Query 000903
Match_columns 1232
No_of_seqs 628 out of 4091
Neff 7.6
Searched_HMMs 29240
Date Tue Mar 26 16:52:53 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000903.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_671-674//hhsearch_pdb/000903hhsearch_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 1010.9 39.0 704 99-836 37-788 (800)
2 1z3i_X Similar to RAD54-like; 1.0 1 1 675.2 37.1 476 284-779 54-573 (644)
3 1z63_A Helicase of the SNF2/RA 1.0 1 1 605.6 38.3 455 278-777 31-496 (500)
4 3dmq_A RNA polymerase-associat 1.0 1 1 459.8 26.6 420 284-754 152-633 (968)
5 1wp9_A ATP-dependent RNA helic 1.0 1 1 385.5 32.3 421 284-753 8-492 (494)
6 2fwr_A DNA repair protein RAD2 1.0 1 1 360.5 19.3 378 282-753 90-471 (472)
7 1z5z_A Helicase of the SNF2/RA 1.0 1 1 354.7 20.3 253 515-779 12-269 (271)
8 4a2w_A RIG-I, retinoic acid in 1.0 1 1 347.8 28.9 434 283-772 246-782 (936)
9 4a2q_A RIG-I, retinoic acid in 1.0 1 1 341.4 31.6 436 283-772 246-782 (797)
10 4a2p_A RIG-I, retinoic acid in 1.0 1 1 327.1 32.6 431 284-773 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=1010.93 Aligned_cols=704 Identities=41% Similarity=0.715 Sum_probs=585.6
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCH---HHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCHHHHHHHHHHHHHCC
Q ss_conf 7655443233346675699984224420---0233676642148875544555656698873119158877765533102
Q 000903 99 LNDIDKILDCEMRPTVAGDSDVSKLGSK---QIFVKQYLVKWKGLSYLHCTWVPEKEFLKAFKSNPRLRTKVNNFHRQMS 175 (1232)
Q Consensus 99 ~~~~ekIL~~r~~p~~~~~~~~~~~~~~---~~~~~eYlVKWkg~Sy~h~tW~pe~~L~~~~~~~~~~~~kl~~f~kk~~ 175 (1232)
...||+||+.|.++.....+.....-.+ .....||||||+|+||+||||+|+++|.+ .++.+ ++.+|.++..
T Consensus 37 ~~~ve~vl~~r~~~~~~~~~~~~~~~~~~~~~~~~~eylvKWkg~s~~hntWe~~e~L~~----~~~~~-~~~~~~k~~~ 111 (800)
T 3mwy_W 37 FHGIDIVINHRLKTSLEEGKVLEKTVPDLNNCKENYEFLIKWTDESHLHNTWETYESIGQ----VRGLK-RLDNYCKQFI 111 (800)
T ss_dssp CCBCSEEEEEECCCC--------CCSCCHHHHHHHCEEEEECSSSCTTSCEEECHHHHCS----CBTTH-HHHHHHHHHT
T ss_pred CCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCEEECCCCCHHHHHH----CCHHH-HHHHHHHHHH
T ss_conf 874021201654654567741013676767886762799996886111054138787743----41579-9999999863
Q ss_pred C--------CCCCCHH----------HHCCCCCCCCHHHHHHHCC-----CCCCCEEEEEEECCCCCCCCCCCCCCCC-C
Q ss_conf 5--------8998101----------1017987520122422116-----8875056776401233442112267867-6
Q 000903 176 S--------NNNAEED----------FVAIRPEWTTVDRILACRG-----EDDEKEYLVKYKELSYDECYWEYESDIS-A 231 (1232)
Q Consensus 176 ~--------~~~~~~~----------~~~~~~~~~~verIi~~r~-----~~~~~~yLVKWk~L~Y~~~TWE~~~~~~-~ 231 (1232)
. ...+.++ .....++|+.|||||+++. ..+..+|||||++|||++||||...++. .
T Consensus 112 ~~~~~~~~~~~~~~e~~e~~~~~~e~~~~~~~~~~~veRii~~~~~~~~~~~~~~~yLvKW~~L~y~~~tWe~~~~~~~~ 191 (800)
T 3mwy_W 112 IEDQQVRLDPYVTAEDIEIMDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEATWENATDIVKL 191 (800)
T ss_dssp HHHHHHTCSTTSCHHHHHHHHHHHHHHHHHHTTTTCEEEECCCCCEECTTSCEECBCCEEETTSCSTTCBCCBHHHHTTT
T ss_pred HHHHHHHCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEEEECCCCCCCCCCCEEEEEEECCCCCCCCCCCCHHHHHHH
T ss_conf 27788751899987888887566654200011135346898641134678988659999815787342643363443333
Q ss_pred CHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEC
Q ss_conf 47899999865202454557756899943222368983333434789878899992789999999997102798569992
Q 000903 232 FQPEIERFIKIQSRSHRSSCNKQKSSPQDVTESTKKPKEFQQYEHSPEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILAD 311 (1232)
Q Consensus 232 ~~~~i~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~P~~~~~~~L~pyQ~egv~wL~~~~~~~~~~ILaD 311 (1232)
.+..++.|..+......... ........+.|..+..+|.++.+++|+|||++|++||...|.++.++||||
T Consensus 192 ~~~~i~~~~~r~~~~~~~~~---------~~~~~~~~~~~~~~~~~p~~~~~~~Lr~yQ~egv~~l~~~~~~~~~~ILad 262 (800)
T 3mwy_W 192 APEQVKHFQNRENSKILPQY---------SSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKGDNGILAD 262 (800)
T ss_dssp CHHHHHHHHHTTTCTTCSTT---------CCCCCSCCCCCCCCSSCCTTCCSSCCCTHHHHHHHHHHHHHTTTCCEEECC
T ss_pred HHHHHHHHHHHHHCCCCCCC---------HHCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf 19999999976313447751---------010345577640025699865799758999999999999851389989982
Q ss_pred CCCCCHHHHHHHHHHHHHH--CCCCCEEEEECCCCHHHHHHHHHHHCCCCCEEEEECCHHHHHHHHHHHHCCCCCCHHHH
Q ss_conf 8998099999999999750--99997599958844899999999886999199997572678899986322789911110
Q 000903 312 EMGLGKTIQSIAFLASLFG--ERISPHLVVAPLSTLRNWEREFATWAPQMNVVMYVGTSQARNIIREYEFYFPKNPKKVK 389 (1232)
Q Consensus 312 emGlGKTiqaia~l~~l~~--~~~~p~LIV~P~sll~qW~~E~~~~~p~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~ 389 (1232)
+||+|||+|+++++.+++. ...+|+|||||.+++.||.+||.+|+|.+++++|+|....+..++.++++.......
T Consensus 263 emGlGKT~~ai~~i~~l~~~~~~~~~~LIV~P~sll~qW~~E~~~~~p~~~v~~~~g~~~~r~~~~~~~~~~~~~~~~-- 340 (800)
T 3mwy_W 263 EMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKG-- 340 (800)
T ss_dssp CTTSSTTHHHHHHHHHHHHHHSCCSCEEEECCTTTHHHHHHHHHHHSTTCCEEECCCSSHHHHHHHHHHSCSCC------
T ss_pred CCCCCHHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCC--
T ss_conf 787532999999999999860779988999880389999999999779964999827777788988877622630013--
Q ss_pred CCCCCCCCCCCCCCCCCCCEEEECHHHHHHCCCCCCCCCEEEEEECCCCCCCCCCCHHHHHHHHCCCCCEEEEECCCCCC
Q ss_conf 01367632223223355529990298896100113797403999727643458000999999821136589983478989
Q 000903 390 KKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQN 469 (1232)
Q Consensus 390 ~~~~~~~~~~~~~~~~~~~ViItSye~l~~~~~~l~~i~w~~iIiDEaHrlKn~~s~~~~~l~~l~~~~rllLTGTPlqn 469 (1232)
....+++|+||||+++..+...+..+.|++|||||||++||..+++++++..+.+.+||+|||||+||
T Consensus 341 ------------~~~~~~dvvitTy~~l~~~~~~l~~~~w~~vIvDEaH~lkn~~s~~~~~l~~l~~~~rl~LTgTPiqN 408 (800)
T 3mwy_W 341 ------------KKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQN 408 (800)
T ss_dssp -------------CCCCCSEEEECTTHHHHTHHHHHTSEEEEEEETTGGGGCCSSSHHHHHHTTSEEEEEEEECSCCCSS
T ss_pred ------------CCCCCCCEEEECHHHHHHHHHHHHCCCCCEEEHHHHHHHCCCHHHHHHHHHHHHHCCEEEEECCCCCC
T ss_conf ------------44566788990699998649998337732564134444147101999999975224389722785779
Q ss_pred CHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHH
Q ss_conf 98899999962247999995889999840202999999999622465555465673119995899984159999999999
Q 000903 470 NLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYK 549 (1232)
Q Consensus 470 ~~~EL~~lL~fL~p~~~~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~ 549 (1232)
++.|||++++||.|+.|.....|............+..|+.++.|+++||++.++...+|++.+.+++|+|++.|+.+|+
T Consensus 409 ~l~el~~ll~fL~p~~~~~~~~~~~~~~~~~~~~~~~~L~~~l~p~~lRR~k~dv~~~LP~k~~~~v~v~ls~~q~~~Y~ 488 (800)
T 3mwy_W 409 NIKELAALVNFLMPGRFTIDQEIDFENQDEEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYK 488 (800)
T ss_dssp CSHHHHHHHHHHCSCCC---------CCTTHHHHHHHHHHHTTGGGEEECCGGGGTTTSCCEEEEEEEECCCHHHHHHHH
T ss_pred CHHHHHHHHHHHCCCCCCCHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCCHHHHHHHH
T ss_conf 99999999998586636743442322231468999999999975777532087664316882799997079999999999
Q ss_pred HHHHHHHHHHHHC-CCCCHHHHHHHHHHHHHHCCCCCCCCCCC--------CCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999999923-89610599999999997088663468899--------96462488999873212899999999999
Q 000903 550 AILTRNYQILTRR-GGAQISLINVVMELRKLCCHPYMLEGVEP--------DIEDTNESFKQLLESSGKLQLLDKMMVKL 620 (1232)
Q Consensus 550 ~il~~~~~~l~~~-~~~~~~l~~il~~Lrk~c~hP~L~~~~~~--------~~~~~~~~~~~li~~S~Kl~~L~klL~~l 620 (1232)
.++.++...+... .+....++++++.||++|+||+++...+. ...........++..|+|+.+|.++|..+
T Consensus 489 ~i~~~~~~~l~~~~~~~~~~~l~~l~~Lrk~~~hp~l~~~~~~~~~~~~~~~~~~~~~~~~~l~~~s~K~~~L~~lL~~~ 568 (800)
T 3mwy_W 489 NILTKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRL 568 (800)
T ss_dssp HHHHHCCC----------CTHHHHHHHHHHHHHCGGGSSSHHHHHCCCC----CCSHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCHHHHCCHHHHHHHHCCCCCCCHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf 99999999986103545446999999999873586542355789988615665557788887664276999999999997
Q ss_pred HHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEE
Q ss_conf 98085299980404479999999852898289995778979999999997057998338996144433454667788899
Q 000903 621 KEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVI 700 (1232)
Q Consensus 621 ~~~g~KvLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~Id~Fn~~~s~~~v~LlsT~agg~GINL~~Ad~VI 700 (1232)
...|+|||||||++.++++|+++|...|+++.+++|+++..+|+.++++|+++++..++||+||++||+||||++|++||
T Consensus 569 ~~~g~kvLIFsq~~~~ld~L~~~L~~~g~~~~~i~G~~~~~eR~~~i~~F~~~~~~~~v~LlSt~agg~GlNL~~a~~VI 648 (800)
T 3mwy_W 569 KKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVV 648 (800)
T ss_dssp TTTTCCEEEEESCHHHHHHHHHHHHHHTCCCEEESTTSCHHHHHHHHHTTSSTTCSCCCEEEEHHHHTTTCCCTTCCEEE
T ss_pred HHCCCEEEEEECHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEE
T ss_conf 52798189996359999999999986799789996999999999999996089998259997454456787760163689
Q ss_pred EECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCCC--------CCCCCHHHHHH
Q ss_conf 9769999324879999553209989269999940894999999999999999999842100--------05899999999
Q 000903 701 IYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRLK--------AQNINQEELDD 772 (1232)
Q Consensus 701 ~~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEE~I~~~~~~K~~l~~~v~g~~~--------~~~~~~~el~~ 772 (1232)
+||++|||+.++||+||+||+||+++|.||+|++++|+||+|++++.+|+.|+++|++.+. ...++.+++.+
T Consensus 649 ~~D~~wnp~~~~Qa~gR~~RiGQ~k~V~Vyrlv~~~TiEe~i~~~~~~K~~l~~~vi~~~~~~~~~~~~~~~~~~~el~~ 728 (800)
T 3mwy_W 649 IFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLGVTDGNKYTKKNEPNAGELSA 728 (800)
T ss_dssp ESSCCSCSHHHHHHHTTTSCSSCCSCEEEEEEEETTSHHHHHHHHHHHHTTSCC----------------CCCCHHHHHH
T ss_pred EECCCCCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf 94687881168999999885589863799998619989999999999988899999703756653211234789999999
Q ss_pred HHHHCHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCC--CCHHHHHHHHHHHCEE
Q ss_conf 997131211035566788865567998899997447877774457897--3124466562541100
Q 000903 773 IIRYGSKELFADENDEGGKSRQIHYDDAAIDRLLDRDQVGDEEASLDD--EDEDGFLKAFKVANFE 836 (1232)
Q Consensus 773 ll~~ga~~lf~~~~~~~~~~~~~~~~~~~id~~l~r~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ 836 (1232)
||++|+..+|...+.. ..+.+.+||.||+|++...+..++.. ..+++|+++|++++|.
T Consensus 729 ll~~g~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 788 (800)
T 3mwy_W 729 ILKFGAGNMFTATDNQ------KKLEDLNLDDVLNHAEDHVTTPDLGESHLGGEEFLKQFEVTDYK 788 (800)
T ss_dssp HHSSCSSSSCCSHHHH------HHHHTCCHHHHHHHCEECCCSCCCCCCEESCHHHHHTTC-----
T ss_pred HHHCCHHHHHHCCCCC------CCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHCEEEECC
T ss_conf 9971657651145764------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=675.24 Aligned_cols=476 Identities=33% Similarity=0.552 Sum_probs=400.6
Q ss_pred CCCCHHHHHHHHHHHHHH-----CCCCCEEEECCCCCCHHHHHHHHHHHHHHCC------CCCEEEEECCCCHHHHHHHH
Q ss_conf 999278999999999710-----2798569992899809999999999975099------99759995884489999999
Q 000903 284 GSLHPYQLEGLNFLRFSW-----SKQTHVILADEMGLGKTIQSIAFLASLFGER------ISPHLVVAPLSTLRNWEREF 352 (1232)
Q Consensus 284 ~~L~pyQ~egv~wL~~~~-----~~~~~~ILaDemGlGKTiqaia~l~~l~~~~------~~p~LIV~P~sll~qW~~E~ 352 (1232)
..|+|||.+|++||...+ ..+.+|||||+||+|||+|+|+++..+.... .+++|||||.+++.||.+||
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-CCEEEEECCHH-HHH-HHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHCCCCCCCCCE
Q ss_conf 988699-91999975726-788-999863227899111100136763222322335552999029889610011379740
Q 000903 353 ATWAPQ-MNVVMYVGTSQ-ARN-IIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKW 429 (1232)
Q Consensus 353 ~~~~p~-~~vv~~~g~~~-~r~-~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ViItSye~l~~~~~~l~~i~w 429 (1232)
.+|+|. +.++.+++... .+. .+..+ .... .....++|+|+||+++..+...+....|
T Consensus 134 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~--~~~~------------------~~~~~~~vvi~ty~~l~~~~~~l~~~~~ 193 (644)
T 1z3i_X 134 GKWLGGRVQPVAIDGGSKDEIDSKLVNF--ISQQ------------------GMRIPTPILIISYETFRLHAEVLHKGKV 193 (644)
T ss_dssp HHHHGGGCCEEEECSSCHHHHHHHHHHH--HCCC------------------SSCCSCCEEEEEHHHHHHHTTTTTTSCC
T ss_pred HHHCCCCEEEEEEECCCHHHHHHHHHHH--HHHC------------------CCCCCCCEEEEEHHHHHHHHHHHHCCCC
T ss_conf 9975887259998089889999999999--8733------------------7777875799638998765787504886
Q ss_pred EEEEECCCCCCCCCCCHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHH---------
Q ss_conf 39997276434580009999998211365899834789899889999996224799999588999984020---------
Q 000903 430 QCMIVDEGHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDIN--------- 500 (1232)
Q Consensus 430 ~~iIiDEaHrlKn~~s~~~~~l~~l~~~~rllLTGTPlqn~~~EL~~lL~fL~p~~~~~~~~F~~~~~~~~--------- 500 (1232)
++||+||||++||..++.++++..+.+.+||+|||||+||++.|||++++|+.|+.+++...|...|....
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 ------HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHH-CCCCCHHHHHHH
Q ss_conf ------2999999999622465555465673119995899984159999999999999999999992-389610599999
Q 000903 501 ------QEEQISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTR-RGGAQISLINVV 573 (1232)
Q Consensus 501 ------~~~~~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~-~~~~~~~l~~il 573 (1232)
....+..|+.++.|+++||++.++...||++.+.+++|+|++.|+.+|+.++......... .+......+..+
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----CCCCCCCH-------HHHHHHHHHHHHHHHHHHHHHHHHH-CCCEEEEEECCHHHHHHHH
Q ss_conf 9999970886634688----99964624-------8899987321289999999999998-0852999804044799999
Q 000903 574 MELRKLCCHPYMLEGV----EPDIEDTN-------ESFKQLLESSGKLQLLDKMMVKLKE-QGHRVLIYSQFQHMLDLLE 641 (1232)
Q Consensus 574 ~~Lrk~c~hP~L~~~~----~~~~~~~~-------~~~~~li~~S~Kl~~L~klL~~l~~-~g~KvLIFsq~~~~ldiL~ 641 (1232)
+.||++|+||+++... ++...... .........|+|+.+|..++..+.. .++|+||||+++.++++|+
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 99852898289995778979999999997057998338996144433454667788899976999932487999955320
Q 000903 642 DYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRL 721 (1232)
Q Consensus 642 ~~L~~~g~~~~ridG~~~~~~R~~~Id~Fn~~~s~~~v~LlsT~agg~GINL~~Ad~VI~~D~dWNp~~~~Qa~gR~hRi 721 (1232)
.+|...|+.+.+++|+++..+|+.++++|+++....++||+||++||+||||+.|++||+||++|||..+.||+||+||+
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 CCCCCEEEEEEEECCCHHHHHHHHHHHHHHHHHHHHCCC--CCCCCCHHHHHHHHHHCHH
Q ss_conf 998926999994089499999999999999999984210--0058999999999971312
Q 000903 722 GQTNKVMIFRLITRGSIEERMMQMTKKKMVLEHLVVGRL--KAQNINQEELDDIIRYGSK 779 (1232)
Q Consensus 722 GQ~k~V~VyrLit~~TvEE~I~~~~~~K~~l~~~v~g~~--~~~~~~~~el~~ll~~ga~ 779 (1232)
||+++|.||+|++++|+||+|++++..|..+...|++.. ....++.++|.+||.++..
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=605.56 Aligned_cols=455 Identities=31% Similarity=0.584 Sum_probs=398.0
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHCC-CCCEEEEECCCCHHHHHHHHHHHC
Q ss_conf 9878899992789999999997102798569992899809999999999975099-997599958844899999999886
Q 000903 278 PEFLSGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWEREFATWA 356 (1232)
Q Consensus 278 P~~~~~~~L~pyQ~egv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIV~P~sll~qW~~E~~~~~ 356 (1232)
|..+. .+|+|||.+|++|+...+..+.++||||+||+|||+++++++..+...+ .+++|||||.+++.||.+||.+|+
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 CCCCEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHCCCCCCCCCEEEEEECC
Q ss_conf 99919999757267889998632278991111001367632223223355529990298896100113797403999727
Q 000903 357 PQMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDE 436 (1232)
Q Consensus 357 p~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ViItSye~l~~~~~~l~~i~w~~iIiDE 436 (1232)
|.+++.+++|.... .....++|+|+||+++..+.. +....|++||+||
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 CCCCCCCCCHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHH---HHHHHHHHHHHHHH
Q ss_conf 643458000999999821136589983478989988999999622479999958899998402---02999999999622
Q 000903 437 GHRLKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDI---NQEEQISRLHRMLA 513 (1232)
Q Consensus 437 aHrlKn~~s~~~~~l~~l~~~~rllLTGTPlqn~~~EL~~lL~fL~p~~~~~~~~F~~~~~~~---~~~~~~~~L~~~L~ 513 (1232)
||+++|..++.++++..+.+.++|+|||||++|++.|||++++|+.|+.+++...|...|... ........|+.++.
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--HHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 4655554656--73119995899984159999999999999999999992389--6105999999999970886634688
Q 000903 514 PHLLRRVKKD--VMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGG--AQISLINVVMELRKLCCHPYMLEGV 589 (1232)
Q Consensus 514 p~~lRR~k~d--v~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~--~~~~l~~il~~Lrk~c~hP~L~~~~ 589 (1232)
|+++||++.+ +...+|++.+..+.++|++.|+..|+.+.......+....+ ....++..++.|+++|+||.++...
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 9996462488999873212899999999999980852999804044799999998528-982899957789799999999
Q 000903 590 EPDIEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-KWQYERIDGKVGGAERQIRID 668 (1232)
Q Consensus 590 ~~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KvLIFsq~~~~ldiL~~~L~~~-g~~~~ridG~~~~~~R~~~Id 668 (1232)
+. ....++|+..+.+++..+...++|+||||++..+++.|.++|... |+.+.+++|+++..+|+.+++
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 97057998338996144433454667788899976999932487999955320998926999994089499999999999
Q 000903 669 RFNAKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKK 748 (1232)
Q Consensus 669 ~Fn~~~s~~~v~LlsT~agg~GINL~~Ad~VI~~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEE~I~~~~~~ 748 (1232)
+|++++... ++|+||+++|+||||+.|++||+||++|||..+.||+||+||+||+++|.||+|++++|+||+|++++..
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 HHHHHHHHHCCC--CCCCCCHHHHHHHHHHC
Q ss_conf 999999984210--00589999999999713
Q 000903 749 KMVLEHLVVGRL--KAQNINQEELDDIIRYG 777 (1232)
Q Consensus 749 K~~l~~~v~g~~--~~~~~~~~el~~ll~~g 777 (1232)
|..+...+++.. ....++.+++.+++.+.
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=459.76 Aligned_cols=420 Identities=20% Similarity=0.261 Sum_probs=324.4
Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHCC-CCCEEEEECCCCHHHHHHHHHHHCCCCCEE
Q ss_conf 9992789999999997102798569992899809999999999975099-997599958844899999999886999199
Q 000903 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER-ISPHLVVAPLSTLRNWEREFATWAPQMNVV 362 (1232)
Q Consensus 284 ~~L~pyQ~egv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~-~~p~LIV~P~sll~qW~~E~~~~~p~~~vv 362 (1232)
.+|+|||.+++.|+... .+.++||||+||+|||+++++++..+...+ .+++|||||.+++.||..||.+|+ ++++.
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 TSLIPHQLNIAHDVGRR--HAPRVLLADEVGLGKTIEAGMILHQQLLSGAAERVLIIVPETLQHQWLVEMLRRF-NLRFA 228 (968)
T ss_dssp SCCCHHHHHHHHHHHHS--SSCEEEECCCTTSCHHHHHHHHHHHHHHTSSCCCEEEECCTTTHHHHHHHHHHHS-CCCCE
T ss_pred CCCCHHHHHHHHHHHHH--CCCCEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHH-CCCEE
T ss_conf 99709999999999970--5898898789997599999999999998189982999957888999999999986-99879
Q ss_pred EEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHCC---CCCCCCCEEEEEECCCCC
Q ss_conf 99757267889998632278991111001367632223223355529990298896100---113797403999727643
Q 000903 363 MYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDS---ASLKPIKWQCMIVDEGHR 439 (1232)
Q Consensus 363 ~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ViItSye~l~~~~---~~l~~i~w~~iIiDEaHr 439 (1232)
+++|.......... ......++|+|+||+++..+. ..+....|++||+||||+
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 CCCCCCH---HHHHHHHC--CCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHH-----------
Q ss_conf 4580009---99999821--1365899834789899889999996224799999588999984020299-----------
Q 000903 440 LKNKDSK---LFSSLKQY--STRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEE----------- 503 (1232)
Q Consensus 440 lKn~~s~---~~~~l~~l--~~~~rllLTGTPlqn~~~EL~~lL~fL~p~~~~~~~~F~~~~~~~~~~~----------- 503 (1232)
++|..+. .++.+..+ .+.++|+|||||++|++.|+|++++|+.|..|.+...|...+.......
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-----HHHHHHHHHHHHHHCCCCCEEEEEECCCCHH
Q ss_conf -----------------------------------999999962-----2465555465673119995899984159999
Q 000903 504 -----------------------------------QISRLHRML-----APHLLRRVKKDVMKELPPKKELILRVELSSK 543 (1232)
Q Consensus 504 -----------------------------------~~~~L~~~L-----~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~ 543 (1232)
....+..++ ...++|+++..+ ..+|++....+.+++++.
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 HHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCC-CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 999999999999999992389610599999999997088663-4688999646248899987321289999999999998
Q 000903 544 QKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYM-LEGVEPDIEDTNESFKQLLESSGKLQLLDKMMVKLKE 622 (1232)
Q Consensus 544 Q~~~Y~~il~~~~~~l~~~~~~~~~l~~il~~Lrk~c~hP~L-~~~~~~~~~~~~~~~~~li~~S~Kl~~L~klL~~l~~ 622 (1232)
....|..... .......... ... +.+|.. +....... ...+..+.|+..|.+++.. .
T Consensus 444 ~~~~~~~~~~-----~~~~~~~~~~-------~~~-~l~pe~~~~~l~~~~-------~~~~~~~~K~~~L~~ll~~--~ 501 (968)
T 3dmq_A 444 YQTAIKVSGI-----MGARKSAEDR-------ARD-MLYPERIYQEFEGDN-------ATWWNFDPRVEWLMGYLTS--H 501 (968)
T ss_dssp HHHHHHHHHH-----TTCCSSGGGG-------THH-HHCSGGGTTTTTSSS-------CCTTTTSHHHHHHHHHHHH--T
T ss_pred HHHHHHHHHH-----HHHHHHHHHH-------HHH-HCCHHHHHHHHHHHH-------HCCCCCCHHHHHHHHHHHH--C
T ss_conf 9999998754-----3021266777-------764-108598998764333-------1356856799999999983--7
Q ss_pred CCCEEEEEECCHHHHHHHHHHHHH-CCCCEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCCCCCEEEE
Q ss_conf 085299980404479999999852-8982899957789799999999970579983389961444334546677888999
Q 000903 623 QGHRVLIYSQFQHMLDLLEDYLTF-KKWQYERIDGKVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTVII 701 (1232)
Q Consensus 623 ~g~KvLIFsq~~~~ldiL~~~L~~-~g~~~~ridG~~~~~~R~~~Id~Fn~~~s~~~v~LlsT~agg~GINL~~Ad~VI~ 701 (1232)
.+.|+||||++..+++.|...|.. .|+++..++|+++..+|+.+++.|+++.+ .+.+|++|+++++|||++.|++||+
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 76999932487999955320998926999994089499999999999999999
Q 000903 702 YDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLEH 754 (1232)
Q Consensus 702 ~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEE~I~~~~~~K~~l~~ 754 (1232)
||++|||..+.|++||++|+||++.|.||++++.+|+|++|++...+|..+..
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=385.46 Aligned_cols=421 Identities=14% Similarity=0.183 Sum_probs=296.1
Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEECC-CCHHHHHHHHHHHC--CCCC
Q ss_conf 99927899999999971027985699928998099999999999750999975999588-44899999999886--9991
Q 000903 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWA--PQMN 360 (1232)
Q Consensus 284 ~~L~pyQ~egv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIV~P~-sll~qW~~E~~~~~--p~~~ 360 (1232)
.+|+|||.+++.|+. .+ ++||+++||+|||+++++++..+.....+++|||||. +++.||.+++.+|+ |...
T Consensus 8 ~~l~~~Q~~~i~~~~----~~-~~ll~~~tG~GKT~~~~~~~~~~~~~~~~~~liv~P~~~L~~q~~~~~~~~~~~~~~~ 82 (494)
T 1wp9_A 8 IQPRIYQEVIYAKCK----ET-NCLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAPTKPLVLQHAESFRRLFNLPPEK 82 (494)
T ss_dssp HCCCHHHHHHHHHGG----GS-CEEEECCTTSCHHHHHHHHHHHHHHHSCSCEEEECSSHHHHHHHHHHHHHHBCSCGGG
T ss_pred CCCCHHHHHHHHHHH----HC-CEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHHHCCCHHH
T ss_conf 786399999999996----19-9899918998789999999999986479859999788899999999999874756111
Q ss_pred EEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHCCC--CCCCCCEEEEEECCCC
Q ss_conf 99997572678899986322789911110013676322232233555299902988961001--1379740399972764
Q 000903 361 VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SLKPIKWQCMIVDEGH 438 (1232)
Q Consensus 361 vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ViItSye~l~~~~~--~l~~i~w~~iIiDEaH 438 (1232)
+..++|.......... ...++|+|+||+.+..... .+....|++||+||||
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 CCCCCCCHHH--HHHHH-CCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCC---CHHHHHHHH-H-------HHHHHHH
Q ss_conf 3458000999--99982-1136589983478989988999999622479999---958899998-4-------0202999
Q 000903 439 RLKNKDSKLF--SSLKQ-YSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFG---SLEEFQEEF-K-------DINQEEQ 504 (1232)
Q Consensus 439 rlKn~~s~~~--~~l~~-l~~~~rllLTGTPlqn~~~EL~~lL~fL~p~~~~---~~~~F~~~~-~-------~~~~~~~ 504 (1232)
++++..+... ..+.. ....++++|||||. ++..+++.++.++.+.... ....+...+ . .......
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 HHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHC----------------------
Q ss_conf 9999996224655554656731199958999841599999999999999999999923----------------------
Q 000903 505 ISRLHRMLAPHLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRR---------------------- 562 (1232)
Q Consensus 505 ~~~L~~~L~p~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~---------------------- 562 (1232)
...+...+.+++.++.+......+..... ..++......... .....+...
T Consensus 215 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 287 (494)
T 1wp9_A 215 YKEVRKLLREMLRDALKPLAETGLLESSS----PDIPKKEVLRAGQ---IINEEMAKGNHDLRGLLLYHAMALKLHHAIE 287 (494)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTSSSCCC----TTSCHHHHHHHHH---HHHHHHTTTCCSTTTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCCCC----CCCCHHHHHHHHH---HHHHHHHCCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 99999989899999999999735565457----7733557899999---9998753356311347999988888999999
Q ss_pred ---CCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHH----------HHHHHHHHHHHHHHHHHHHH--HCCCEE
Q ss_conf ---896105999999999970886634688999646248899----------98732128999999999999--808529
Q 000903 563 ---GGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNESFK----------QLLESSGKLQLLDKMMVKLK--EQGHRV 627 (1232)
Q Consensus 563 ---~~~~~~l~~il~~Lrk~c~hP~L~~~~~~~~~~~~~~~~----------~li~~S~Kl~~L~klL~~l~--~~g~Kv 627 (1232)
......+...+..+...+.|+...... . ........ .....++|+..|.++|.... ..++|+
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 99804044799999998528982899957--------7897999999999705799833899614443345466778889
Q 000903 628 LIYSQFQHMLDLLEDYLTFKKWQYERIDG--------KVGGAERQIRIDRFNAKNSSRFCFLLSTRAGGLGINLATADTV 699 (1232)
Q Consensus 628 LIFsq~~~~ldiL~~~L~~~g~~~~ridG--------~~~~~~R~~~Id~Fn~~~s~~~v~LlsT~agg~GINL~~Ad~V 699 (1232)
||||++..+++.|.++|...|+.+.+++| +++..+|+.+++.|+++... +|++|+++++||||+.+++|
T Consensus 365 lVF~~~~~~~~~l~~~L~~~~~~~~~~~g~~~~~~~~~~~~~~r~~~~~~F~~~~~~---vLv~T~~~~~Gldl~~~~~V 441 (494)
T 1wp9_A 365 IVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFN---VLVATSVGEEGLDVPEVDLV 441 (494)
T ss_dssp EEECSCHHHHHHHHHHHHHTTCCEEEECCSSCC-------CCHHHHHHHHHHHTSCS---EEEECGGGGGGGGSTTCCEE
T ss_pred EEEECCHHHHHHHHHHHHHCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHCCCCE---EEEECCCCCCCCCCHHCCEE
T ss_conf 999766899999999999759980799656654444458999999999998669946---99988841258871437989
Q ss_pred EEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHHHHHHHHHHHHHH
Q ss_conf 997699993248799995532099892699999408949999999999999999
Q 000903 700 IIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMVLE 753 (1232)
Q Consensus 700 I~~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEE~I~~~~~~K~~l~ 753 (1232)
|+||++|||..+.|++||++|.|| +.+|+|++.+|+||+++.++.+|..+.
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=360.55 Aligned_cols=378 Identities=17% Similarity=0.223 Sum_probs=280.9
Q ss_pred CCCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEECC-CCHHHHHHHHHHHCCCCC
Q ss_conf 8999927899999999971027985699928998099999999999750999975999588-448999999998869991
Q 000903 282 SGGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGERISPHLVVAPL-STLRNWEREFATWAPQMN 360 (1232)
Q Consensus 282 ~~~~L~pyQ~egv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~~~p~LIV~P~-sll~qW~~E~~~~~p~~~ 360 (1232)
.+.+|+|||.++++++ ..+.++||+++||+|||++++.++..+ ..++|||||. +++.||.++|.+| +..
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 -EEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHCCCCCCCCCEEEEEECCCCC
Q ss_conf -9999757267889998632278991111001367632223223355529990298896100113797403999727643
Q 000903 361 -VVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSASLKPIKWQCMIVDEGHR 439 (1232)
Q Consensus 361 -vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ViItSye~l~~~~~~l~~i~w~~iIiDEaHr 439 (1232)
+.+++|... ...+|+|+||+.+......+. -.|++||+||||+
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 CCCCCCHHHHHHHHCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 45800099999982113658998347898998899999962247999995889999840202999999999622465555
Q 000903 440 LKNKDSKLFSSLKQYSTRHRVLLTGTPLQNNLDELFMLMHFLDAGKFGSLEEFQEEFKDINQEEQISRLHRMLAPHLLRR 519 (1232)
Q Consensus 440 lKn~~s~~~~~l~~l~~~~rllLTGTPlqn~~~EL~~lL~fL~p~~~~~~~~F~~~~~~~~~~~~~~~L~~~L~p~~lRR 519 (1232)
+.+.... ..+..+...++++|||||.+++..+ ..+...+.+.+.++
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-CCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHH
Q ss_conf 4656731-199958999841599999999999999999999923896105999999999970886634688999646248
Q 000903 520 VKKDVMK-ELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNE 598 (1232)
Q Consensus 520 ~k~dv~~-~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~~~~~l~~il~~Lrk~c~hP~L~~~~~~~~~~~~~ 598 (1232)
...++.. .+++.....+.+++++.+...|..+.......+............ +......................
T Consensus 250 ~~~~l~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~ 325 (472)
T 2fwr_A 250 FPDSLAGKHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAED----FNKIVMASGYDERAYEALRAWEE 325 (472)
T ss_dssp CHHHHTSCCCCSEEECCEEECCCHHHHHHTTTTTHHHHSCSSSCCCTTTCCSS----STTTTTTTCCSSSSSTTTHHHHH
T ss_pred CHHHHHCCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHH----HHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 78987067678818999985899899999999999999999864754224466----89999872369889999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEECCHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCE
Q ss_conf 89998732128999999999999808529998040447999999985289828999577897999999999705799833
Q 000903 599 SFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFKKWQYERIDGKVGGAERQIRIDRFNAKNSSRF 678 (1232)
Q Consensus 599 ~~~~li~~S~Kl~~L~klL~~l~~~g~KvLIFsq~~~~ldiL~~~L~~~g~~~~ridG~~~~~~R~~~Id~Fn~~~s~~~ 678 (1232)
........+.|+..|.+++.. ..++++||||++..+++.|.+.|. +..++|.++..+|+.+++.|+++...
T Consensus 326 ~~~~~~~~~~k~~~l~~~l~~--~~~~k~lvF~~~~~~~~~l~~~l~-----~~~~~g~~~~~~R~~~~~~F~~g~~~-- 396 (472)
T 2fwr_A 326 ARRIAFNSKNKIRKLREILER--HRKDKIIIFTRHNELVYRISKVFL-----IPAITHRTSREEREEILEGFRTGRFR-- 396 (472)
T ss_dssp HHHHHHSCSHHHHHHHHHHHH--TSSSCBCCBCSCHHHHHHHHHHTT-----CCBCCSSSCSHHHHTHHHHHHHSSCS--
T ss_pred HHHHHHCCHHHHHHHHHHHHH--CCCCCEEEEECCHHHHHHHHHHHC-----CCEEECCCCHHHHHHHHHHHHCCCCC--
T ss_conf 999763373899999999985--789838999797999999999748-----65562899999999999998679988--
Q ss_pred EEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCC-CCEEEEEEEECCCHHHHHHHHHHHHHHHH
Q ss_conf 8996144433454667788899976999932487999955320998-92699999408949999999999999999
Q 000903 679 CFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQT-NKVMIFRLITRGSIEERMMQMTKKKMVLE 753 (1232)
Q Consensus 679 v~LlsT~agg~GINL~~Ad~VI~~D~dWNp~~~~Qa~gR~hRiGQ~-k~V~VyrLit~~TvEE~I~~~~~~K~~l~ 753 (1232)
+|++|+++++|||++.+++||++|++|||..+.|+.||++|.||. +.|.||+|++++|+|+++.++.+.|..++
T Consensus 397 -vLv~T~~~~~Gldlp~~~~Vi~~~~~~s~~~~~Q~~GR~~R~g~~k~~~~i~~lv~~~t~ee~~~~~r~~~~~~a 471 (472)
T 2fwr_A 397 -AIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKKEAVLYELISRGTGEVNTARRRKNAAKGA 471 (472)
T ss_dssp -BCBCSSCCCSSSCSCCBSEEEEECCSSCCHHHHHHHHHSBCCCTTTCCEEEEEEEECSCC---------------
T ss_pred -EEEECCCHHCCCCCCCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCCEEEEEEEEECCCCHHHHHHHHHHHHCCC
T ss_conf -899857051484620286899989999888999987631577799853999999819985379999998765058
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=354.68 Aligned_cols=253 Identities=27% Similarity=0.440 Sum_probs=224.8
Q ss_pred HHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 65555465673119995899984159999999999999999999992389--6105999999999970886634688999
Q 000903 515 HLLRRVKKDVMKELPPKKELILRVELSSKQKEYYKAILTRNYQILTRRGG--AQISLINVVMELRKLCCHPYMLEGVEPD 592 (1232)
Q Consensus 515 ~~lRR~k~dv~~~LP~k~e~~v~v~ls~~Q~~~Y~~il~~~~~~l~~~~~--~~~~l~~il~~Lrk~c~hP~L~~~~~~~ 592 (1232)
--+||+|++|..+|||+.+.+++|+|++.|+++|+.++.+....+....+ ....+++.++.||++|+||+++....
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 6462488999873212899999999999980852999804044799999998528-982899957789799999999970
Q 000903 593 IEDTNESFKQLLESSGKLQLLDKMMVKLKEQGHRVLIYSQFQHMLDLLEDYLTFK-KWQYERIDGKVGGAERQIRIDRFN 671 (1232)
Q Consensus 593 ~~~~~~~~~~li~~S~Kl~~L~klL~~l~~~g~KvLIFsq~~~~ldiL~~~L~~~-g~~~~ridG~~~~~~R~~~Id~Fn 671 (1232)
.+...|+|+..|.++|..+.+.|+|+||||+++.++++|+.+|... |+++.+++|+++..+|+.+++.|+
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 57998338996144433454667788899976999932487999955320998926999994089499999999999999
Q 000903 672 AKNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEERMMQMTKKKMV 751 (1232)
Q Consensus 672 ~~~s~~~v~LlsT~agg~GINL~~Ad~VI~~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEE~I~~~~~~K~~ 751 (1232)
++.... +||+||++||+||||+.|++||+||+||||..+.||+||+||+||+++|.||+|++.+|+||+|++++..|..
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 HHHHHHCCCC--CCCCCHHHHHHHHHHCHH
Q ss_conf 9999842100--058999999999971312
Q 000903 752 LEHLVVGRLK--AQNINQEELDDIIRYGSK 779 (1232)
Q Consensus 752 l~~~v~g~~~--~~~~~~~el~~ll~~ga~ 779 (1232)
+...+++... ...++.++|.+|+.++..
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=347.81 Aligned_cols=434 Identities=14% Similarity=0.166 Sum_probs=263.0
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHCC----CCCEEEEECC-CCHHHHHHHHHHHCC
Q ss_conf 99992789999999997102798569992899809999999999975099----9975999588-448999999998869
Q 000903 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER----ISPHLVVAPL-STLRNWEREFATWAP 357 (1232)
Q Consensus 283 ~~~L~pyQ~egv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~----~~p~LIV~P~-sll~qW~~E~~~~~p 357 (1232)
..+|+|||.+++.++ ..+.++|++++||+|||++++..+....... .+++|||||. +++.||.++|.++++
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 --CCCEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHCCCC--C-CCCCEEEE
Q ss_conf --991999975726788999863227899111100136763222322335552999029889610011--3-79740399
Q 000903 358 --QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS--L-KPIKWQCM 432 (1232)
Q Consensus 358 --~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ViItSye~l~~~~~~--l-~~i~w~~i 432 (1232)
++.+..++|....+..... .....+|+|+||+.+...... + ....|++|
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 EECCCCCCCCCCCHHHHHHHHC-C--------CCCEEEEECCCCCCCHHHHHHHH-------HHHCCCC----CCCHHHH
Q ss_conf 9727643458000999999821-1--------36589983478989988999999-------6224799----9995889
Q 000903 433 IVDEGHRLKNKDSKLFSSLKQY-S--------TRHRVLLTGTPLQNNLDELFMLM-------HFLDAGK----FGSLEEF 492 (1232)
Q Consensus 433 IiDEaHrlKn~~s~~~~~l~~l-~--------~~~rllLTGTPlqn~~~EL~~lL-------~fL~p~~----~~~~~~F 492 (1232)
|+||||++.+..+ ....+..+ . ...+++|||||.+++..++...+ ..+.... ......+
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-------------HHH----HHHHHHHHHHHH----------------------HHHHHHHHHHHCCCCCEE
Q ss_conf 99984020-------------299----999999962246----------------------555546567311999589
Q 000903 493 QEEFKDIN-------------QEE----QISRLHRMLAPH----------------------LLRRVKKDVMKELPPKKE 533 (1232)
Q Consensus 493 ~~~~~~~~-------------~~~----~~~~L~~~L~p~----------------------~lRR~k~dv~~~LP~k~e 533 (1232)
...+.... ... ....++.++..+ +....+......+|.
T Consensus 455 ~~~~~~p~~~~~~~~~~~~~~~~~~l~~l~~~i~~~~~~~l~~~~l~~~~~~~~g~~~y~~~l~~l~k~~~~~~l~~--- 531 (936)
T 4a2w_A 455 QRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIAYVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLED--- 531 (936)
T ss_dssp HHHSCCCCEEEEECCCCSCCHHHHHHHHHHHHHHHHHHHC------------CCSSHHHHHHHHHHHHHHHHCCCSC---
T ss_pred HHHCCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCC---
T ss_conf 87536776237733655675799999999999999999887665553202233225779999999999887740553---
Q ss_pred EEEECCCCHHHHHHHHHHHHHH------HHHH--HHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHH----HH
Q ss_conf 9984159999999999999999------9999--9238961059999999999708866346889996462488----99
Q 000903 534 LILRVELSSKQKEYYKAILTRN------YQIL--TRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNES----FK 601 (1232)
Q Consensus 534 ~~v~v~ls~~Q~~~Y~~il~~~------~~~l--~~~~~~~~~l~~il~~Lrk~c~hP~L~~~~~~~~~~~~~~----~~ 601 (1232)
...+...+..+.... ...+ ....+ .......+...+....- .+..+........ ..
T Consensus 532 -------~~~~~~~~~~l~~~~~~l~~~~~al~i~~~~~----~~~~~~~l~~~~~~~~~-~~~~~~e~~l~~~~~~~~~ 599 (936)
T 4a2w_A 532 -------KEEESRICRALFICTEHLRKYNDALIISEDAR----IIDALSYLTEFFTNVKN-GPYTELEQHLTAKFQEKEP 599 (936)
T ss_dssp -------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC----HHHHHHHHHHHHHHHHH-TTCCHHHHHHHHHHHHHHH
T ss_pred -------CCHHHHHHHHHHHHHHHHHHHHHHHHHHCCHH----HHHHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHHH
T ss_conf -------21035799999999999999888875002042----88899999999998763-2588789999998999999
Q ss_pred HH-------HHHHHHHHHHHHHHHHHH--HCCCEEEEEECCHHHHHHHHHHHHHC------------CCCEEEEECCCCH
Q ss_conf 98-------732128999999999999--80852999804044799999998528------------9828999577897
Q 000903 602 QL-------LESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTFK------------KWQYERIDGKVGG 660 (1232)
Q Consensus 602 ~l-------i~~S~Kl~~L~klL~~l~--~~g~KvLIFsq~~~~ldiL~~~L~~~------------g~~~~ridG~~~~ 660 (1232)
.+ ...++|+..|.++|.... ..++|+||||+++.+++.|.++|... |..+..++|+++.
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 999999999705-7998338996144433454667788899976999932487999955320998926999994089499
Q 000903 661 AERQIRIDRFNA-KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIE 739 (1232)
Q Consensus 661 ~~R~~~Id~Fn~-~~s~~~v~LlsT~agg~GINL~~Ad~VI~~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvE 739 (1232)
.+|+.++++|++ +.. .+|++|+++++|||++.+++||+||++|||..++|++|| |+.+++.+|.|++.+|+|
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 HHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHH
Q ss_conf 999999999999999984210005899999999
Q 000903 740 ERMMQMTKKKMVLEHLVVGRLKAQNINQEELDD 772 (1232)
Q Consensus 740 E~I~~~~~~K~~l~~~v~g~~~~~~~~~~el~~ 772 (1232)
++.. ....|..+...++..+ +.++.+++..
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=341.36 Aligned_cols=436 Identities=14% Similarity=0.155 Sum_probs=265.2
Q ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHCC----CCCEEEEECC-CCHHHHHHHHHHHCC
Q ss_conf 99992789999999997102798569992899809999999999975099----9975999588-448999999998869
Q 000903 283 GGSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER----ISPHLVVAPL-STLRNWEREFATWAP 357 (1232)
Q Consensus 283 ~~~L~pyQ~egv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~----~~p~LIV~P~-sll~qW~~E~~~~~p 357 (1232)
..+|+|||.+++.++ ..+.++|++++||+|||++++..+....... .+++|||||. +++.||.++|.++++
T Consensus 246 ~~~l~~~Q~~~i~~~----l~~~~~ll~~~TGsGKTl~~~~~i~~~l~~~~~~~~~~~Lvl~Pt~~L~~Q~~~~~~~~~~ 321 (797)
T 4a2q_A 246 TKKARSYQIELAQPA----INGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFE 321 (797)
T ss_dssp --CCCHHHHHHHHHH----HTTCCEEEECCTTSCHHHHHHHHHHHHHHTCCSSCCCCEEEECSSHHHHHHHHHHHHHHHG
T ss_pred CCCCCHHHHHHHHHH----HHCCCEEEEECCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCHHHHHHHHHHHHHHCC
T ss_conf 899999999999999----8099989996999729999999999999846656799699996989999999999998614
Q ss_pred --CCCEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHCCC--CC-CCCCEEEE
Q ss_conf --99199997572678899986322789911110013676322232233555299902988961001--13-79740399
Q 000903 358 --QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSA--SL-KPIKWQCM 432 (1232)
Q Consensus 358 --~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ViItSye~l~~~~~--~l-~~i~w~~i 432 (1232)
++.+..++|........... ....+|+|+||+.+..... .+ ....|++|
T Consensus 322 ~~~~~v~~~~g~~~~~~~~~~~--------------------------~~~~~Ivv~Tp~~l~~~l~~~~~~~~~~~~~i 375 (797)
T 4a2q_A 322 RQGYSVQGISGENFSNVSVEKV--------------------------IEDSDIIVVTPQILVNSFEDGTLTSLSIFTLM 375 (797)
T ss_dssp GGTCCEEEECCC-----CHHHH--------------------------HHTCSEEEECHHHHHHHHHSSSCCCGGGCSEE
T ss_pred CCCCEEEEEECCCCHHHHHHHH--------------------------HCCCCEEEECHHHHHHHHHHCCCCCCCCCCEE
T ss_conf 3794699996996232469974--------------------------07999999766999999982654651337789
Q ss_pred EECCCCCCCCCCCHHHHHHHHC-C--------CCCEEEEECCCCCCCHHHHHH-------HHHHHCCC----CCCCHHHH
Q ss_conf 9727643458000999999821-1--------365899834789899889999-------99622479----99995889
Q 000903 433 IVDEGHRLKNKDSKLFSSLKQY-S--------TRHRVLLTGTPLQNNLDELFM-------LMHFLDAG----KFGSLEEF 492 (1232)
Q Consensus 433 IiDEaHrlKn~~s~~~~~l~~l-~--------~~~rllLTGTPlqn~~~EL~~-------lL~fL~p~----~~~~~~~F 492 (1232)
|+||||++.+..+ ....+..+ . ...+++|||||.+++..++.. +...+... .......+
T Consensus 376 ViDEaH~~~~~~~-~~~i~~~~~~~~~~~~~~~~~~l~lSATp~~~~~~~~~~~~~~i~~l~~~L~~~~i~~~~~~~~~l 454 (797)
T 4a2q_A 376 IFDECHNTTGNHP-YNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQEL 454 (797)
T ss_dssp EETTGGGCSTTSH-HHHHHHHHHHHHHTTCCCCCEEEEEESCCCCTTCCSHHHHHHHHHHHHHHHTCSEEECCCTTHHHH
T ss_pred EEECCCCCCCCCC-HHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEECCCCCHHHH
T ss_conf 9988635588764-999999999976314788785999727755455224899999999999854984885454317889
Q ss_pred HHHHHHHH-----------------HHHHHHHHHHHHHHHH----------------------HHHHHHHHHHCCCCCEE
Q ss_conf 99984020-----------------2999999999622465----------------------55546567311999589
Q 000903 493 QEEFKDIN-----------------QEEQISRLHRMLAPHL----------------------LRRVKKDVMKELPPKKE 533 (1232)
Q Consensus 493 ~~~~~~~~-----------------~~~~~~~L~~~L~p~~----------------------lRR~k~dv~~~LP~k~e 533 (1232)
...+.... .......++.++..++ ....+......++
T Consensus 455 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~l~~l~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~---- 530 (797)
T 4a2q_A 455 QRFMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLE---- 530 (797)
T ss_dssp HHHSCCCCCEEEECCCCSCCHHHHHHHHHHHHHHHHHHHC------------CCSSHHHHHHHHHHHHHHHHCCCS----
T ss_pred HHHCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHCCC----
T ss_conf 9735888548884577778678999999999999999998756776530000114056778999999987774034----
Q ss_pred EEEECCCCHHHHHHHHHHHHHHH------HHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCC-----------CCCCC
Q ss_conf 99841599999999999999999------99992389610599999999997088663468899-----------96462
Q 000903 534 LILRVELSSKQKEYYKAILTRNY------QILTRRGGAQISLINVVMELRKLCCHPYMLEGVEP-----------DIEDT 596 (1232)
Q Consensus 534 ~~v~v~ls~~Q~~~Y~~il~~~~------~~l~~~~~~~~~l~~il~~Lrk~c~hP~L~~~~~~-----------~~~~~ 596 (1232)
....+...+..+..... ..+... ...........++..+.+..-. ...+ .....
T Consensus 531 ------~~~~~~~~~~~l~~~~~~l~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~l 601 (797)
T 4a2q_A 531 ------DKEEESRICRALFICTEHLRKYNDALIIS--EDARIIDALSYLTEFFTNVKNG-PYTELEQHLTAKFQEKEPEL 601 (797)
T ss_dssp ------SHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHSCHHHHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHTTHHHH
T ss_pred ------CCCHHHHHHHHHHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHHHHHHHH
T ss_conf ------32025679999999999999999887654--1325888999999999987504-76689999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH--HCCCEEEEEECCHHHHHHHHHHHHH------------CCCCEEEEECCCCHHH
Q ss_conf 4889998732128999999999999--8085299980404479999999852------------8982899957789799
Q 000903 597 NESFKQLLESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTF------------KKWQYERIDGKVGGAE 662 (1232)
Q Consensus 597 ~~~~~~li~~S~Kl~~L~klL~~l~--~~g~KvLIFsq~~~~ldiL~~~L~~------------~g~~~~ridG~~~~~~ 662 (1232)
..........++|+..|.++|.... ..++|+||||+++.+++.|.++|.. .|..+..++|+++..+
T Consensus 602 ~~~~~~~~~~~~K~~~L~~lL~~~~~~~~~~kvLIF~~~~~~~~~L~~~L~~~~~~~~~~~~~l~G~~~~~~hg~~~~~e 681 (797)
T 4a2q_A 602 IALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPS 681 (797)
T ss_dssp HHHHHCTTCCCHHHHHHHHHHHHHHHHCSSCCEEEEESSHHHHHHHHHHHHTCSTTCSCCCEEC----------------
T ss_pred HHHHCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCCCCCCCCHHH
T ss_conf 87630788899599999999999850589970899979589999999999747564665521898447754578989999
Q ss_pred HHHHHHHHHC-CCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCCHHHH
Q ss_conf 9999999705-799833899614443345466778889997699993248799995532099892699999408949999
Q 000903 663 RQIRIDRFNA-KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGSIEER 741 (1232)
Q Consensus 663 R~~~Id~Fn~-~~s~~~v~LlsT~agg~GINL~~Ad~VI~~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLit~~TvEE~ 741 (1232)
|+.+++.|++ +.. .+|++|+++++|||++.+++||+||++|||..++|++|| |+.+++.+|.|++.++++++
T Consensus 682 R~~~l~~F~~~g~~---~vLVaT~~~~~GIDlp~v~~VI~yd~p~s~~~~iQr~GR----GR~~~g~~i~l~~~~~~ee~ 754 (797)
T 4a2q_A 682 QKGVLDAFKTSKDN---RLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTEVVEN 754 (797)
T ss_dssp ------------CC---SEEEEECC-------CCCSEEEEESCCSCHHHHHTC-----------CCCEEEEECCHHHHHH
T ss_pred HHHHHHHHHCCCCC---EEEEECCCHHCCCCCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCCHHHH
T ss_conf 99999985136970---499974805447975108989994899988999985388----87878659999728768899
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCHHHHHH
Q ss_conf 9999999999999984210005899999999
Q 000903 742 MMQMTKKKMVLEHLVVGRLKAQNINQEELDD 772 (1232)
Q Consensus 742 I~~~~~~K~~l~~~v~g~~~~~~~~~~el~~ 772 (1232)
......|..+...++..+ +.++.+++..
T Consensus 755 -~~~~~~ke~~~~~~i~~l--~~~~~~~~~~ 782 (797)
T 4a2q_A 755 -EKCNRYKEEMMNKAVEKI--QKWDEETFAK 782 (797)
T ss_dssp -HHHHHHHHHHHHHHHHHH--HTSCHHHHHH
T ss_pred -HHHHHHHHHHHHHHHHHH--HCCCHHHHHH
T ss_conf -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=327.13 Aligned_cols=431 Identities=14% Similarity=0.175 Sum_probs=264.0
Q ss_pred CCCCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHHCC----CCCEEEEECC-CCHHHHHHHHHHHCC-
Q ss_conf 9992789999999997102798569992899809999999999975099----9975999588-448999999998869-
Q 000903 284 GSLHPYQLEGLNFLRFSWSKQTHVILADEMGLGKTIQSIAFLASLFGER----ISPHLVVAPL-STLRNWEREFATWAP- 357 (1232)
Q Consensus 284 ~~L~pyQ~egv~wL~~~~~~~~~~ILaDemGlGKTiqaia~l~~l~~~~----~~p~LIV~P~-sll~qW~~E~~~~~p- 357 (1232)
.+|+|||.+++.++ ..+.++|++++||+|||++++..+....... .+++|||||. +++.||.+++.++++
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 -CCCEEEEECCHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCEEEECHHHHHHCCCC--C-CCCCEEEEE
Q ss_conf -991999975726788999863227899111100136763222322335552999029889610011--3-797403999
Q 000903 358 -QMNVVMYVGTSQARNIIREYEFYFPKNPKKVKKKKSGQVVSESKQDRIKFDVLLTSYEMINLDSAS--L-KPIKWQCMI 433 (1232)
Q Consensus 358 -~~~vv~~~g~~~~r~~i~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ViItSye~l~~~~~~--l-~~i~w~~iI 433 (1232)
++++..++|........... ....+|+|+|++.+...... + ..-.|++||
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 ECCCCCCCCCCCHHHHHHHHC--------CCCCEEEEECCCCCCCHHH-------HHHHHHHHCCCCC----CCHHHHHH
Q ss_conf 727643458000999999821--------1365899834789899889-------9999962247999----99588999
Q 000903 434 VDEGHRLKNKDSKLFSSLKQY--------STRHRVLLTGTPLQNNLDE-------LFMLMHFLDAGKF----GSLEEFQE 494 (1232)
Q Consensus 434 iDEaHrlKn~~s~~~~~l~~l--------~~~~rllLTGTPlqn~~~E-------L~~lL~fL~p~~~----~~~~~F~~ 494 (1232)
+||||++.+..+........+ ....+++|||||.+++..+ +..+...+....+ .....+..
T Consensus 136 iDEah~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~lSAT~~~~~~~~~~~~~~~i~~l~~~l~~~~~~~~~~~~~~~~~ 215 (556)
T 4a2p_A 136 FDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAISTVRENIQELQR 215 (556)
T ss_dssp EETGGGCSTTSHHHHHHHHHHHHHHCC---CCEEEEEESCCCCTTCSSHHHHHHHHHHHHHHHTCSEEECCCTTHHHHHH
T ss_pred EECCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCEEECCHHCCHHHHHH
T ss_conf 98875358864599999999985301368887699994785667516699999999999985398484333202677874
Q ss_pred HHHHHH-------------HHHHH----HHHHHHHHH----------------------HHHHHHHHHHHHCCCCCEEEE
Q ss_conf 984020-------------29999----999996224----------------------655554656731199958999
Q 000903 495 EFKDIN-------------QEEQI----SRLHRMLAP----------------------HLLRRVKKDVMKELPPKKELI 535 (1232)
Q Consensus 495 ~~~~~~-------------~~~~~----~~L~~~L~p----------------------~~lRR~k~dv~~~LP~k~e~~ 535 (1232)
.+.... ..... ..++..+.. ++....+......+|
T Consensus 216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~------ 289 (556)
T 4a2p_A 216 FMNKPEIDVRLVKRRIHNPFAAIISNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLE------ 289 (556)
T ss_dssp HTCCCCEEEEECCCCSCCHHHHHHHHHHHHHHHHHHHHCC---------CCCSSHHHHHHHHHHHHHHHHC---------
T ss_pred CCCCCCEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHCCC------
T ss_conf 27998537998278767759999999999999999888632012103333443356789999999987764054------
Q ss_pred EECCCCHHHHHHHHHHHHHHHHH------H--HHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHH-------
Q ss_conf 84159999999999999999999------9--92389610599999999997088663468899964624889-------
Q 000903 536 LRVELSSKQKEYYKAILTRNYQI------L--TRRGGAQISLINVVMELRKLCCHPYMLEGVEPDIEDTNESF------- 600 (1232)
Q Consensus 536 v~v~ls~~Q~~~Y~~il~~~~~~------l--~~~~~~~~~l~~il~~Lrk~c~hP~L~~~~~~~~~~~~~~~------- 600 (1232)
....+...|..+....... + ....+ .......++..+.... . .........+
T Consensus 290 ----~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~--~---~~~~~~~~~~~~~~~~~ 356 (556)
T 4a2p_A 290 ----DKEEESRICRALFICTEHLRKYNDALIISEDAR----IIDALSYLTEFFTNVK--N---GPYTELEQHLTAKFQEK 356 (556)
T ss_dssp ----CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHSC----HHHHHHHHHHHHHHHH--H---SCCCHHHHHHHHHHHTT
T ss_pred ----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHH--H---CCCCHHHHHHHHHHHHH
T ss_conf ----320167899999999999999999998861120----7899999999999987--3---37987899999987667
Q ss_pred ----H----HHHHHHHHHHHHHHHHHHHH--HCCCEEEEEECCHHHHHHHHHHHHHC------------CCCEEEEECCC
Q ss_conf ----9----98732128999999999999--80852999804044799999998528------------98289995778
Q 000903 601 ----K----QLLESSGKLQLLDKMMVKLK--EQGHRVLIYSQFQHMLDLLEDYLTFK------------KWQYERIDGKV 658 (1232)
Q Consensus 601 ----~----~li~~S~Kl~~L~klL~~l~--~~g~KvLIFsq~~~~ldiL~~~L~~~------------g~~~~ridG~~ 658 (1232)
. .....++|+..|.++|.... ..++|+||||+++.+++.|.++|... |..+..++|++
T Consensus 357 ~~~l~~~~~~~~~~~~K~~~L~~~l~~~~~~~~~~k~lVF~~~~~~~~~l~~~L~~~~~~~~~~~~~~~g~~~~~~~~~~ 436 (556)
T 4a2p_A 357 EPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGM 436 (556)
T ss_dssp HHHHHHHHHCSSSCCHHHHHHHHHHHHHHHHCTTCCEEEEESSHHHHHHHHHHHTTCSGGGSCCEEC-------------
T ss_pred HHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCCCEEEEEECCHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCCCCCC
T ss_conf 88764210378999969999999999983479985499997658999999999985877550001478736776556566
Q ss_pred CHHHHHHHHHHHHC-CCCCCEEEEEECCCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEECCC
Q ss_conf 97999999999705-79983389961444334546677888999769999324879999553209989269999940894
Q 000903 659 GGAERQIRIDRFNA-KNSSRFCFLLSTRAGGLGINLATADTVIIYDSDWNPHADLQAMARAHRLGQTNKVMIFRLITRGS 737 (1232)
Q Consensus 659 ~~~~R~~~Id~Fn~-~~s~~~v~LlsT~agg~GINL~~Ad~VI~~D~dWNp~~~~Qa~gR~hRiGQ~k~V~VyrLit~~T 737 (1232)
+..+|+.+++.|++ +.. .+|++|+++++|||++.+++||+||+||||..++|++|| |+.+++.+|.|++.++
T Consensus 437 ~~~~R~~~~~~F~~~g~~---~vLvaT~~~~~GiDip~v~~VI~~d~p~s~~~~~Qr~GR----gR~~~g~~~~l~~~~~ 509 (556)
T 4a2p_A 437 TLPSQKGVLDAFKTSKDN---RLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSKTE 509 (556)
T ss_dssp -----------------C---CEEEEEC-----------CEEEEETCCSCHHHHHHC------------CCEEEEESCHH
T ss_pred CHHHHHHHHHHHCCCCCE---EEEEECCCHHCCCCCHHCCEEEEECCCCCHHHHHHHCCC----CCCCCCEEEEEEECCC
T ss_conf 989999999984046965---899976704337775217889991899978899886387----8788841899982763
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHH
Q ss_conf 999999999999999999842100058999999999
Q 000903 738 IEERMMQMTKKKMVLEHLVVGRLKAQNINQEELDDI 773 (1232)
Q Consensus 738 vEE~I~~~~~~K~~l~~~v~g~~~~~~~~~~el~~l 773 (1232)
++++ ......|..+...++..+ +.++.+++...
T Consensus 510 ~~~~-~~~~~~k~~~~~~~i~~i--~~~~~~~~~~~ 542 (556)
T 4a2p_A 510 VVEN-EKCNRYKEEMMNKAVEKI--QKWDEETFAKK 542 (556)
T ss_dssp HHHH-HHHHHHHHHHHHHHHHHH--HTSCHHHHHHH
T ss_pred HHHH-HHHHHHHHHHHHHHHHHH--HCCCHHHHHHH
T ss_conf 6777-775579999999999972--06896789999
Done!