YNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQE 453 (797)
T ss_dssp EEETTGGGCSTTSH-HHHHHHHHHHHHHTTCCCCCEEEEEESCCCCTTCCSHHHHHHHHHHHHHHHTCSEEECCCTTHHH
T ss_pred EEEECCCCCCCCCC-HHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEECCCCCHHH
T ss_conf 99988635588764-99999999997631478878599972775545522489999999999985498488545431788
Q ss_pred HHHHHHHHH-----------------HHHHHHHHHHHHHHHH----------------------HHHHHHHHHHCCCCCE
Q ss_conf 999983021-----------------3999999999720246----------------------7777766731199960
Q 000811 492 FQEEFKDIN-----------------QEEQISRLHRMLAPHL----------------------LRRVKKDVMKELPPKK 532 (1272)
Q Consensus 492 F~~~f~~~~-----------------~~~~i~~L~~~L~p~~----------------------lRR~k~dv~~~LP~k~ 532 (1272)
+...+.... .......++.++..++ ....+......++.
T Consensus 454 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~l~~l~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~-- 531 (797)
T 4a2q_A 454 LQRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLED-- 531 (797)
T ss_dssp HHHHSCCCCCEEEECCCCSCCHHHHHHHHHHHHHHHHHHHC------------CCSSHHHHHHHHHHHHHHHHCCCSS--
T ss_pred HHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCCC--
T ss_conf 997358885488845777786789999999999999999987567765300001140567789999999877740343--
Q ss_pred EEEEEECCCHHHHHHHHHHHHHH------HHHH--HHCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHH-----
Q ss_conf 49985058999999999999999------9999--9328960269999999999817865345889995460699-----
Q 000811 533 ELILRVELSSKQKEYYKAILTRN------YQIL--TRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNES----- 599 (1272)
Q Consensus 533 e~~v~v~ls~~Q~~~Y~~il~~~------~~~l--~~~~~~~~~l~~~l~~Lrk~c~hP~L~~~~e~~~~~~~~~----- 599 (1272)
...+...+..+.... ...+ ....+ .......++..|.+.--. ........
T Consensus 532 --------~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~-----~~~~~~~~l~~~~ 594 (797)
T 4a2q_A 532 --------KEEESRICRALFICTEHLRKYNDALIISEDAR----IIDALSYLTEFFTNVKNG-----PYTELEQHLTAKF 594 (797)
T ss_dssp --------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC----HHHHHHHHHHHHHHHHHT-----TCCHHHHHHHHHH
T ss_pred --------CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC----HHHHHHHHHHHHHHHHCC-----CCCHHHHHHHHHH
T ss_conf --------20256799999999999999998876541325----888999999999987504-----7668999999999
Q ss_pred ------HHH----HHHHHHHHHHHHHHHHHHH--HCCCEEEEEECCHHHHHHHHHHHHH------------CCCCEEEEE
Q ss_conf ------999----8842127999999999999--7086289982122269999999872------------798089995
Q 000811 600 ------FKQ----LLESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTF------------KKWQYERID 655 (1272)
Q Consensus 600 ------~~~----li~~SgKl~~L~klL~~l~--~~g~kVLIFsq~~~~ldiL~~~L~~------------~g~~~~rid 655 (1272)
+.. ....++|+..|.++|.... ..++|+||||+++.+++.|.++|.. .|..+..++
T Consensus 595 ~~~~~~l~~~~~~~~~~~~K~~~L~~lL~~~~~~~~~~kvLIF~~~~~~~~~L~~~L~~~~~~~~~~~~~l~G~~~~~~h 674 (797)
T 4a2q_A 595 QEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQT 674 (797)
T ss_dssp HTTHHHHHHHHHCTTCCCHHHHHHHHHHHHHHHHCSSCCEEEEESSHHHHHHHHHHHHTCSTTCSCCCEEC---------
T ss_pred HHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCCCC
T ss_conf 99999998763078889959999999999985058997089997958999999999974756466552189844775457
Q ss_pred CCCCHHHHHHHHHHHHC-CCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEE
Q ss_conf 77898999999999712-69994289962453334547567888999669999413889999452209999359999950
Q 000811 656 GKVGGAERQIRIDRFNA-KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLIT 734 (1272)
Q Consensus 656 G~~~~~~Rq~~Id~Fn~-~~s~~~vfLlSTragg~GINL~~Ad~VIi~D~dWNP~~d~Qa~gRahRiGQ~k~V~VyrLit 734 (1272)
|+++..+|+.++++|++ +.. .+|++|+++++|||++.+++||+||++|||..++|++|| |+.+++.+|.|++
T Consensus 675 g~~~~~eR~~~l~~F~~~g~~---~vLVaT~~~~~GIDlp~v~~VI~yd~p~s~~~~iQr~GR----GR~~~g~~i~l~~ 747 (797)
T 4a2q_A 675 TGMTLPSQKGVLDAFKTSKDN---RLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTS 747 (797)
T ss_dssp -------------------CC---SEEEEECC-------CCCSEEEEESCCSCHHHHHTC-----------CCCEEEEEC
T ss_pred CCCCHHHHHHHHHHHHCCCCC---EEEEECCCHHCCCCCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEE
T ss_conf 898999999999985136970---499974805447975108989994899988999985388----8787865999972
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCHHCCCCCHHHHHH
Q ss_conf 89899999999999999999985100004899999999
Q 000811 735 RGSIEERMMQMTKKKMVLEHLVVGRLKAQNINQEELDD 772 (1272)
Q Consensus 735 ~~TvEE~I~~~~~~K~~L~~~v~g~~~~~~~~~~el~~ 772 (1272)
.++++++ ......|..+...++..+ +.++.+++..
T Consensus 748 ~~~~ee~-~~~~~~ke~~~~~~i~~l--~~~~~~~~~~ 782 (797)
T 4a2q_A 748 KTEVVEN-EKCNRYKEEMMNKAVEKI--QKWDEETFAK 782 (797)
T ss_dssp CHHHHHH-HHHHHHHHHHHHHHHHHH--HTSCHHHHHH
T ss_pred CCCHHHH-HHHHHHHHHHHHHHHHHH--HCCCHHHHHH
T ss_conf 8768899-998889999999999987--4579899999
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=326.60 Aligned_cols=436 Identities=15% Similarity=0.197 Sum_probs=265.5
Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHHHHHHHHCC----CCCEEEEECC-CCHHHHHHHHHHHCC-
Q ss_conf 9992889999999998331798569990899809999999999984089----9967999667-128999999998879-
Q 000811 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER----ISPHLVVAPL-STLRNWEREFATWAP- 357 (1272)
Q Consensus 284 ~~LrpyQlegv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~----~~p~LIVvP~-sll~qW~~E~~~~~p- 357 (1272)
.+|+|||.+++.++ ..+.++|++++||+|||++++..+....... .+++|||||+ +++.||.+++.++++
T Consensus 6 ~~~~~~Q~~~i~~~----~~~~~~l~~~~tGsGKT~~~~~~~~~~~~~~~~~~~~~~lil~P~~~L~~q~~~~~~~~~~~ 81 (556)
T 4a2p_A 6 KKARSYQIELAQPA----INGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFER 81 (556)
T ss_dssp --CCHHHHHHHHHH----HTTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHGG
T ss_pred CCCCHHHHHHHHHH----HCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHHHCC
T ss_conf 78779999999999----74998999819997189999999999998374567986999928899999999999987240
Q ss_pred -CCEEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHHHHC--C-CCCCCEEEE
Q ss_conf -990999975725778999852027999022210136753212222235553999018888731101--3-787412587
Q 000811 358 -QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS--L-KPIKWQCMI 433 (1272)
Q Consensus 358 -~~~vv~~~G~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~fdViItSye~l~~d~~~--L-~~~~w~~vI 433 (1272)
.+++..++|........... ....+|+|+|++.+...... + ....|++||
T Consensus 82 ~~~~~~~~~g~~~~~~~~~~~--------------------------~~~~~i~v~T~~~l~~~~~~~~~~~~~~~~~vV 135 (556)
T 4a2p_A 82 QGYSVQGISGENFSNVSVEKV--------------------------IEDSDIIVVTPQILVNSFEDGTLTSLSIFTLMI 135 (556)
T ss_dssp GTCCEEECCCC-----CHHHH--------------------------HHHCSEEEECHHHHHHHHHSSSCCCSTTCSEEE
T ss_pred CCCEEEEEECCCCCCHHHHHH--------------------------HCCCCEEEECHHHHHHHHHHCCCCCCCCCCEEE
T ss_conf 694599982898742228986--------------------------179999998899999999837502503077999
Q ss_pred ECCCCCCCCCCHHHHHHHHH-C--------CCCCEEEEECCCCCCCHH-------HHHHHHHHHCCCCC----CCHHHHH
Q ss_conf 05443357811189999982-0--------025578970568999988-------99999984237998----9958899
Q 000811 434 VDEGHRLKNKDSKLFSSLKQ-Y--------STRHRVLLTGTPLQNNLD-------ELFMLMHFLDAGKF----GSLEEFQ 493 (1272)
Q Consensus 434 iDEaHrlKn~~s~~~~~l~~-l--------~~~~rllLTGTPlqNn~~-------EL~~ll~fL~p~~f----~~~~~F~ 493 (1272)
+||||++.+.... ...+.. + ...++++|||||.+++.. .+..+...+....+ .....+.
T Consensus 136 iDEah~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~lSAT~~~~~~~~~~~~~~~i~~l~~~l~~~~~~~~~~~~~~~~ 214 (556)
T 4a2p_A 136 FDECHNTTGNHPY-NVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQ 214 (556)
T ss_dssp EETGGGCSTTSHH-HHHHHHHHHHHHCC---CCEEEEEESCCCCTTCSSHHHHHHHHHHHHHHHTCSEEECCCTTHHHHH
T ss_pred EECCCCCCCCCHH-HHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEECCHHCCHHHHH
T ss_conf 9887535886459-999999998530136888769999478566751669999999999998539848433320267787
Q ss_pred HHHHHHH-------------HHH----HHHHHHHHHHH----------------------HHHHHHHHHHHHCCCCCEEE
Q ss_conf 9983021-------------399----99999997202----------------------46777776673119996049
Q 000811 494 EEFKDIN-------------QEE----QISRLHRMLAP----------------------HLLRRVKKDVMKELPPKKEL 534 (1272)
Q Consensus 494 ~~f~~~~-------------~~~----~i~~L~~~L~p----------------------~~lRR~k~dv~~~LP~k~e~ 534 (1272)
..+.... ... ....++..+.. ++....+......+|.
T Consensus 215 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~---- 290 (556)
T 4a2p_A 215 RFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLED---- 290 (556)
T ss_dssp HHTCCCCEEEEECCCCSCCHHHHHHHHHHHHHHHHHHHHCC---------CCCSSHHHHHHHHHHHHHHHHC---C----
T ss_pred HCCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCCC----
T ss_conf 4279985379982787677599999999999999998886320121033334433567899999999877640543----
Q ss_pred EEEECCCHHHHHHHHHHHHHHHH------HH--HHCCCCHHHHHHHHHH-HHHHHCCCCCCCCCCCC----CCCCHHHHH
Q ss_conf 98505899999999999999999------99--9328960269999999-99981786534588999----546069999
Q 000811 535 ILRVELSSKQKEYYKAILTRNYQ------IL--TRRGGAQISLINVVME-LRKLCCHPYMLEGVEPD----IEDTNESFK 601 (1272)
Q Consensus 535 ~v~v~ls~~Q~~~Y~~il~~~~~------~l--~~~~~~~~~l~~~l~~-Lrk~c~hP~L~~~~e~~----~~~~~~~~~ 601 (1272)
...+...|..+...... .+ ....+. ......+.. +.....+.+. ..+.. .......+.
T Consensus 291 ------~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~ 361 (556)
T 4a2p_A 291 ------KEEESRICRALFICTEHLRKYNDALIISEDARI-IDALSYLTEFFTNVKNGPYT--ELEQHLTAKFQEKEPELI 361 (556)
T ss_dssp ------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSCH-HHHHHHHHHHHHHHHHSCCC--HHHHHHHHHHHTTHHHHH
T ss_pred ------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHCCCC--HHHHHHHHHHHHHHHHHH
T ss_conf ------201678999999999999999999988611207-89999999999998733798--789999998766788764
Q ss_pred HH----HHHHHHHHHHHHHHHHHH--HCCCEEEEEECCHHHHHHHHHHHHHC------------CCCEEEEECCCCHHHH
Q ss_conf 98----842127999999999999--70862899821222699999998727------------9808999577898999
Q 000811 602 QL----LESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTFK------------KWQYERIDGKVGGAER 663 (1272)
Q Consensus 602 ~l----i~~SgKl~~L~klL~~l~--~~g~kVLIFsq~~~~ldiL~~~L~~~------------g~~~~ridG~~~~~~R 663 (1272)
.. ...++|+..|.++|.... ..++|+|||++++.+++.|.++|... |..+..++|+++..+|
T Consensus 362 ~~~~~~~~~~~K~~~L~~~l~~~~~~~~~~k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~R 441 (556)
T 4a2p_A 362 ALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQ 441 (556)
T ss_dssp HHHHCSSSCCHHHHHHHHHHHHHHHHCTTCCEEEEESSHHHHHHHHHHHTTCSGGGSCCEEC------------------
T ss_pred HHCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCCCHHHH
T ss_conf 21037899996999999999998347998549999765899999999998587755000147873677655656698999
Q ss_pred HHHHHHHHC-CCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHH
Q ss_conf 999999712-6999428996245333454756788899966999941388999945220999935999995089899999
Q 000811 664 QIRIDRFNA-KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERM 742 (1272)
Q Consensus 664 q~~Id~Fn~-~~s~~~vfLlSTragg~GINL~~Ad~VIi~D~dWNP~~d~Qa~gRahRiGQ~k~V~VyrLit~~TvEE~I 742 (1272)
+.+++.|++ +.. .+|++|+++++|||++.+++||+||++|||..++|++|| |+.+++.+|.|++.++++++
T Consensus 442 ~~~~~~F~~~g~~---~vLvaT~~~~~GiDip~v~~VI~~d~p~s~~~~~Qr~GR----gR~~~g~~~~l~~~~~~~~~- 513 (556)
T 4a2p_A 442 KGVLDAFKTSKDN---RLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTEVVEN- 513 (556)
T ss_dssp ------------C---CEEEEEC-----------CEEEEETCCSCHHHHHHC------------CCEEEEESCHHHHHH-
T ss_pred HHHHHHHCCCCCE---EEEEECCCHHCCCCCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCCHHHH-
T ss_conf 9999984046965---899976704337775217889991899978899886387----87888418999827636777-
Q ss_pred HHHHHHHHHHHHHHHCCHHCCCCCHHHHHHH
Q ss_conf 9999999999999851000048999999999
Q 000811 743 MQMTKKKMVLEHLVVGRLKAQNINQEELDDI 773 (1272)
Q Consensus 743 ~~~~~~K~~L~~~v~g~~~~~~~~~~el~~l 773 (1272)
......|..+...++..+ +.++.+++...
T Consensus 514 ~~~~~~k~~~~~~~i~~i--~~~~~~~~~~~ 542 (556)
T 4a2p_A 514 EKCNRYKEEMMNKAVEKI--QKWDEETFAKK 542 (556)
T ss_dssp HHHHHHHHHHHHHHHHHH--HTSCHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH--HCCCHHHHHHH
T ss_conf 775579999999999972--06896789999
Done!