Query         003503
Match_columns 815
No_of_seqs    542 out of 5193
Neff          8.3 
Searched_HMMs 29240
Date          Tue Mar 26 17:47:29 2013
Command       hhsearch -i /local_scratch/syshi/lefta3m/003503.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1553-1557//hhsearch_pdb/003503hhsearch_pdb 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3cf2_A TER ATPase, transitiona   1.0       1       1 1125.4  47.9  799   16-815     4-806 (806)
  2 1ypw_A Transitional endoplasmi   1.0       1       1  910.8  37.0  796   19-815     7-806 (806)
  3 3hu3_A Transitional endoplasmi   1.0       1       1  525.0  43.8  482   14-495     2-484 (489)
  4 4b4t_J 26S protease regulatory   1.0       1       1  450.4  21.7  275  470-769   130-404 (405)
  5 4b4t_I 26S protease regulatory   1.0       1       1  435.4  19.4  262  477-763   171-432 (437)
  6 4b4t_L 26S protease subunit RP   1.0       1       1  433.0  24.1  273  471-768   164-436 (437)
  7 4b4t_H 26S protease regulatory   1.0       1       1  428.6  22.2  266  479-769   200-466 (467)
  8 4b4t_M 26S protease regulatory   1.0       1       1  427.9  24.9  264  472-760   165-428 (434)
  9 4b4t_K 26S protease regulatory   1.0       1       1  425.0  20.8  264  478-766   162-427 (428)
 10 3cf2_A TER ATPase, transitiona   1.0       1       1  392.9  20.9  294  481-787   197-501 (806)

No 1  
>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*
Probab=1.00  E-value=1  Score=1125.43  Aligned_cols=799  Identities=77%  Similarity=1.241  Sum_probs=728.3

Q ss_pred             CCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCEEEECHHHHHHCCCCCCCEEEEECCCCCEEEEEEEECCCCCCCEEE
Q ss_conf             99988875433653027898648970345799619996998797629999998999527875089999806877789399
Q 003503           16 DPKSSKKDYSTAILDRKKSPNRLVVDEAINDDNSVITMHPNTMEKLQFFRGDTVLVKGKKRKDTVCVVLSDELCEASKVR   95 (815)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~v~l~~~~~~~l~i~~g~~v~i~~~~~~~~~~~~~~~~~~~~~~i~   95 (815)
                      .-..++.+++|+|++.++.|++|+|+++.++++++|+|+|++|.+|||..||+|.|+|++++.+++|++++.+++.+.|+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~d~~~~~~~~~~~~~l~~~~gd~v~i~g~~~~~~~~~~~~~~~~~~~~i~   83 (806)
T 3cf2_A            4 GADSKGDDLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLLKGKKRREAVCIVLSDDTCSDEKIR   83 (806)
T ss_dssp             -----------------CCTTEEECBCCSSCCTTEEEECHHHHHHTTCCSSCEEEEECGGGCBCCEEEEECTTSBTTBCE
T ss_pred             CCCCCCCCCHHHHHHCCCCCCEEEECCCCCCCCCEEEECHHHHHHCCCCCCCEEEEECCCCCEEEEEECCCCCCCCCEEE
T ss_conf             76778887016666336898448973677887898997899998769999998999807975599998488888899799


Q ss_pred             ECHHHHHHCCCCCCCEEEEEECCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCEEEEE
Q ss_conf             61876631232469823797369988773798535677566755346999955754204865336969999327514999
Q 003503           96 VNKVVRSNLRVRLGDVVSVHPCPDVKYGRRVHILPIDDTIEGVTGNLFDAYLKPYFMESYRPVRKGDLFLVRGGMRSVEF  175 (815)
Q Consensus        96 ~~~~~~~~~~~~~g~~v~i~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~g~~~~~~~~~~~~~f  175 (815)
                      |++.+|.|+++.+||.|+|++++.++.+++|++.|...+.....+..+..+++.||....+||..|+.|.+...+..+.|
T Consensus        84 ~~~~~r~n~~v~~gd~V~v~~~~~~~~a~~v~l~p~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~gd~~~v~~~~~~~~f  163 (806)
T 3cf2_A           84 MNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEF  163 (806)
T ss_dssp             ECHHHHHTTTCCTTCEEEEEECCCCCBCSBEEEEEBTTTSTTCCSCHHHHTHHHHHTTTCCEEETTCEEEECCTTSCEEE
T ss_pred             ECHHHHHHCCCCCCCEEEEEECCCCCCCCEEEEECCCCCHHCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCEEEE
T ss_conf             68999976699997989999899988677899934640021033457999999998756872467998999438857989


Q ss_pred             EEEEECCCCEEEECCCCEEEECCCCCCCCC-CCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCEEEE
Q ss_conf             999955995066589952984588875201-0124777744555829999999999875357935676519999923999
Q 003503          176 KVIETDPGEYCVVAPDTEIFCEGEPVKRED-EERLNEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILL  254 (815)
Q Consensus       176 ~v~~~~p~~~~~v~~~t~i~~~~~~~~~~~-~~~~~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~l~i~~~~~iLL  254 (815)
                      +|++++|.++++|+++|.|.+.+.+..... ....+.++|+||+|++++++.|++++.+|+++|++|..+++.+|+||||
T Consensus       164 ~V~~~~P~~~~~v~~~T~i~~~~~~~~~~~~~~~~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL  243 (806)
T 3cf2_A          164 KVVETDPSPYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILL  243 (806)
T ss_dssp             EEEEESSSSEEECCTTSBCCBCSCCBCCCTTSCCSSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEE
T ss_pred             EEEEEECCCCEEECCCCEEEEECCCCCCCCCCCCCCCCCHHHHCCHHHHHHHHHHHHHHHCCCHHHHHHCCCCCCCEEEE
T ss_conf             99998579876988983799926666766533458999903514999999999999998751989886358999975897


Q ss_pred             ECCCCCCHHHHHHHHHHHHCCEEEEEECHHHHHHHHCHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCHHHHHHH
Q ss_conf             87899968999999999929918999232554321010089999999999954990899621000037777761478999
Q 003503          255 YGPPGSGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDELDSIAPKREKTHGEVERR  334 (815)
Q Consensus       255 ~GppGtGKTtLar~ia~~l~~~~i~i~~~~l~~~~~g~~~~~i~~vf~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~  334 (815)
                      |||||||||+||+++|++++.+++.++|+++.+++.|+++..++.+|+.|..+.||||||||+|.++++++...++..++
T Consensus       244 ~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~sk~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~~~~~~r  323 (806)
T 3cf2_A          244 YGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERR  323 (806)
T ss_dssp             ECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHSSCTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCCCTTHHH
T ss_pred             ECCCCCCHHHHHHHHHHHHCCEEEEEEHHHHHCCCCHHHHHHHHHHHHHHHHCCCEEEEEEHHCCCCCCCCCCCCHHHHH
T ss_conf             79899988999999999719839999737954333167899999999999972992999851002334457788739999


Q ss_pred             HHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHC
Q ss_conf             99999985322247881999994299999888866038752599807999889999999986279643220146787630
Q 003503          335 IVSQLLTLMDGLKSRAHVIVMGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLEILRIHTKNMKLAEDVDLERVAKDT  414 (815)
Q Consensus       335 v~~~Ll~~ld~~~~~~~vivi~atn~~~~ld~al~r~~rf~~~i~i~~P~~~~R~~Il~~~~~~~~l~~~~~l~~la~~t  414 (815)
                      ++++|+.+|+++..+.+|+||++||+++.+|++++|+|||+++|+++.|+..+|.+||+.+++++++..++++..++..|
T Consensus       324 iv~~LL~~mdg~~~~~~V~VIaaTN~~d~LD~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T  403 (806)
T 3cf2_A          324 IVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANET  403 (806)
T ss_dssp             HHHHHHTHHHHCCGGGCEEEEEECSSTTTSCTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHHC
T ss_pred             HHHHHHHHHHCCCCCCCEEEEEECCCHHHCCHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHC
T ss_conf             99999999746666698799996698032698885786361688668979899999999985689988643899999756


Q ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             79957899999999999968851112244321013544101122200000122556787542100025886411124540
Q 003503          415 HGYVGSDLAALCTEAALQCIREKMDVIDLEDETIDAEVLNSMAVTNEHFQTALGTSNPSALRETVVEVPNVSWEDIGGLD  494 (815)
Q Consensus       415 ~g~~~~dl~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~ps~~~e~~~~~~~~~~~~i~g~~  494 (815)
                      +||+++||..+|++|++.++++....+.........+......++.+||..++....|+.+++...+.|++.|++|+|++
T Consensus       404 ~GfsgaDL~~Lv~eA~~~A~~r~~~~i~~~~~~~~~e~~~~~~v~~~Df~~Al~~~~ps~~r~~~~~~p~v~w~diggl~  483 (806)
T 3cf2_A          404 HGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLE  483 (806)
T ss_dssp             CSCCHHHHHHHHHHHHHHHHHHHHHHGGGTCCCCSHHHHHHCEECTTHHHHHHSSSSCCCCCCCCCBCCCCCSTTCCSCH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHCCCEEEHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHCCHH
T ss_conf             89989999999999999999841451200013320455225565199999999728783112344457887888817889


Q ss_pred             HHHHHHHCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCHHHHCCCCCHHHHHHHH
Q ss_conf             11211000024777792566520688985137767999873699999999807908998251000110176378899999
Q 003503          495 NVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIF  574 (815)
Q Consensus       495 ~~k~~L~~~i~~~~~~~~~~~~~~~~~~~giLL~GppGtGKT~la~aia~~~~~~~i~v~~~~l~~~~~g~se~~i~~vf  574 (815)
                      ++|+.|.+.+.||+++++.|.+++..+++|+|||||||||||++|+++|++++.+|+.+++++++++|+|+++++++.+|
T Consensus       484 ~~k~~l~e~v~~p~~~p~~f~~~g~~~~~gvLl~GPPGtGKT~lAkaiA~e~~~~f~~v~~~~l~s~~vGese~~vr~lF  563 (806)
T 3cf2_A          484 DVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIF  563 (806)
T ss_dssp             HHHHHHTTTTTTTTTCSGGGSSSCCCCCSCCEEESSTTSSHHHHHHHHHHTTTCEEEECCHHHHHTTTCSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCEEEECCCHHHCCCCCHHHHHHHHHH
T ss_conf             99999999997566689999714888886079866877896399999999838966874241121033436899999999


Q ss_pred             HHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCEE
Q ss_conf             99860899399993510233105998899984189999999760004788984899994389999994445989775213
Q 003503          575 DKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRPDIIDPALLRPGRLDQLI  654 (815)
Q Consensus       575 ~~a~~~~p~ilfiDEid~l~~~r~~~~~~~~~~~~~v~~~lL~~ld~~~~~~~v~vI~aTn~~~~ld~allr~gRf~~~i  654 (815)
                      +.|+...||||||||||++++.|+...++.++..+|++++||++|||+....+|+||||||+|+.||+|++||||||++|
T Consensus       564 ~~Ar~~~P~IifiDEiDsl~~~R~~~~~~~~~~~~rv~~~lL~~mdg~~~~~~V~vi~aTN~p~~lD~AllRpgRfd~~i  643 (806)
T 3cf2_A          564 DKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLI  643 (806)
T ss_dssp             HHHHTTCSEEEECSCGGGCC--------------CHHHHHHHHHHHSSCSSSSEEEECC-CCSSSSCHHHHSTTTSCCEE
T ss_pred             HHHHHCCCCEEECHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCHHCCHHHCCCCCCEEEE
T ss_conf             99997299635204256776315888889866999999999999748787799899993798043898471778550799


Q ss_pred             ECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             20699999999999997113999984348999998489999999999999999999998798799998520797434323
Q 003503          655 YIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEKDIERERRKRENPEAMEED  734 (815)
Q Consensus       655 ~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~t~g~sg~di~~l~~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  734 (815)
                      ||++||.++|.+||+.++++.++..++++..+|+.|+||||+||.++|++|++.|+++.++...................
T Consensus       644 ~v~lPd~~~R~~il~~~l~~~~~~~~~dl~~la~~t~g~SGadi~~l~~~A~~~a~r~~~~~~~~~~~~~~~~~~~~~~~  723 (806)
T 3cf2_A          644 YIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVE  723 (806)
T ss_dssp             EC-----CHHHHTTTTTSSCC--CCC----------------CHHHHHHHHHHHHHHHHHC-------------------
T ss_pred             EECCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf             97996999999999998567999877899999976899999999999999999999999985644433301574100123


Q ss_pred             CCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCC---CCCCCCCCC
Q ss_conf             43343223488899999651699999999999999999820138897655653100000589997663---223689967
Q 003503          735 EVDDVAEIKAVHFEESMKYARRSVSDADIRKYQLFAQTLQQSRGFGSEFRFADRTESAAAGAADPFSS---ATAAAADDD  811 (815)
Q Consensus       735 ~~~~~~~i~~~~f~~al~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~  811 (815)
                      ..+..+.|+++||++|++.++||+|.+++++|++|+++|+++|++++ ++|+.++...+.....+-+.   .....++++
T Consensus       724 ~~~~~~~i~~~df~~al~~~~pSvs~~~l~~y~~~~~~f~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  802 (806)
T 3cf2_A          724 EDDPVPEIRRDHFEEAMRFARRSVSDNDIRKYEMFAQTLQQSRGFGS-FRFPSGNQGGAGPSQGSGGGTGGSVYTEDNDD  802 (806)
T ss_dssp             ----CCC----CCTTTC---------------CCCC--------------------------------------------
T ss_pred             CCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             34566864799999999867999999999999999999725367665-20688776777877788876544556778766


Q ss_pred             CCCC
Q ss_conf             7679
Q 003503          812 DLYN  815 (815)
Q Consensus       812 ~~~~  815 (815)
                      |||-
T Consensus       803 ~~~~  806 (806)
T 3cf2_A          803 DLYG  806 (806)
T ss_dssp             ----
T ss_pred             CCCC
T ss_conf             6659


No 2  
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A* 1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Probab=1.00  E-value=1  Score=910.80  Aligned_cols=796  Identities=78%  Similarity=1.245  Sum_probs=704.6

Q ss_pred             CCCCCCCHHHHHCCCCCCEEEECCCCCCCCCEEEECHHHHHHCCCCCCCEEEEECCCCCEEEEEEEECCCCCCCEEEECH
Q ss_conf             88875433653027898648970345799619996998797629999998999527875089999806877789399618
Q 003503           19 SSKKDYSTAILDRKKSPNRLVVDEAINDDNSVITMHPNTMEKLQFFRGDTVLVKGKKRKDTVCVVLSDELCEASKVRVNK   98 (815)
Q Consensus        19 ~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~v~l~~~~~~~l~i~~g~~v~i~~~~~~~~~~~~~~~~~~~~~~i~~~~   98 (815)
                      .++.+++|+|+..++.|++++|+++.+++.++|+|+|+.|.+|||..||+|.|+|++++.+++.+|+...++.+.|+|++
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (806)
T 1ypw_A            7 SKGDDLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLLKGKKRREAVCIVLSDDTCSDEKIRMNR   86 (806)
T ss_dssp             ----------CCCCCCTTEEEEECCSSCCSSCEEECHHHHHHHTCCTTCEEEEEETTTEECCEEEEECSSSCTTEEECCH
T ss_pred             CCCCCCCHHHHHCCCCCCEEEECCCCCCCCCEEEECHHHHHHCCCCCCCEEEEECCCCCCEEEEEECCCCCCCCEEEECH
T ss_conf             45664104677425788458972676776887988899999759999988999368657379999647888998699648


Q ss_pred             HHHHHCCCCCCCEEEEEECCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCEEEEEEEE
Q ss_conf             76631232469823797369988773798535677566755346999955754204865336969999327514999999
Q 003503           99 VVRSNLRVRLGDVVSVHPCPDVKYGRRVHILPIDDTIEGVTGNLFDAYLKPYFMESYRPVRKGDLFLVRGGMRSVEFKVI  178 (815)
Q Consensus        99 ~~~~~~~~~~g~~v~i~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~g~~~~~~~~~~~~~f~v~  178 (815)
                      .+|.|+|+.+||.|+|+++.+++++++|++.|...++..+.+++++.+++++|...++|+.+|+.+.+...++.+.|+|+
T Consensus        87 ~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~v~  166 (806)
T 1ypw_A           87 VVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVV  166 (806)
T ss_dssp             HHHTTTTCCTTCEEEEEECTTCCBCSEEEEEECTTTSSSCCSCCTTTTTGGGTTTTCCBCCTTCEEEECCSSSCEEEEEE
T ss_pred             HHHHHCCCCCCCEEEEEECCCCCCCCEEEEECCCCCHHHCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCCCCCEEEEEE
T ss_conf             99966398889989999887787576899807865222115506789999986007832268987995478760577887


Q ss_pred             EECCCCEEEECCCCEEEECCCCCCCCC-CCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCEEEEECC
Q ss_conf             955995066589952984588875201-0124777744555829999999999875357935676519999923999878
Q 003503          179 ETDPGEYCVVAPDTEIFCEGEPVKRED-EERLNEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGP  257 (815)
Q Consensus       179 ~~~p~~~~~v~~~t~i~~~~~~~~~~~-~~~~~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~l~i~~~~~iLL~Gp  257 (815)
                      ++.|.+++++.++|.+.+.+.+..... .+..+.++|++|+|++.+++.+++++.+++.+|++|.++++.++.++||+||
T Consensus       167 ~~~p~~~~~v~~~t~~~~~~~~~~~~~~~~~~~~v~~~di~G~~~~~~~l~e~i~~~l~~~~~~~~l~i~~~~~vLL~Gp  246 (806)
T 1ypw_A          167 ETDPSPYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGP  246 (806)
T ss_dssp             EETTTTCCBCCSSSEEEECSCCCCCCTTSCCSSSCCGGGCCSCSGGGGHHHHHHHHHHHCGGGGTSSCCCCCCEEEECSC
T ss_pred             ECCCCCCCEECCCEEEEECCCCCCCHHHHCCCCCCCHHHHCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECC
T ss_conf             33688873326886998558655411221135789988828809999999999998742989998638899973899893


Q ss_pred             CCCCHHHHHHHHHHHHCCEEEEEECHHHHHHHHCHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCHHHHHHHHHH
Q ss_conf             99968999999999929918999232554321010089999999999954990899621000037777761478999999
Q 003503          258 PGSGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDELDSIAPKREKTHGEVERRIVS  337 (815)
Q Consensus       258 pGtGKTtLar~ia~~l~~~~i~i~~~~l~~~~~g~~~~~i~~vf~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~v~~  337 (815)
                      ||||||++++++++.++.+++.++|.++.+.+.++.+..++.+|+.+..+.|+++|+||+|+++++++...++...++..
T Consensus       247 ~GtGKTtLarala~~l~~~~i~v~~~~l~~~~~g~~~~~l~~vf~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~  326 (806)
T 1ypw_A          247 PGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVS  326 (806)
T ss_dssp             TTSSHHHHHHHHHHTTTCEEEEEEHHHHSSSSTTHHHHHHHHHHHHHHHHCSEEEEEESGGGTSCTTSCCCSHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHCCCCEEEEECHHHHHHHHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHHHCCCCCCCHHHHHHHH
T ss_conf             99987999999999719968999755765441015899999999999864995798300777511146663168899999


Q ss_pred             HHHHHHHCCCCCCCEEEEEECCCCCCCCHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCC
Q ss_conf             99985322247881999994299999888866038752599807999889999999986279643220146787630799
Q 003503          338 QLLTLMDGLKSRAHVIVMGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLEILRIHTKNMKLAEDVDLERVAKDTHGY  417 (815)
Q Consensus       338 ~Ll~~ld~~~~~~~vivi~atn~~~~ld~al~r~~rf~~~i~i~~P~~~~R~~Il~~~~~~~~l~~~~~l~~la~~t~g~  417 (815)
                      +|++++++...+..++++++||+++.+++++++++||+..+.++.|+.++|.+|++.+.+.+.+..+.++..++..+++|
T Consensus       327 ~Ll~ll~g~~~~~~v~vI~atn~~~~ld~al~r~gRf~~~i~i~~p~~~~r~~il~~~~~~~~l~~~~~l~~la~~t~g~  406 (806)
T 1ypw_A          327 QLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGH  406 (806)
T ss_dssp             HHHHHHHSSCTTSCCEEEEECSCTTTSCTTTTSTTSSCEEECCCCCCHHHHHHHHHHTTTTSCCCTTCCTHHHHHSCSSC
T ss_pred             HHHHHHHHHCCCCCEEEECCCCCCHHCCHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCC
T ss_conf             99998654114661787602398100499986465544435569999999999999987338776220067777761475


Q ss_pred             CHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf             57899999999999968851112244321013544101122200000122556787542100025886411124540112
Q 003503          418 VGSDLAALCTEAALQCIREKMDVIDLEDETIDAEVLNSMAVTNEHFQTALGTSNPSALRETVVEVPNVSWEDIGGLDNVK  497 (815)
Q Consensus       418 ~~~dl~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~ps~~~e~~~~~~~~~~~~i~g~~~~k  497 (815)
                      +++++..++.++...++++....+......+.........++.+++..++....|+..++...+.+.+.|++++|++++|
T Consensus       407 ~g~dl~~l~~ea~~~a~r~~~~~i~~~~~~~~~~~~~~~~v~~~d~~~al~~~~~s~~~~~~~~~~~v~~~di~gl~~vk  486 (806)
T 1ypw_A          407 VGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVK  486 (806)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTTTTTSCHHHHCCHHHHTTCCCCTTHHHHHHHHSCCCCCCCCCCCCCCCSSCSSSCCCCHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHCCCCCHHHHCCCHHHHHHHHHHHHHHHCCCCCCCCHHHHHHCCCCCCCCCCCCCCCHHHH
T ss_conf             36899999999999987642010115542010124445555566531111235714442000257542111124430222


Q ss_pred             HHHHCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCHHHHCCCCCHHHHHHHHHHH
Q ss_conf             11000024777792566520688985137767999873699999999807908998251000110176378899999998
Q 003503          498 RELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKA  577 (815)
Q Consensus       498 ~~L~~~i~~~~~~~~~~~~~~~~~~~giLL~GppGtGKT~la~aia~~~~~~~i~v~~~~l~~~~~g~se~~i~~vf~~a  577 (815)
                      +.|.+.+.++..+++.+..+++.++.++||+||||||||++|+++|++++.+|+.++++++.++|+|++++.++.+|+.+
T Consensus       487 ~~l~~~v~~~~~~~~~~~~~~~~~~~~vLL~GppGtGKT~Lakala~~~~~~~i~v~~~~l~~~~~g~~~~~i~~~f~~a  566 (806)
T 1ypw_A          487 RELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKA  566 (806)
T ss_dssp             HHHHTTTTSSSSSCTTTTCCCCCCCCCCCCBCCTTSSHHHHHHHHHHHHTCCCCCCCCSSSTTCCTTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEECHHHHHHHCCCCHHHHHHHHHHH
T ss_conf             21899997555363989754888775368977999878999999999848987998616765530575478899999998


Q ss_pred             HHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCEEECC
Q ss_conf             60899399993510233105998899984189999999760004788984899994389999994445989775213206
Q 003503          578 RQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIP  657 (815)
Q Consensus       578 ~~~~p~ilfiDEid~l~~~r~~~~~~~~~~~~~v~~~lL~~ld~~~~~~~v~vI~aTn~~~~ld~allr~gRf~~~i~~~  657 (815)
                      +...|||+||||||++...|+...++..+...+++++||++||++....+++||+|||+|+.||+|++|||||+..|+|+
T Consensus       567 ~~~~p~vl~iDEid~l~~~r~~~~~~~~~~~~~v~~~LL~~ld~~~~~~~v~vI~tTN~~~~ld~allrpgRf~~~i~~~  646 (806)
T 1ypw_A          567 RQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP  646 (806)
T ss_dssp             HHHCSBCCCCSSHHHHCCTTTTCCSHHHHHHHHHHHHHHTTCC------CCBCCCCCBSCGGGSCTTSSGGGTTSCCCCC
T ss_pred             HHCCCEEEEEECHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHHCCCCCCCEEECC
T ss_conf             70698599998744542112687777641689999999998754566687699984387122798783765567305559


Q ss_pred             CCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             99999999999997113999984348999998489999999999999999999998798799998520797434323433
Q 003503          658 LPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEKDIERERRKRENPEAMEEDEVD  737 (815)
Q Consensus       658 ~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~t~g~sg~di~~l~~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  737 (815)
                      +|+.++|..||+.++++.++..++++..+++.+.||||+||.++|++|.+.|+++.++...............+.....+
T Consensus       647 ~p~~~~r~~Il~~~l~~~~~~~~~~l~~la~~t~g~sgadi~~l~~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  726 (806)
T 1ypw_A          647 LPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDD  726 (806)
T ss_dssp             CCCCSHHHHHTTTTTSCC----CCCCSCSCGGGSSSCCHHHHHHHHHHHHHHHSCC------------------------
T ss_pred             CCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             97999999999998645999752279999973500599999999999999999999998776654301464312334346


Q ss_pred             CCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC-CCCCCCC-CC-CCCCCCCCCCCCCC
Q ss_conf             432234888999996516999999999999999998201388976556531000-0058999-76-63223689967767
Q 003503          738 DVAEIKAVHFEESMKYARRSVSDADIRKYQLFAQTLQQSRGFGSEFRFADRTES-AAAGAAD-PF-SSATAAAADDDDLY  814 (815)
Q Consensus       738 ~~~~i~~~~f~~al~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~-~~-~~~~~~~~~~~~~~  814 (815)
                      ....|+++||++|++.++|+++.+++++|++|.++|+++|++++ +.|.....- ..|+++. += ......-++++|||
T Consensus       727 ~~~~i~~~~f~~a~~~~~~svs~~~~~~ye~~~~~~~~~~~~g~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  805 (806)
T 1ypw_A          727 PVPEIRRDHFEEAMRFARRSVSDNDIRKYEMFAQTLQQSRGFGS-FRFPSGNQGGAGPSQGSGGGTGGSVYTEDNDDDLY  805 (806)
T ss_dssp             CCTTTTTTSSCCCCCC----------------------------------------------------------------
T ss_pred             CCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCC-EECCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHC
T ss_conf             66760799999999867899999999999999999976325776-10687666567788999998888777766421201


Q ss_pred             C
Q ss_conf             9
Q 003503          815 N  815 (815)
Q Consensus       815 ~  815 (815)
                      +
T Consensus       806 ~  806 (806)
T 1ypw_A          806 G  806 (806)
T ss_dssp             -
T ss_pred             C
T ss_conf             9


No 3  
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*
Probab=1.00  E-value=1  Score=525.01  Aligned_cols=482  Identities=78%  Similarity=1.265  Sum_probs=442.2

Q ss_pred             CCCCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCEEEECHHHHHHCCCCCCCEEEEECCCCCEEEEEEEECCCCCCCE
Q ss_conf             99999888754336530278986489703457996199969987976299999989995278750899998068777893
Q 003503           14 SSDPKSSKKDYSTAILDRKKSPNRLVVDEAINDDNSVITMHPNTMEKLQFFRGDTVLVKGKKRKDTVCVVLSDELCEASK   93 (815)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~v~l~~~~~~~l~i~~g~~v~i~~~~~~~~~~~~~~~~~~~~~~   93 (815)
                      +++..+++++++|+|++.++.||+|+|+++.++++++|+|+|+.|.+|||..||+|.|+|++++.+++|+|+...++++.
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~d~~~~~~~~~~~~~l~~~~gd~v~~~g~~~~~~~~~~~~~~~~~~~~   81 (489)
T 3hu3_A            2 ASGADSKGDDLSTAILKQKNRPNRLIVDEAINEDNSVVSLSQPKMDELQLFRGDTVLLKGKKRREAVCIVLSDDTCSDEK   81 (489)
T ss_dssp             ---------------CCCCCCTTEEEEECCTTCCTTEEEECHHHHHHHTCCTTCEEEEECSTTCEEEEEEEECTTSCTTE
T ss_pred             CCCCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCEEEECHHHHHHCCCCCCCEEEEECCCCCCEEEEEEECCCCCCCE
T ss_conf             87531125651114454256887259756777768789989999997699999989992686673799995078789997


Q ss_pred             EEECHHHHHHCCCCCCCEEEEEECCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCEEE
Q ss_conf             99618766312324698237973699887737985356775667553469999557542048653369699993275149
Q 003503           94 VRVNKVVRSNLRVRLGDVVSVHPCPDVKYGRRVHILPIDDTIEGVTGNLFDAYLKPYFMESYRPVRKGDLFLVRGGMRSV  173 (815)
Q Consensus        94 i~~~~~~~~~~~~~~g~~v~i~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~g~~~~~~~~~~~~  173 (815)
                      |+|++.+|.|+|+++||.|+|+++..++++++|++.|+...+.......++.+.++++....+++..|+.+.+.+.++.+
T Consensus        82 i~~~~~~r~n~~~~~gd~v~v~~~~~~~~a~~v~~~~~~~av~a~~~ga~d~~~Kp~~~~~l~~~~~~~~~~~~~~~~~~  161 (489)
T 3hu3_A           82 IRMNRVVRNNLRVRLGDVISIQPCPDVKYGKRIHVLPIDDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVHGGMRAV  161 (489)
T ss_dssp             EECCHHHHHHTTCCTTCEEEEEECTTCCBCSEEEEEEBGGGSSSCCSCHHHHTHHHHHTTTCEEEETTCEEEEEETTEEE
T ss_pred             EEECHHHHHHCCCCCCCEEEEEECCCCCCCCEEEECCCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEECCCCCEE
T ss_conf             99568999653988999899998888874678998379865232453057888678774058420368889965788468


Q ss_pred             EEEEEEECCCCEEEECCCCEEEECCCCCCCCC-CCCCCCCCCCCCCCHHHHHHHHHHHHHCCCCCHHHHHHHCCCCCCEE
Q ss_conf             99999955995066589952984588875201-01247777445558299999999998753579356765199999239
Q 003503          174 EFKVIETDPGEYCVVAPDTEIFCEGEPVKRED-EERLNEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGI  252 (815)
Q Consensus       174 ~f~v~~~~p~~~~~v~~~t~i~~~~~~~~~~~-~~~~~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~l~i~~~~~i  252 (815)
                      .|+++..+|..++.++++|.+.+.+.+..... .+....++|++++|++.+++.+++++..++.+|++|..++..++.++
T Consensus       162 ~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~i~G~~~~~~~l~~~i~~~l~~~~~~~~~g~~~~~~v  241 (489)
T 3hu3_A          162 EFKVVETDPSPYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGI  241 (489)
T ss_dssp             EEEEEEEESSSEEEECTTCEEECCSSCBCHHHHHHHHTCCCGGGCCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCEE
T ss_pred             EEEEEEECCCCCEEECCCEEEEECCCCCCCCCCCCCCCCCCHHHCCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCE
T ss_conf             79998413788669768818997367655444333457899888089799999999999988559899986499999758


Q ss_pred             EEECCCCCCHHHHHHHHHHHHCCEEEEEECHHHHHHHHCHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCHHHHH
Q ss_conf             99878999689999999999299189992325543210100899999999999549908996210000377777614789
Q 003503          253 LLYGPPGSGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDELDSIAPKREKTHGEVE  332 (815)
Q Consensus       253 LL~GppGtGKTtLar~ia~~l~~~~i~i~~~~l~~~~~g~~~~~i~~vf~~a~~~~p~il~iDEid~l~~~~~~~~~~~~  332 (815)
                      ||+||||||||++|+++++.++.+++.++|.++.+.+.|+....++.+|+.+....|++|||||+|.+.+++....++..
T Consensus       242 LL~GppGtGKT~lAraia~~~~~~fv~vn~~~l~~~~~g~~~~~~~~~f~~A~~~~p~iLfLDEId~l~~~~~~~~~~~~  321 (489)
T 3hu3_A          242 LLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVE  321 (489)
T ss_dssp             EEECSTTSSHHHHHHHHHHHCSSEEEEEEHHHHHTSCTTHHHHHHHHHHHHHHHTCSEEEEEESHHHHCBCTTSCCCHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHCCCEEEEECHHHHHHHCCHHHHHHHHHHHHHHHCCCCEEEECCHHHHCCCCCCCCCHHH
T ss_conf             99996998999999999998699889997457654421326789999999999639908996465552345544542578


Q ss_pred             HHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHH
Q ss_conf             99999999853222478819999942999998888660387525998079998899999999862796432201467876
Q 003503          333 RRIVSQLLTLMDGLKSRAHVIVMGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLEILRIHTKNMKLAEDVDLERVAK  412 (815)
Q Consensus       333 ~~v~~~Ll~~ld~~~~~~~vivi~atn~~~~ld~al~r~~rf~~~i~i~~P~~~~R~~Il~~~~~~~~l~~~~~l~~la~  412 (815)
                      .++..+|+..|++......++||++||+++.+++++++++||+..++++.|+.++|.+||+.+++.+.+..+.++..++.
T Consensus       322 ~~~~~~LL~~ld~~~~~~~v~vIaaTn~~~~Ld~al~r~gRf~~~i~i~~P~~~eR~~IL~~~~~~~~l~~~~~l~~la~  401 (489)
T 3hu3_A          322 RRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVAN  401 (489)
T ss_dssp             HHHHHHHHHHHHHSCTTSCEEEEEEESCGGGBCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHTTTSCBCTTCCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHHCCCCCCEEEEECCCCHHHHHHHHHHHHHCCCCCCHHHHHHHHH
T ss_conf             99999999875312467866999854883226987827776746998279799999999999984189862133999999


Q ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             30799578999999999999688511122443210135441011222000001225567875421000258864111245
Q 003503          413 DTHGYVGSDLAALCTEAALQCIREKMDVIDLEDETIDAEVLNSMAVTNEHFQTALGTSNPSALRETVVEVPNVSWEDIGG  492 (815)
Q Consensus       413 ~t~g~~~~dl~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~ps~~~e~~~~~~~~~~~~i~g  492 (815)
                      .+.||+++|+..+|.++++.++++....++.+.............++.+||..+++.+.|+.+++..++.|+++|+||||
T Consensus       402 ~t~g~s~~dL~~L~~~A~~~a~r~~~~~i~~~~~~~~~~~~~~~~vt~edf~~Al~~~~ps~~re~~~e~p~v~W~dig~  481 (489)
T 3hu3_A          402 ETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGG  481 (489)
T ss_dssp             TCTTCCHHHHHHHHHHHHHHHHHTTTTTCCTTCSSCCHHHHHHCCBCHHHHHHHHTSHHHHHHHGGGC------------
T ss_pred             HCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHCCCCCCCHHHHHHHHHHCCCHHHHCCCCCCCCCCHHHCCC
T ss_conf             75697699999999999999997302335532012552330467678999999997677424101343179988977189


Q ss_pred             CCH
Q ss_conf             401
Q 003503          493 LDN  495 (815)
Q Consensus       493 ~~~  495 (815)
                      ..+
T Consensus       482 ~~~  484 (489)
T 3hu3_A          482 RSH  484 (489)
T ss_dssp             ---
T ss_pred             CCC
T ss_conf             765


No 4  
>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=1.00  E-value=1  Score=450.37  Aligned_cols=275  Identities=39%  Similarity=0.694  Sum_probs=253.1

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCC
Q ss_conf             67875421000258864111245401121100002477779256652068898513776799987369999999980790
Q 003503          470 SNPSALRETVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQAN  549 (815)
Q Consensus       470 ~~ps~~~e~~~~~~~~~~~~i~g~~~~k~~L~~~i~~~~~~~~~~~~~~~~~~~giLL~GppGtGKT~la~aia~~~~~~  549 (815)
                      ..|........+.|+++|+||+|++++|+.|++.+.+|+++|+.|.++|+.+++|+|||||||||||++|+++|++++.+
T Consensus       130 ~~~~~~~~~~~~~p~v~~~dIgGl~~~k~~l~e~v~~Pl~~pe~f~~~gi~~prGvLL~GPPGTGKTllAkAiA~e~~~~  209 (405)
T 4b4t_J          130 ADPLVSLMMVEKVPDSTYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHHTDCK  209 (405)
T ss_dssp             CSCCTTSCEEECSCSCCGGGSCSCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCCCEEEESCSSSSHHHHHHHHHHHHTCE
T ss_pred             CCCHHHHCCCCCCCCCCHHHHCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCC
T ss_conf             58466613555799998888288899999999999998749999986799988825885899998789999999851888


Q ss_pred             EEEEECCCHHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEE
Q ss_conf             89982510001101763788999999986089939999351023310599889998418999999976000478898489
Q 003503          550 FISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVF  629 (815)
Q Consensus       550 ~i~v~~~~l~~~~~g~se~~i~~vf~~a~~~~p~ilfiDEid~l~~~r~~~~~~~~~~~~~v~~~lL~~ld~~~~~~~v~  629 (815)
                      |+.++++++.++|+|+++++++.+|..|+..+||||||||+|++++.|..+.++......+++++||++|||+....+|+
T Consensus       210 f~~v~~s~l~sk~vGese~~vr~lF~~Ar~~aP~IIFiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~V~  289 (405)
T 4b4t_J          210 FIRVSGAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIK  289 (405)
T ss_dssp             EEEEEGGGGSCSSTTHHHHHHHHHHHHHHHTCSEEEEEESSSCCTTSCSCSSSGGGGHHHHHHHHHHHHHHTTTCCCCEE
T ss_pred             CEEEEHHHHHCCCCCHHHHHHHHHHHHHHHHCCCEEEEECCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEE
T ss_conf             52888689511335468999999999998709946765334111157788899976899999999999604338888757


Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             99943899999944459897752132069999999999999711399998434899999848999999999999999999
Q 003503          630 IIGATNRPDIIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYA  709 (815)
Q Consensus       630 vI~aTn~~~~ld~allr~gRf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~t~g~sg~di~~l~~~a~~~a  709 (815)
                      ||||||+|+.||||++||||||+.|+|++||.++|.+||+.++++.++..++++..+|+.|+||||+||.++|++|++.|
T Consensus       290 vIaATNrpd~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~l~~dvdl~~lA~~t~G~SGADi~~l~~eA~~~A  369 (405)
T 4b4t_J          290 IIMATNRLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGINLRKVAEKMNGCSGADVKGVCTEAGMYA  369 (405)
T ss_dssp             EEEEESCSSSSCHHHHSTTSSCCEEECCCCCHHHHHHHHHHHHTTSBCCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHH
T ss_pred             EEECCCCHHHCCHHHCCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHH
T ss_conf             88126981448996728776766997699699999999999855999996579999998779999999999999999999


Q ss_pred             HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHH
Q ss_conf             999879879999852079743432343343223488899999651699999999999999
Q 003503          710 IRENIEKDIERERRKRENPEAMEEDEVDDVAEIKAVHFEESMKYARRSVSDADIRKYQLF  769 (815)
Q Consensus       710 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~al~~~~~~~~~~~~~~y~~~  769 (815)
                      +++.                         ...|+++||+.|+.++.++.....+..++.|
T Consensus       370 ir~~-------------------------~~~vt~~Df~~Al~~v~~~~~~~~~s~~k~~  404 (405)
T 4b4t_J          370 LRER-------------------------RIHVTQEDFELAVGKVMNKNQETAISVAKLF  404 (405)
T ss_dssp             HHTT-------------------------CSBCCHHHHHHHHHHHHHHHTCC--------
T ss_pred             HHCC-------------------------CCCCCHHHHHHHHHHHHCCCCCCCCHHHHHH
T ss_conf             9869-------------------------9875999999999998572655540267641


No 5  
>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=1.00  E-value=1  Score=435.38  Aligned_cols=262  Identities=36%  Similarity=0.660  Sum_probs=245.4

Q ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEECC
Q ss_conf             10002588641112454011211000024777792566520688985137767999873699999999807908998251
Q 003503          477 ETVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGP  556 (815)
Q Consensus       477 e~~~~~~~~~~~~i~g~~~~k~~L~~~i~~~~~~~~~~~~~~~~~~~giLL~GppGtGKT~la~aia~~~~~~~i~v~~~  556 (815)
                      -...+.|+++|+||+|++++|+.|++.+.+|+.+++.|..+|+.+++|+|||||||||||++|+++|++++.+|+.++++
T Consensus       171 ~~~~~~p~v~~~DIgGld~~k~~L~e~v~~Pl~~pe~f~~~Gi~~prGvLLyGPPGTGKTlLAkAiA~e~~~~fi~v~~s  250 (437)
T 4b4t_I          171 MKMDKSPTESYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQTSATFLRIVGS  250 (437)
T ss_dssp             CEEESSCCCCGGGTCSCHHHHHHHHHHHHHHHHCCHHHHHHTCCCCSEEEEESSTTTTHHHHHHHHHHHHTCEEEEEESG
T ss_pred             EEECCCCCCCCEECCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCCCEECCCCCHHHHHHHHHHHHHCCCEEEEEHH
T ss_conf             54336899860055769999999999999987699999867999777884488999639999999999859987998879


Q ss_pred             CHHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCC
Q ss_conf             00011017637889999999860899399993510233105998899984189999999760004788984899994389
Q 003503          557 ELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNR  636 (815)
Q Consensus       557 ~l~~~~~g~se~~i~~vf~~a~~~~p~ilfiDEid~l~~~r~~~~~~~~~~~~~v~~~lL~~ld~~~~~~~v~vI~aTn~  636 (815)
                      ++.++|+|++++.++.+|..|+..+||||||||+|+++..|..+.........+++++||++||++....+++||||||+
T Consensus       251 ~l~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~LL~~lDg~~~~~~ViVIaATNr  330 (437)
T 4b4t_I          251 ELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNK  330 (437)
T ss_dssp             GGCCSSSSHHHHHHHHHHHHHHHTCSEEEEEEEESSSSCCCSCSSCSSCCHHHHHHHHHHHHHHHCCCSSSEEEEEEESC
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHHCCCCEEEEEHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCC
T ss_conf             95314476699999999999986599189876122203667788877658999999999997247678899799995798


Q ss_pred             CCCCCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99999444598977521320699999999999997113999984348999998489999999999999999999998798
Q 003503          637 PDIIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEK  716 (815)
Q Consensus       637 ~~~ld~allr~gRf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~t~g~sg~di~~l~~~a~~~a~~~~~~~  716 (815)
                      |+.||||++||||||+.|+|++||.++|.+||+.+++++++..++++..+|+.|+||||+||.++|++|++.|+++.   
T Consensus       331 pd~LDpALlRpGRfD~~I~v~lPd~~~R~~Il~~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eA~~~Air~~---  407 (437)
T 4b4t_I          331 IETLDPALIRPGRIDRKILFENPDLSTKKKILGIHTSKMNLSEDVNLETLVTTKDDLSGADIQAMCTEAGLLALRER---  407 (437)
T ss_dssp             STTCCTTSSCTTTEEEEECCCCCCHHHHHHHHHHHHTTSCBCSCCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHTT---
T ss_pred             HHHCCHHHHCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC---
T ss_conf             05559988648860279980896999999999999648999976799999976799989999999999999999848---


Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCHHHH
Q ss_conf             79999852079743432343343223488899999651699999999
Q 003503          717 DIERERRKRENPEAMEEDEVDDVAEIKAVHFEESMKYARRSVSDADI  763 (815)
Q Consensus       717 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~al~~~~~~~~~~~~  763 (815)
                                            ...|+++||+.|++.+.++.+.+.+
T Consensus       408 ----------------------~~~It~eDf~~Al~rv~~~~~~e~l  432 (437)
T 4b4t_I          408 ----------------------RMQVTAEDFKQAKERVMKNKVEENL  432 (437)
T ss_dssp             ----------------------CSCBCHHHHHHHHHHHHHHHCCCSS
T ss_pred             ----------------------CCCCCHHHHHHHHHHHHCCCCHHHH
T ss_conf             ----------------------9966999999999987079873347


No 6  
>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=1.00  E-value=1  Score=433.01  Aligned_cols=273  Identities=40%  Similarity=0.675  Sum_probs=252.4

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCE
Q ss_conf             78754210002588641112454011211000024777792566520688985137767999873699999999807908
Q 003503          471 NPSALRETVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANF  550 (815)
Q Consensus       471 ~ps~~~e~~~~~~~~~~~~i~g~~~~k~~L~~~i~~~~~~~~~~~~~~~~~~~giLL~GppGtGKT~la~aia~~~~~~~  550 (815)
                      .|........+.|+++|+||+|++++|+.|++.+.+|+.+++.|..+|+.+++|+|||||||||||++|+++|++++.+|
T Consensus       164 d~~~~~~~~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~f~~~g~~~prGvLL~GPPGtGKTllAkAiA~e~~~~~  243 (437)
T 4b4t_L          164 DPLVYNMTSFEQGEITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAATIGANF  243 (437)
T ss_dssp             CCCCSSCEEEESCSSCSGGGCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEE
T ss_pred             CCHHHEEEECCCCCCCHHHHCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCE
T ss_conf             74233013315999896671785999999999999987499999867989787699989999849999999999859998


Q ss_pred             EEEECCCHHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEE
Q ss_conf             99825100011017637889999999860899399993510233105998899984189999999760004788984899
Q 003503          551 ISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFI  630 (815)
Q Consensus       551 i~v~~~~l~~~~~g~se~~i~~vf~~a~~~~p~ilfiDEid~l~~~r~~~~~~~~~~~~~v~~~lL~~ld~~~~~~~v~v  630 (815)
                      +.++++++.++|+|++++.++.+|..|+...||||||||+|++++.|............+++++||++|||+....+++|
T Consensus       244 ~~v~~s~l~sk~~Gese~~ir~~F~~A~~~~P~IifiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~viv  323 (437)
T 4b4t_L          244 IFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKI  323 (437)
T ss_dssp             EEEEGGGTCCSSSSHHHHHHHHHHHHHHHSCSEEEEEECCCSSSCCCSSSCCSSTTHHHHHHHHHHHHHHSSSCTTSSEE
T ss_pred             EEEEHHHHCCCCCHHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf             99841462055201789999999999986389646420443333333447887536899999999998346667798699


Q ss_pred             EEECCCCCCCCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             99438999999444598977521320699999999999997113999984348999998489999999999999999999
Q 003503          631 IGATNRPDIIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAI  710 (815)
Q Consensus       631 I~aTn~~~~ld~allr~gRf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~t~g~sg~di~~l~~~a~~~a~  710 (815)
                      |||||+|+.||||++||||||+.|+|++||.++|.+||+.++++.++..++|+..+|+.|+||||+||.++|++|++.|+
T Consensus       324 I~ATNrp~~LDpAllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~d~dl~~lA~~t~G~sGADi~~l~~eA~~~ai  403 (437)
T 4b4t_L          324 IMATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSDGFNGADIRNCATEAGFFAI  403 (437)
T ss_dssp             EEEESSTTSSCTTTTSTTSEEEEECCCCCCHHHHHHHHHHHHHTSCBCSCCCHHHHHHTCCSCCHHHHHHHHHHHHHHHH
T ss_pred             EEECCCCHHHCHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHH
T ss_conf             99339903318978277710200135996999999999998658999864589999976899999999999999999999


Q ss_pred             HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHH
Q ss_conf             9987987999985207974343234334322348889999965169999999999999
Q 003503          711 RENIEKDIERERRKRENPEAMEEDEVDDVAEIKAVHFEESMKYARRSVSDADIRKYQL  768 (815)
Q Consensus       711 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~al~~~~~~~~~~~~~~y~~  768 (815)
                      ++.                         ...|+++||..|++++.++...+....|++
T Consensus       404 r~~-------------------------~~~i~~~d~~~Al~~v~~~~k~e~~~e~~K  436 (437)
T 4b4t_L          404 RDD-------------------------RDHINPDDLMKAVRKVAEVKKLEGTIEYQK  436 (437)
T ss_dssp             HTT-------------------------CSSBCHHHHHHHHHHHHHTCC---------
T ss_pred             HCC-------------------------CCCCCHHHHHHHHHHHHHCCCCCCCHHHHC
T ss_conf             869-------------------------987799999999999875037012356425


No 7  
>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=1.00  E-value=1  Score=428.61  Aligned_cols=266  Identities=34%  Similarity=0.657  Sum_probs=245.0

Q ss_pred             CCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCH
Q ss_conf             00258864111245401121100002477779256652068898513776799987369999999980790899825100
Q 003503          479 VVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPEL  558 (815)
Q Consensus       479 ~~~~~~~~~~~i~g~~~~k~~L~~~i~~~~~~~~~~~~~~~~~~~giLL~GppGtGKT~la~aia~~~~~~~i~v~~~~l  558 (815)
                      ..+.|+++|+||+|++++|+.|++.+.+|+.+++.|..+|+.+++|+|||||||||||++|+++|++++.+|+.++++++
T Consensus       200 v~e~P~vt~~DIgGl~~~k~~L~e~V~~pl~~pe~f~~~Gi~pprGILLyGPPGTGKTlLAkAiA~e~~~~fi~vs~s~L  279 (467)
T 4b4t_H          200 VEEKPDVTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVANRTDATFIRVIGSEL  279 (467)
T ss_dssp             EESSCSCCCSSCTTCHHHHHHHHHHTHHHHHCHHHHHHHTCCCCSEEEECSCTTSSHHHHHHHHHHHHTCEEEEEEGGGG
T ss_pred             ECCCCCCCHHHHCCHHHHHHHHHHHHHHHHCCHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHCCCCCEEEEEHHHH
T ss_conf             15799998788545999999999999988429999987799999814764899980999999998446898699886995


Q ss_pred             HHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCC
Q ss_conf             01101763788999999986089939999351023310599889998418999999976000478898489999438999
Q 003503          559 LTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRPD  638 (815)
Q Consensus       559 ~~~~~g~se~~i~~vf~~a~~~~p~ilfiDEid~l~~~r~~~~~~~~~~~~~v~~~lL~~ld~~~~~~~v~vI~aTn~~~  638 (815)
                      .++|+|++++.++.+|..|+..+||||||||+|+++..|+.+..+......++++++|++||+.....+|+||||||+|+
T Consensus       280 ~sk~vGesek~ir~lF~~Ar~~aP~IIfiDEiDai~~~R~~~~~~~~~~~~~~l~~lL~~lDg~~~~~~ViVIaATNrpd  359 (467)
T 4b4t_H          280 VQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPN  359 (467)
T ss_dssp             CCCSSSHHHHHHHHHHHHHHHTCSEEEEEECCTTTSBCCSSSSCGGGGHHHHHHHHHHHHHHSSCCTTTEEEEEECSCTT
T ss_pred             HCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCC
T ss_conf             02667789999999999987617846752232110135567677862789999999999865557888379882878931


Q ss_pred             CCCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99944459897752132069999999999999711399998434899999848999999999999999999999879879
Q 003503          639 IIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEKDI  718 (815)
Q Consensus       639 ~ld~allr~gRf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~t~g~sg~di~~l~~~a~~~a~~~~~~~~~  718 (815)
                      .||+|++||||||+.|+|++||.++|.+||+.++++.++..++++..+|+.|+||||+||.++|++|++.|+++.     
T Consensus       360 ~LDpALlRpGRFD~~I~i~lPd~~~R~~Ilk~~l~~~~l~~dvdl~~LA~~T~GfSGADI~~l~~eAa~~Air~~-----  434 (467)
T 4b4t_H          360 TLDPALLRPGRIDRKVEFSLPDLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRAR-----  434 (467)
T ss_dssp             SBCHHHHSTTTCCEEECCCCCCHHHHHHHHHHHHTTSCBCSSCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHT-----
T ss_pred             CCCHHHHCCCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC-----
T ss_conf             179546366655079983896999999999998548999877799999977799999999999999999999838-----


Q ss_pred             HHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCC-HHHHHHHHHH
Q ss_conf             99985207974343234334322348889999965169999-9999999999
Q 003503          719 ERERRKRENPEAMEEDEVDDVAEIKAVHFEESMKYARRSVS-DADIRKYQLF  769 (815)
Q Consensus       719 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~al~~~~~~~~-~~~~~~y~~~  769 (815)
                                          ...|+++||..|+.++.++.. .+...+|.+|
T Consensus       435 --------------------~~~it~~Df~~Al~kV~~g~~k~s~~~~y~~~  466 (467)
T 4b4t_H          435 --------------------RKVATEKDFLKAVDKVISGYKKFSSTSRYMQY  466 (467)
T ss_dssp             --------------------CSSBCHHHHHHHHHHHHHHHCC----------
T ss_pred             --------------------CCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHH
T ss_conf             --------------------87669999999999996474561257899861


No 8  
>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=1.00  E-value=1  Score=427.89  Aligned_cols=264  Identities=38%  Similarity=0.643  Sum_probs=245.3

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEE
Q ss_conf             87542100025886411124540112110000247777925665206889851377679998736999999998079089
Q 003503          472 PSALRETVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI  551 (815)
Q Consensus       472 ps~~~e~~~~~~~~~~~~i~g~~~~k~~L~~~i~~~~~~~~~~~~~~~~~~~giLL~GppGtGKT~la~aia~~~~~~~i  551 (815)
                      |........+.|+++|+||+|++++|+.|.+.+.+|+.+++.|.++|+++++|+|||||||||||++|+++|++++.+|+
T Consensus       165 ~~~~~~~~~~~p~~t~~digGl~~~k~~l~e~v~~pl~~pe~f~~~g~~~prGvLLyGPPGTGKTllAkAiA~e~~~~f~  244 (434)
T 4b4t_M          165 SRVKAMEVDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTNATFL  244 (434)
T ss_dssp             CSCSCCEEESSCSCCGGGSCSCHHHHHHHHHHTHHHHHCSHHHHHHCCCCCCEEEEESCTTSSHHHHHHHHHHHHTCEEE
T ss_pred             CHHHHCCCCCCCCCCHHHCCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEE
T ss_conf             31343266889799867609579999999999999974999998679998872687794999889999999999599889


Q ss_pred             EEECCCHHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEE
Q ss_conf             98251000110176378899999998608993999935102331059988999841899999997600047889848999
Q 003503          552 SVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFII  631 (815)
Q Consensus       552 ~v~~~~l~~~~~g~se~~i~~vf~~a~~~~p~ilfiDEid~l~~~r~~~~~~~~~~~~~v~~~lL~~ld~~~~~~~v~vI  631 (815)
                      .++++++.++|+|++++.++.+|..|+..+||||||||+|++++.|..+..+......+++++||++|||+...++|+||
T Consensus       245 ~v~~s~l~~~~vGese~~ir~lF~~A~~~aP~IifiDEiDal~~~R~~~~~~~~~~~~~~~~~lL~~ldg~~~~~~ViVI  324 (434)
T 4b4t_M          245 KLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVL  324 (434)
T ss_dssp             EEEGGGGCSSCSSHHHHHHHHHHHHHHHHCSEEEEEECTHHHHCCCSSGGGGTTHHHHHHHHHHHHHHTTSCSSCSSEEE
T ss_pred             EEEHHHHHHCCCCHHHHHHHHHHHHHHHCCCEEEEECCHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEE
T ss_conf             98644643134563899999999999861990896033256652257788887469999999999971366888998999


Q ss_pred             EECCCCCCCCCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             94389999994445989775213206999999999999971139999843489999984899999999999999999999
Q 003503          632 GATNRPDIIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIR  711 (815)
Q Consensus       632 ~aTn~~~~ld~allr~gRf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~t~g~sg~di~~l~~~a~~~a~~  711 (815)
                      ||||+|+.||||++||||||+.|+|++||.++|.+||+.+++++++..++++..+|+.|+||||+||.++|++|++.|++
T Consensus       325 aaTNrp~~LD~AllRpGRfD~~I~i~lPd~~~R~~Il~~~~~~~~~~~dvdl~~lA~~t~G~sGADi~~l~~eA~~~a~r  404 (434)
T 4b4t_M          325 AATNRVDVLDPALLRSGRLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQELARSTDEFNGAQLKAVTVEAGMIALR  404 (434)
T ss_dssp             EECSSCCCCCTTTCSTTSEEEEEECCCCCHHHHHHHHHHHHHHSCBCSCCCHHHHHHHCSSCCHHHHHHHHHHHHHHHHH
T ss_pred             EECCCCHHCCHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             94899223399671577403899808959999999999985689998767999999868998999999999999999998


Q ss_pred             HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCH
Q ss_conf             9879879999852079743432343343223488899999651699999
Q 003503          712 ENIEKDIERERRKRENPEAMEEDEVDDVAEIKAVHFEESMKYARRSVSD  760 (815)
Q Consensus       712 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~al~~~~~~~~~  760 (815)
                      +.                         ...|+++||..|+..++|+.+.
T Consensus       405 ~~-------------------------~~~i~~~Df~~Al~~v~~~~~~  428 (434)
T 4b4t_M          405 NG-------------------------QSSVKHEDFVEGISEVQARKSK  428 (434)
T ss_dssp             HT-------------------------CSSBCHHHHHHHHHSCSSSCCC
T ss_pred             CC-------------------------CCCCCHHHHHHHHHHHHCCCCC
T ss_conf             69-------------------------9876999999999997377775


No 9  
>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=1.00  E-value=1  Score=425.03  Aligned_cols=264  Identities=41%  Similarity=0.670  Sum_probs=245.8

Q ss_pred             CCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCC
Q ss_conf             00025886411124540112110000247777925665206889851377679998736999999998079089982510
Q 003503          478 TVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPE  557 (815)
Q Consensus       478 ~~~~~~~~~~~~i~g~~~~k~~L~~~i~~~~~~~~~~~~~~~~~~~giLL~GppGtGKT~la~aia~~~~~~~i~v~~~~  557 (815)
                      ...+.|+++|+||+|++++|+.|.+.+.+|+.+++.|..+|+.+++|+|||||||||||++|+++|++++.+|+.+++++
T Consensus       162 ~~~~~p~v~~~digGl~~~k~~l~e~v~~pl~~p~~~~~~g~~~prGiLL~GPPGtGKT~lakAiA~~~~~~~~~v~~~~  241 (428)
T 4b4t_K          162 GENEKPDVTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVANSTKAAFIRVNGSE  241 (428)
T ss_dssp             EEESSCSCCGGGSCSCHHHHHHHHHHHHHHHHCHHHHHHHCCCCCCEEEEESCTTTTHHHHHHHHHHHHTCEEEEEEGGG
T ss_pred             CCCCCCCCCHHHHCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCH
T ss_conf             67789999888851699999999999999873999998679998865888898998889999999998679969993304


Q ss_pred             HHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCC
Q ss_conf             00110176378899999998608993999935102331059988999841899999997600047889848999943899
Q 003503          558 LLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRP  637 (815)
Q Consensus       558 l~~~~~g~se~~i~~vf~~a~~~~p~ilfiDEid~l~~~r~~~~~~~~~~~~~v~~~lL~~ld~~~~~~~v~vI~aTn~~  637 (815)
                      +.++|+|+++++++.+|..|+..+|||+||||+|+++..|............+++++||++|||+....+++||||||+|
T Consensus       242 l~~~~~Ge~e~~ir~lF~~A~~~aP~IifiDEiD~i~~~R~~~~~~~~~~~~r~l~~lL~~ldg~~~~~~v~vI~aTN~~  321 (428)
T 4b4t_K          242 FVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRA  321 (428)
T ss_dssp             TCCSSCSHHHHHHHHHHHHHHHTCSEEEEEECTHHHHCSCSSSCSCCCCHHHHHHHHHHHHHHHSCSSCSEEEEEEESCS
T ss_pred             HHCCCCCHHHHHHHHHHHHHHHCCCCEEECHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCH
T ss_conf             43145460599999999999973997463002243303556787888718999999999984387877997999961981


Q ss_pred             CCCCCCCCCCCCCCCEEECC-CCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             99994445989775213206-99999999999997113999984348999998489999999999999999999998798
Q 003503          638 DIIDPALLRPGRLDQLIYIP-LPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEK  716 (815)
Q Consensus       638 ~~ld~allr~gRf~~~i~~~-~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~t~g~sg~di~~l~~~a~~~a~~~~~~~  716 (815)
                      +.||||++||||||+.|+|| +|+.++|..||+.++++.++..++++..+|..|+||||+||.++|++|++.|+++.   
T Consensus       322 ~~LD~AllRpGRfd~~I~~p~lPd~~~R~~Il~~~~~~~~l~~~~dl~~lA~~t~G~sgadi~~l~~eA~~~a~r~~---  398 (428)
T 4b4t_K          322 DTLDPALLRPGRLDRKIEFPSLRDRRERRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKN---  398 (428)
T ss_dssp             SSCCHHHHSSSSEEEEEECCSSCCHHHHHHHHHHHHHSSCBCTTCCHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTT---
T ss_pred             HHCCHHHHCCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCC---
T ss_conf             55696663687515999819999999999999998557999963589999977799889999999999999999879---


Q ss_pred             HHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHH-CCCCCCHHHHHHH
Q ss_conf             7999985207974343234334322348889999965-1699999999999
Q 003503          717 DIERERRKRENPEAMEEDEVDDVAEIKAVHFEESMKY-ARRSVSDADIRKY  766 (815)
Q Consensus       717 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~al~~-~~~~~~~~~~~~y  766 (815)
                                            ...|+++||++|+.. ++++.+.+++++|
T Consensus       399 ----------------------~~~i~~~d~~~A~~~~~~~~~~~~~~d~y  427 (428)
T 4b4t_K          399 ----------------------RYVILQSDLEEAYATQVKTDNTVDKFDFY  427 (428)
T ss_dssp             ----------------------CSSBCHHHHHHHHHHHSCSCCCSSCCCSC
T ss_pred             ----------------------CCCCCHHHHHHHHHHHHCCCCCCCHHHHH
T ss_conf             ----------------------98779999999999761766895475541


No 10 
>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*
Probab=1.00  E-value=1  Score=392.85  Aligned_cols=294  Identities=37%  Similarity=0.652  Sum_probs=256.5

Q ss_pred             CCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEECCCHHH
Q ss_conf             25886411124540112110000247777925665206889851377679998736999999998079089982510001
Q 003503          481 EVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLT  560 (815)
Q Consensus       481 ~~~~~~~~~i~g~~~~k~~L~~~i~~~~~~~~~~~~~~~~~~~giLL~GppGtGKT~la~aia~~~~~~~i~v~~~~l~~  560 (815)
                      ..|.++|+||+|+++.++.|++.+.+|+.+++.|..++..+++|+|||||||||||++|+++|++++.+|+.++++++.+
T Consensus       197 ~~~~v~~~dIgGl~~~~~~l~e~v~~pl~~p~~f~~~g~~~p~GILL~GPPGTGKT~LAraiA~elg~~~~~v~~~~l~s  276 (806)
T 3cf2_A          197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMS  276 (806)
T ss_dssp             CSSSCCGGGCCSCCTTHHHHHHHHHHHHHCCGGGTSCCCCCCCEEEEECCTTSCHHHHHHHHHTTTTCEEEEEEHHHHHS
T ss_pred             CCCCCCHHHHCCHHHHHHHHHHHHHHHCCCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCEEEEEEHHHHHC
T ss_conf             58999903514999999999999998751989886358999975897798999889999999997198399997379543


Q ss_pred             HCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCC
Q ss_conf             10176378899999998608993999935102331059988999841899999997600047889848999943899999
Q 003503          561 MWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRPDII  640 (815)
Q Consensus       561 ~~~g~se~~i~~vf~~a~~~~p~ilfiDEid~l~~~r~~~~~~~~~~~~~v~~~lL~~ld~~~~~~~v~vI~aTn~~~~l  640 (815)
                      +|+|+++++++.+|+.|+..+||||||||||++++.|+...   +....+++++||.+||++....+|+||+|||+|+.|
T Consensus       277 k~~gese~~lr~lF~~A~~~~PsIIfIDEiDal~~~r~~~~---~~~~~riv~~LL~~mdg~~~~~~V~VIaaTN~~d~L  353 (806)
T 3cf2_A          277 KLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTH---GEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSI  353 (806)
T ss_dssp             SCTTHHHHHHHHHHHHHTTSCSEEEEEESGGGTCCTTTTCC---CTTHHHHHHHHHTHHHHCCGGGCEEEEEECSSTTTS
T ss_pred             CCCHHHHHHHHHHHHHHHHCCCEEEEEEHHCCCCCCCCCCC---CHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCHHHC
T ss_conf             33167899999999999972992999851002334457788---739999999999997466666987999966980326


Q ss_pred             CCCCCCCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             94445989775213206999999999999971139999843489999984899999999999999999999987987999
Q 003503          641 DPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEKDIER  720 (815)
Q Consensus       641 d~allr~gRf~~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~t~g~sg~di~~l~~~a~~~a~~~~~~~~~~~  720 (815)
                      |++++|||||++.|++++||.++|.+||+.++++.++..++++..+|..|.||+|+||.++|++|.+.|+++....... 
T Consensus       354 D~ALrR~GRFd~~I~i~~Pd~~~R~~IL~~~l~~~~~~~dvdl~~lA~~T~GfsgaDL~~Lv~eA~~~A~~r~~~~i~~-  432 (806)
T 3cf2_A          354 DPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDL-  432 (806)
T ss_dssp             CTTTTSTTSSCEEEECCCCCHHHHHHHHHHTCSSSEECTTCCHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHHHHHGGG-
T ss_pred             CHHHHCCCCCCEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHCCCCCCC-
T ss_conf             9888578636168866897989999999998568998864389999975689989999999999999999841451200-


Q ss_pred             HHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCCC-----------CCHHHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             9852079743432343343223488899999651699-----------999999999999999820138897655653
Q 003503          721 ERRKRENPEAMEEDEVDDVAEIKAVHFEESMKYARRS-----------VSDADIRKYQLFAQTLQQSRGFGSEFRFAD  787 (815)
Q Consensus       721 ~~~~~~~~~~~~~~~~~~~~~i~~~~f~~al~~~~~~-----------~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~  787 (815)
                            ...... .+......++++||..|+..++|+           ++.+++-.++...+.+...-.|  |+.+++
T Consensus       433 ------~~~~~~-~e~~~~~~v~~~Df~~Al~~~~ps~~r~~~~~~p~v~w~diggl~~~k~~l~e~v~~--p~~~p~  501 (806)
T 3cf2_A          433 ------EDETID-AEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQY--PVEHPD  501 (806)
T ss_dssp             ------TCCCCS-HHHHHHCEECTTHHHHHHSSSSCCCCCCCCCBCCCCCSTTCCSCHHHHHHHTTTTTT--TTTCSG
T ss_pred             ------CCCCCC-HHHHCCCEEEHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHCCHHHHHHHHHHHHHH--HHHCHH
T ss_conf             ------013320-455225565199999999728783112344457887888817889999999999975--666899


Done!