Query         003525
Match_columns 813
No_of_seqs    541 out of 5169
Neff          8.3 
Searched_HMMs 29240
Date          Tue Mar 26 18:42:53 2013
Command       hhsearch -i /local_scratch/syshi/lefta3m/003525.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1572-1576//hhsearch_pdb/003525hhsearch_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 1125.8  49.0  797   16-813     4-806 (806)
  2 1ypw_A Transitional endoplasmi   1.0       1       1  911.7  38.4  794   19-813     7-806 (806)
  3 3hu3_A Transitional endoplasmi   1.0       1       1  522.3  44.6  482   14-495     2-484 (489)
  4 4b4t_J 26S protease regulatory   1.0       1       1  451.2  21.6  275  470-769   130-404 (405)
  5 4b4t_I 26S protease regulatory   1.0       1       1  436.6  19.8  262  477-763   171-432 (437)
  6 4b4t_L 26S protease subunit RP   1.0       1       1  433.7  24.4  273  471-768   164-436 (437)
  7 4b4t_H 26S protease regulatory   1.0       1       1  429.4  22.6  266  479-769   200-466 (467)
  8 4b4t_M 26S protease regulatory   1.0       1       1  428.7  24.8  264  472-760   165-428 (434)
  9 4b4t_K 26S protease regulatory   1.0       1       1  426.6  20.8  264  478-766   162-427 (428)
 10 3cf2_A TER ATPase, transitiona   1.0       1       1  390.7  19.9  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=1125.80  Aligned_cols=797  Identities=77%  Similarity=1.242  Sum_probs=727.3

Q ss_pred             CCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCEEEECHHHHHHCCCCCCCEEEEECCCCCEEEEEEEECCCCCCCEEE
Q ss_conf             99988886434664026898648870345799729996998797629999997999617875089999806877789399
Q 003525           16 DPKSSKKDYSTAILDRKKSPNRLVVDEAINDDNSVITMHPNTMEKLQFFRGDTVLVKGKKRKDTVCVVLSDELCEASKVR   95 (813)
Q Consensus        16 ~~~~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~v~l~~~~~~~l~l~~g~~v~i~~~~~~~~~~~~~~~~~~~~~~i~   95 (813)
                      .-..++.+++|+|++.++.|++++|+++.++++++|+|+|++|.+|||..||+|.|+|.+++.+++|++++.+++.+.|+
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             61877731343579838998469988773798545677566755346999965754204866336969999327514999
Q 003525           96 VNKVVRSNLRVRLGDVVSVHPCPDVKYGRRVHILPIDDTIEGVTGNLFDAYLKPYFMESYRPVRKGDLFLVRGGMRSVEF  175 (813)
Q Consensus        96 ~~~~~r~~~~~~~g~~v~v~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~g~~~~~~~~~~~~~f  175 (813)
                      |+..+|.|+|+.+||.|+|++++.++.+.+|++.|...+...+.+..+..+++.||....+|+..|+.|.+...++.+.|
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             999955895066579952985588875201-0124777744555819999999999875347924565409999913999
Q 003525          176 KVIETDPGEYCVVAPDTEIFCEGEPVKRED-EERLNEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILL  254 (813)
Q Consensus       176 ~v~~~~p~~~~~i~~~t~i~~~~~~~~~~~-~~~~~~~~~~~i~G~~~~~~~i~~~i~~~l~~~~~~~~l~i~~~~~iLL  254 (813)
                      +|++++|.++++++++|.|.+.+.+..... ....+.++|+||||++++++.|++++.+|+.+|++|..+++.+|+||||
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             ECCCCCCHHHHHHHHHHHHCCEEEEEECHHHHHHHCCHHHHHHHHHHHHHHHCCCCEEEECCCHHCCCCCCCCCHHHHHH
Q ss_conf             78999966999999999929908999342454310011299999999999953991898510000037777770368999
Q 003525          255 YGPPGSGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDELDSIAPKREKTHGEVERR  334 (813)
Q Consensus       255 ~GppGtGKTtLar~ia~~l~~~~i~i~~~~l~~~~~g~~~~~i~~vf~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~  334 (813)
                      |||||||||+|++++|++++.+++.++|+++.+++.|+++..++.+|+.|..+.|+||||||+|.++++++...++.+++
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             99999998622136881999995299999997866038741499817999889999999985179653201158887630
Q 003525          335 IVSQLLTLMDGLKSRAHVIVMGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLEILRIHTKNMKLAEDVDLERVAKDT  414 (813)
Q Consensus       335 i~~~Ll~~ld~~~~~~~vivi~atn~~~~ld~~l~r~~rf~~~i~i~~P~~~~R~~IL~~~~~~~~l~~~~~l~~la~~t  414 (813)
                      ++++|+++|+++..+.+|+||++||+++.||++++|+|||+++|+++.|+.++|.+||+.+++++++..++++..++..|
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             CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             79966899999999999978750223454100125876310012100010012467877653210135886422124540
Q 003525          415 HGYVGSDLAALCTEAALQCIREKMDVIDLEDETIDAEVLNSMAVTNEHFQTALGTSNPSALRETVVEVPNVSWEDIGGLD  494 (813)
Q Consensus       415 ~g~~~~dl~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~ps~~~~~~~~~~~~~~~~i~g~~  494 (813)
                      +||+++||..+|++|++.++++....++........+......++.+||..++..+.|+.+++..++.|+++|++|+|++
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             HHHHHHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCEEEEEECCCHHHHCCCCCHHHHHHHH
Q ss_conf             01211000024777793666520689984036566999972399999999808908998262100110154188899999
Q 003525          495 NVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIF  574 (813)
Q Consensus       495 ~~k~~l~~~i~~~~~~~~~~~~~~~~~~~gilL~GppGtGKT~lakala~~~~~~~i~v~~~~l~~~~vg~se~~i~~if  574 (813)
                      ++|+.|.+.+.||+++++.|.+++..+++|+|||||||||||++|+++|++++.+|+.+++++++++|+|+++++++.+|
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             HHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             99871999299992310332106998899983179999999998714689986899940689898994445989765543
Q 003525          575 DKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRPDIIDPALLRPGRLDQLI  654 (813)
Q Consensus       575 ~~a~~~~p~IlfiDEid~l~~~r~~~~~~~~~~~~~vl~~lL~~ld~~~~~~~v~vi~aTn~~~~ld~allr~gRfd~~i  654 (813)
                      +.|+...||||||||||++++.|+...++.++..+|++++||++|||+....+|+||+|||+|+.||||++||||||++|
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             CCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             45999899999999998312999984248999997489999999999999999999998788699998530697544435
Q 003525          655 YIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEKDIERERRKMENPEAMEED  734 (813)
Q Consensus       655 ~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~sg~di~~l~~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~  734 (813)
                      ||++||.++|.+||+.++++.++..++|+..+|+.|+||||+||.++|++|++.|+++.+................+...
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             CCCCCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC-----CCCCCCCC
Q ss_conf             6555320038899999965269999999999999999983013889754454210000159999778-----87889978
Q 003525          735 EVDDVDEIKAVHFEESMKYARRSVSDADIRKYQLFAQTLQQSRGFGSEFRFADRTESAAAGAADPFS-----SAAAADDD  809 (813)
Q Consensus       735 ~~~~~~~i~~~~f~~a~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~  809 (813)
                      ..+..+.|+++||++|++.++||++++++++|++|+++|+++|+|++ ++|+.++...+.....+-+     ....++++
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 003525          810 DLYN  813 (813)
Q Consensus       810 ~~~~  813 (813)
                      |||-
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=911.73  Aligned_cols=794  Identities=78%  Similarity=1.247  Sum_probs=705.0

Q ss_pred             CCCCCCCHHHHHCCCCCCEEEECCCCCCCCCEEEECHHHHHHCCCCCCCEEEEECCCCCEEEEEEEECCCCCCCEEEECH
Q ss_conf             88886434664026898648870345799729996998797629999997999617875089999806877789399618
Q 003525           19 SSKKDYSTAILDRKKSPNRLVVDEAINDDNSVITMHPNTMEKLQFFRGDTVLVKGKKRKDTVCVVLSDELCEASKVRVNK   98 (813)
Q Consensus        19 ~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~v~l~~~~~~~l~l~~g~~v~i~~~~~~~~~~~~~~~~~~~~~~i~~~~   98 (813)
                      .++.+++|+|+..++.|++++|+++.+++.++|+|+|++|.+|||..||+|.|+|++++.+++.+|+...++.+.|.|++
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             77731343579838998469988773798545677566755346999965754204866336969999327514999999
Q 003525           99 VVRSNLRVRLGDVVSVHPCPDVKYGRRVHILPIDDTIEGVTGNLFDAYLKPYFMESYRPVRKGDLFLVRGGMRSVEFKVI  178 (813)
Q Consensus        99 ~~r~~~~~~~g~~v~v~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~g~~~~~~~~~~~~~f~v~  178 (813)
                      .+|.|+|+.+||.|+|+++..++.+.+|++.|...++..+.+.++..+++++|....+|+.+|+.+.+..+++.+.|+|+
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             955895066579952985588875201-0124777744555819999999999875347924565409999913999789
Q 003525          179 ETDPGEYCVVAPDTEIFCEGEPVKRED-EERLNEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGP  257 (813)
Q Consensus       179 ~~~p~~~~~i~~~t~i~~~~~~~~~~~-~~~~~~~~~~~i~G~~~~~~~i~~~i~~~l~~~~~~~~l~i~~~~~iLL~Gp  257 (813)
                      +++|.+++++.++|.+.+.+.+..... .+..+.++|++|+|++++++.+++++.+++.+|++|.++++.++.++||+||
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             CCCCHHHHHHHHHHHHCCEEEEEECHHHHHHHCCHHHHHHHHHHHHHHHCCCCEEEECCCHHCCCCCCCCCHHHHHHHHH
Q ss_conf             99966999999999929908999342454310011299999999999953991898510000037777770368999999
Q 003525          258 PGSGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDELDSIAPKREKTHGEVERRIVS  337 (813)
Q Consensus       258 pGtGKTtLar~ia~~l~~~~i~i~~~~l~~~~~g~~~~~i~~vf~~a~~~~p~il~iDEid~l~~~~~~~~~~~~~~i~~  337 (813)
                      ||||||+++++++++++..++.++|.++.+.+.++.+..++.+|+.+..+.|+++|+||+|+++++++...++...++..
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             99998622136881999995299999997866038741499817999889999999985179653201158887630799
Q 003525          338 QLLTLMDGLKSRAHVIVMGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLEILRIHTKNMKLAEDVDLERVAKDTHGY  417 (813)
Q Consensus       338 ~Ll~~ld~~~~~~~vivi~atn~~~~ld~~l~r~~rf~~~i~i~~P~~~~R~~IL~~~~~~~~l~~~~~l~~la~~t~g~  417 (813)
                      +|++++++...+..++++++||+++.+++++++++||+..+.++.|+.++|.+|++.+.+.+.+..+.++..++..++||
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             CHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf             66899999999999978750223454100125876310012100010012467877653210135886422124540012
Q 003525          418 VGSDLAALCTEAALQCIREKMDVIDLEDETIDAEVLNSMAVTNEHFQTALGTSNPSALRETVVEVPNVSWEDIGGLDNVK  497 (813)
Q Consensus       418 ~~~dl~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~ps~~~~~~~~~~~~~~~~i~g~~~~k  497 (813)
                      +++++..++.++...++++...........+.........++..++..++....|+..++...+.+.+.|++++|++.+|
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             HHHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCEEEEEECCCHHHHCCCCCHHHHHHHHHHH
Q ss_conf             11000024777793666520689984036566999972399999999808908998262100110154188899999998
Q 003525          498 RELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVREIFDKA  577 (813)
Q Consensus       498 ~~l~~~i~~~~~~~~~~~~~~~~~~~gilL~GppGtGKT~lakala~~~~~~~i~v~~~~l~~~~vg~se~~i~~if~~a  577 (813)
                      +.|.+.+.++..+++.+..+++.++.++||+||||||||++|+++|++++.+|+.++++++.++|+|++++.++.+|+.+
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             HHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             71999299992310332106998899983179999999998714689986899940689898994445989765543459
Q 003525          578 RQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRPDIIDPALLRPGRLDQLIYIP  657 (813)
Q Consensus       578 ~~~~p~IlfiDEid~l~~~r~~~~~~~~~~~~~vl~~lL~~ld~~~~~~~v~vi~aTn~~~~ld~allr~gRfd~~i~~~  657 (813)
                      +...|||+||||||++...|+...++..+...+++++||++||++....+++||+|||+|+.||+|++|||||+..|+|+
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             99899999999998312999984248999997489999999999999999999998788699998530697544435655
Q 003525          658 LPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEKDIERERRKMENPEAMEEDEVD  737 (813)
Q Consensus       658 ~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~sg~di~~l~~~a~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  737 (813)
                      +|+.++|..||+.++++.++..++++..+++.+.||||+||.++|++|+..|+++.+...+............+.....+
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             CCCCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC-CCCCCCC-CCCC---CCCCCCCCCC
Q ss_conf             532003889999996526999999999999999998301388975445421000-0159999-7788---7889978767
Q 003525          738 DVDEIKAVHFEESMKYARRSVSDADIRKYQLFAQTLQQSRGFGSEFRFADRTES-AAAGAAD-PFSS---AAAADDDDLY  812 (813)
Q Consensus       738 ~~~~i~~~~f~~a~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~-~~~~---~~~~~~~~~~  812 (813)
                      ....|+++||+.|++.++|+++.+++++|++|.++|+++|++++ +.|.....- ..|+++. +=..   ..-++++|||
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 003525          813 N  813 (813)
Q Consensus       813 ~  813 (813)
                      +
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=522.27  Aligned_cols=482  Identities=78%  Similarity=1.265  Sum_probs=440.8

Q ss_pred             CCCCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCEEEECHHHHHHCCCCCCCEEEEECCCCCEEEEEEEECCCCCCCE
Q ss_conf             99999888864346640268986488703457997299969987976299999979996178750899998068777893
Q 003525           14 SSDPKSSKKDYSTAILDRKKSPNRLVVDEAINDDNSVITMHPNTMEKLQFFRGDTVLVKGKKRKDTVCVVLSDELCEASK   93 (813)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~~~p~~~~v~~~~~~~~~~v~l~~~~~~~l~l~~g~~v~i~~~~~~~~~~~~~~~~~~~~~~   93 (813)
                      +++..+++++++|+|++.++.||+|+|+++.++++++|||+|++|.+||+..||+|.|+|++++.+++|+|+...++.+.
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             99618777313435798389984699887737985456775667553469999657542048663369699993275149
Q 003525           94 VRVNKVVRSNLRVRLGDVVSVHPCPDVKYGRRVHILPIDDTIEGVTGNLFDAYLKPYFMESYRPVRKGDLFLVRGGMRSV  173 (813)
Q Consensus        94 i~~~~~~r~~~~~~~g~~v~v~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~v~~g~~~~~~~~~~~~  173 (813)
                      |+|+..+|.|+|+++||.|+|+++..++.+.+|++.|+...+.......++.+.+++.....+++..|+.+.+.+.++.+
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             99999955895066579952985588875201-01247777445558199999999998753479245654099999139
Q 003525          174 EFKVIETDPGEYCVVAPDTEIFCEGEPVKRED-EERLNEVGYDDVGGVRKQMAQIRELVELPLRHPQLFKSIGVKPPKGI  252 (813)
Q Consensus       174 ~f~v~~~~p~~~~~i~~~t~i~~~~~~~~~~~-~~~~~~~~~~~i~G~~~~~~~i~~~i~~~l~~~~~~~~l~i~~~~~i  252 (813)
                      .|+++..+|..++.++++|.+.+.+.+..... .+....++|++|+|++++++.+++++..++.+|++|..++..++.++
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             EEECCCCCCHHHHHHHHHHHHCCEEEEEECHHHHHHHCCHHHHHHHHHHHHHHHCCCCEEEECCCHHCCCCCCCCCHHHH
Q ss_conf             99789999669999999999299089993424543100112999999999999539918985100000377777703689
Q 003525          253 LLYGPPGSGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPSIIFIDELDSIAPKREKTHGEVE  332 (813)
Q Consensus       253 LL~GppGtGKTtLar~ia~~l~~~~i~i~~~~l~~~~~g~~~~~i~~vf~~a~~~~p~il~iDEid~l~~~~~~~~~~~~  332 (813)
                      ||+||||||||++++++++.++.+++.++|.++.+.+.|+....++.+|+.+....|++|||||+|.+.++++...++..
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             99999999986221368819999952999999978660387414998179998899999999851796532011588876
Q 003525          333 RRIVSQLLTLMDGLKSRAHVIVMGATNRPNSIDPALRRFGRFDREIDIGVPDEVGRLEILRIHTKNMKLAEDVDLERVAK  412 (813)
Q Consensus       333 ~~i~~~Ll~~ld~~~~~~~vivi~atn~~~~ld~~l~r~~rf~~~i~i~~P~~~~R~~IL~~~~~~~~l~~~~~l~~la~  412 (813)
                      .++..+|+..|++......+++|++||+++.+++++++++||+..++++.|+.++|.+||+.+++.+.+..+.++..++.
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             HCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             30799668999999999999787502234541001258763100121000100124678776532101358864221245
Q 003525          413 DTHGYVGSDLAALCTEAALQCIREKMDVIDLEDETIDAEVLNSMAVTNEHFQTALGTSNPSALRETVVEVPNVSWEDIGG  492 (813)
Q Consensus       413 ~t~g~~~~dl~~l~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~~al~~~~ps~~~~~~~~~~~~~~~~i~g  492 (813)
                      .++||+++|+..+|++|.+.++++....++.+.............++.+||..+++.+.|+.+++..++.|+++|+||||
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             400
Q 003525          493 LDN  495 (813)
Q Consensus       493 ~~~  495 (813)
                      ..+
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=451.19  Aligned_cols=275  Identities=39%  Similarity=0.690  Sum_probs=252.8

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCE
Q ss_conf             78776532101358864221245400121100002477779366652068998403656699997239999999980890
Q 003525          470 SNPSALRETVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQAN  549 (813)
Q Consensus       470 ~~ps~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~i~~~~~~~~~~~~~~~~~~~gilL~GppGtGKT~lakala~~~~~~  549 (813)
                      ..|........+.|+++|+||+|++++|+.|++.+.+|+.+|+.|.++|+.+++|+|||||||||||++|+++|++++.+
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             EEEEECCCHHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEE
Q ss_conf             89982621001101541888999999987199929999231033210699889998317999999999871468998689
Q 003525          550 FISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVF  629 (813)
Q Consensus       550 ~i~v~~~~l~~~~vg~se~~i~~if~~a~~~~p~IlfiDEid~l~~~r~~~~~~~~~~~~~vl~~lL~~ld~~~~~~~v~  629 (813)
                      |+.++++++.++|+|++++.++.+|..|+..+||||||||+|++++.|+...++......+++++||++|||+....+|+
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             EEECCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHH
Q ss_conf             99406898989944459897655434599989999999999831299998424899999748999999999999999999
Q 003525          630 IIGATNRPDIIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYA  709 (813)
Q Consensus       630 vi~aTn~~~~ld~allr~gRfd~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~sg~di~~l~~~a~~~a  709 (813)
                      ||+|||+|+.||||++||||||++|+|++||.++|.+||+.+++++++..++|+..+|+.|+|||||||.++|++|++.|
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             999878869999853069754443565553200388999999652699999999999999
Q 003525          710 IRENIEKDIERERRKMENPEAMEEDEVDDVDEIKAVHFEESMKYARRSVSDADIRKYQLF  769 (813)
Q Consensus       710 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~a~~~~~~~~~~~~~~~y~~~  769 (813)
                      +++.                         ...|+++||+.|+.++.++.....+..++.|
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=436.56  Aligned_cols=262  Identities=36%  Similarity=0.657  Sum_probs=245.6

Q ss_pred             CCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCEEEEEECC
Q ss_conf             21013588642212454001211000024777793666520689984036566999972399999999808908998262
Q 003525          477 ETVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGP  556 (813)
Q Consensus       477 ~~~~~~~~~~~~~i~g~~~~k~~l~~~i~~~~~~~~~~~~~~~~~~~gilL~GppGtGKT~lakala~~~~~~~i~v~~~  556 (813)
                      ....+.|+++|+||+|++++|+.|++.+.+|+.+++.|..+|..+++|+|||||||||||++|+++|++++.+|+.++++
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             CHHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCCC
Q ss_conf             10011015418889999999871999299992310332106998899983179999999998714689986899940689
Q 003525          557 ELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNR  636 (813)
Q Consensus       557 ~l~~~~vg~se~~i~~if~~a~~~~p~IlfiDEid~l~~~r~~~~~~~~~~~~~vl~~lL~~ld~~~~~~~v~vi~aTn~  636 (813)
                      ++.++|+|++++.++.+|..|+..+||||||||+|++++.|..+..+......+++++||++||++....+++||+|||+
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             CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             89899444598976554345999899999999998312999984248999997489999999999999999999998788
Q 003525          637 PDIIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEK  716 (813)
Q Consensus       637 ~~~ld~allr~gRfd~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~sg~di~~l~~~a~~~a~~~~~~~  716 (813)
                      |+.||||++||||||++|+|++||.++|.+||+.+++++++..+++++.+|+.|+|||||||.++|++|++.|+++.   
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             69999853069754443565553200388999999652699999999
Q 003525          717 DIERERRKMENPEAMEEDEVDDVDEIKAVHFEESMKYARRSVSDADI  763 (813)
Q Consensus       717 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~a~~~~~~~~~~~~~  763 (813)
                                            ...|+++||+.|++.+.++.+.+++
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=433.72  Aligned_cols=273  Identities=41%  Similarity=0.681  Sum_probs=252.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCEE
Q ss_conf             87765321013588642212454001211000024777793666520689984036566999972399999999808908
Q 003525          471 NPSALRETVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANF  550 (813)
Q Consensus       471 ~ps~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~i~~~~~~~~~~~~~~~~~~~gilL~GppGtGKT~lakala~~~~~~~  550 (813)
                      .|........+.|+++|+||+|++++|+.|.+.+.+|+.+++.|..+|+.+++|+|||||||||||++|+++|++++.+|
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             EEEECCCHHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEE
Q ss_conf             99826210011015418889999999871999299992310332106998899983179999999998714689986899
Q 003525          551 ISVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFI  630 (813)
Q Consensus       551 i~v~~~~l~~~~vg~se~~i~~if~~a~~~~p~IlfiDEid~l~~~r~~~~~~~~~~~~~vl~~lL~~ld~~~~~~~v~v  630 (813)
                      +.++++++.++|+|++++.++.+|..|+...||||||||+|+++++|............+++++||++|||+....+++|
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             EECCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             94068989899444598976554345999899999999998312999984248999997489999999999999999999
Q 003525          631 IGATNRPDIIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAI  710 (813)
Q Consensus       631 i~aTn~~~~ld~allr~gRfd~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~sg~di~~l~~~a~~~a~  710 (813)
                      |+|||+|+.||||++||||||++|+|++||.++|.+||+.+++++++..++|+..+|+.|.||||+||.++|++|++.|+
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             9987886999985306975444356555320038899999965269999999999999
Q 003525          711 RENIEKDIERERRKMENPEAMEEDEVDDVDEIKAVHFEESMKYARRSVSDADIRKYQL  768 (813)
Q Consensus       711 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~a~~~~~~~~~~~~~~~y~~  768 (813)
                      ++.                         ...|+.+||..|+.++.++...+....|++
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=429.36  Aligned_cols=266  Identities=34%  Similarity=0.658  Sum_probs=245.5

Q ss_pred             CCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCEEEEEECCCH
Q ss_conf             01358864221245400121100002477779366652068998403656699997239999999980890899826210
Q 003525          479 VVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPEL  558 (813)
Q Consensus       479 ~~~~~~~~~~~i~g~~~~k~~l~~~i~~~~~~~~~~~~~~~~~~~gilL~GppGtGKT~lakala~~~~~~~i~v~~~~l  558 (813)
                      ..+.|+++|+||+|++++|+.|++.+.+|+.+++.|..+|+.+++|+|||||||||||++|+++|++++.+|+.++++++
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             HHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCC
Q ss_conf             01101541888999999987199929999231033210699889998317999999999871468998689994068989
Q 003525          559 LTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRPD  638 (813)
Q Consensus       559 ~~~~vg~se~~i~~if~~a~~~~p~IlfiDEid~l~~~r~~~~~~~~~~~~~vl~~lL~~ld~~~~~~~v~vi~aTn~~~  638 (813)
                      .++|+|++++.++.+|..|+..+||||||||+|+++..|+....+......++++++|++||++....+|+||+|||+|+
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             CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             89944459897655434599989999999999831299998424899999748999999999999999999999878869
Q 003525          639 IIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEKDI  718 (813)
Q Consensus       639 ~ld~allr~gRfd~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~sg~di~~l~~~a~~~a~~~~~~~~~  718 (813)
                      .||||++||||||++|+|++||.++|.+||+.+++++++..++++..+|+.|.|||||||.++|++|++.|+++.     
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             99985306975444356555320038899999965269999-9999999999
Q 003525          719 ERERRKMENPEAMEEDEVDDVDEIKAVHFEESMKYARRSVS-DADIRKYQLF  769 (813)
Q Consensus       719 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~a~~~~~~~~~-~~~~~~y~~~  769 (813)
                                          ...|+++||+.|+.++.++.. .....+|.+|
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=428.71  Aligned_cols=264  Identities=38%  Similarity=0.642  Sum_probs=245.6

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCEEE
Q ss_conf             77653210135886422124540012110000247777936665206899840365669999723999999998089089
Q 003525          472 PSALRETVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFI  551 (813)
Q Consensus       472 ps~~~~~~~~~~~~~~~~i~g~~~~k~~l~~~i~~~~~~~~~~~~~~~~~~~gilL~GppGtGKT~lakala~~~~~~~i  551 (813)
                      |........+.|+++|+||+|++++|+.|.+.+.+|+.+++.|.++|..+++|+|||||||||||++|+++|++++.+|+
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             EEECCCHHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEE
Q ss_conf             98262100110154188899999998719992999923103321069988999831799999999987146899868999
Q 003525          552 SVKGPELLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFII  631 (813)
Q Consensus       552 ~v~~~~l~~~~vg~se~~i~~if~~a~~~~p~IlfiDEid~l~~~r~~~~~~~~~~~~~vl~~lL~~ld~~~~~~~v~vi  631 (813)
                      .++++++.++|+|++++.++.+|..|+...||||||||+|++++.|..+..+......+++++||++|||+....+|+||
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             ECCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf             40689898994445989765543459998999999999983129999842489999974899999999999999999999
Q 003525          632 GATNRPDIIDPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIR  711 (813)
Q Consensus       632 ~aTn~~~~ld~allr~gRfd~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~sg~di~~l~~~a~~~a~~  711 (813)
                      ||||+|+.||||++||||||++|+|++||.++|.+||+.+++++++..++++..+|+.|.|||||||.++|++|++.|++
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             9878869999853069754443565553200388999999652699999
Q 003525          712 ENIEKDIERERRKMENPEAMEEDEVDDVDEIKAVHFEESMKYARRSVSD  760 (813)
Q Consensus       712 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~a~~~~~~~~~~  760 (813)
                      +.                         ...|+++||..|+.+++|+.+.
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=426.62  Aligned_cols=264  Identities=41%  Similarity=0.669  Sum_probs=246.2

Q ss_pred             CCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCEEEEEECCC
Q ss_conf             10135886422124540012110000247777936665206899840365669999723999999998089089982621
Q 003525          478 TVVEVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPE  557 (813)
Q Consensus       478 ~~~~~~~~~~~~i~g~~~~k~~l~~~i~~~~~~~~~~~~~~~~~~~gilL~GppGtGKT~lakala~~~~~~~i~v~~~~  557 (813)
                      ...+.|+++|+||||++++|+.|.+.+.+|+.+++.|..+|+.+++|+|||||||||||++|+++|++++.+|+.+++++
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             HHHHCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCCCC
Q ss_conf             00110154188899999998719992999923103321069988999831799999999987146899868999406898
Q 003525          558 LLTMWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRP  637 (813)
Q Consensus       558 l~~~~vg~se~~i~~if~~a~~~~p~IlfiDEid~l~~~r~~~~~~~~~~~~~vl~~lL~~ld~~~~~~~v~vi~aTn~~  637 (813)
                      +.++|+|++++.++.+|..|+..+|||+||||+|+++..|.....+......+++++||++|||+....+++||+|||+|
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             CCCCCCCCCCCCCCCCCCCC-CCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             98994445989765543459-99899999999998312999984248999997489999999999999999999998788
Q 003525          638 DIIDPALLRPGRLDQLIYIP-LPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEK  716 (813)
Q Consensus       638 ~~ld~allr~gRfd~~i~~~-~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~sg~di~~l~~~a~~~a~~~~~~~  716 (813)
                      +.||||++||||||+.|+|| +|+.++|..||+.+++++++..++++..+|..|.|||||||.++|++|++.|+++.   
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             6999985306975444356555320038899999965-2699999999999
Q 003525          717 DIERERRKMENPEAMEEDEVDDVDEIKAVHFEESMKY-ARRSVSDADIRKY  766 (813)
Q Consensus       717 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~f~~a~~~-~~~~~~~~~~~~y  766 (813)
                                            ...|+++||+.|+.. ++++.+.+++++|
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=390.69  Aligned_cols=294  Identities=37%  Similarity=0.646  Sum_probs=255.9

Q ss_pred             CCCCCCCCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCEEEEEECCCHHH
Q ss_conf             35886422124540012110000247777936665206899840365669999723999999998089089982621001
Q 003525          481 EVPNVSWEDIGGLDNVKRELQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLT  560 (813)
Q Consensus       481 ~~~~~~~~~i~g~~~~k~~l~~~i~~~~~~~~~~~~~~~~~~~gilL~GppGtGKT~lakala~~~~~~~i~v~~~~l~~  560 (813)
                      ..+.++|+||+|++++++.|++.+.+|+.+++.|..++..+++|+|||||||||||++|+++|++++.+|+.++++++.+
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             HCCCCCHHHHHHHHHHHHHCCCEEEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCCCC
Q ss_conf             10154188899999998719992999923103321069988999831799999999987146899868999406898989
Q 003525          561 MWFGESEANVREIFDKARQSAPCVLFFDELDSIATQRGSSTGDAGGAADRVLNQLLTEMDGMNAKKTVFIIGATNRPDII  640 (813)
Q Consensus       561 ~~vg~se~~i~~if~~a~~~~p~IlfiDEid~l~~~r~~~~~~~~~~~~~vl~~lL~~ld~~~~~~~v~vi~aTn~~~~l  640 (813)
                      +|+|++++.++.+|+.|+...||||||||||++++.|+...   +....+++++||++||++....+|+||+|||+|+.|
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             CCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             94445989765543459998999999999983129999842489999974899999999999999999999987886999
Q 003525          641 DPALLRPGRLDQLIYIPLPDEASRLQIFKACLRKSPISPDVDLSALARYTHGFSGADITEVCQRACKYAIRENIEKDIER  720 (813)
Q Consensus       641 d~allr~gRfd~~i~~~~p~~~~r~~Il~~~~~~~~~~~~~~~~~la~~~~g~sg~di~~l~~~a~~~a~~~~~~~~~~~  720 (813)
                      |++++|||||++.|++++||.++|.+||+.+++++++..++++..+|..|.||+|+||.++|++|++.|+++....... 
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-----------CCHHHHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf             9853069754443565553200388999999652699-----------999999999999999830138897544542
Q 003525          721 ERRKMENPEAMEEDEVDDVDEIKAVHFEESMKYARRS-----------VSDADIRKYQLFAQTLQQSRGFGSEFRFAD  787 (813)
Q Consensus       721 ~~~~~~~~~~~~~~~~~~~~~i~~~~f~~a~~~~~~~-----------~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~  787 (813)
                           . ... ..........|+++||..|+..++|+           ++.+++--++...+.+...-.|  ++++++
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 -----E-DET-IDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQY--PVEHPD  501 (806)
T ss_dssp             -----T-CCC-CSHHHHHHCEECTTHHHHHHSSSSCCCCCCCCCBCCCCCSTTCCSCHHHHHHHTTTTTT--TTTCSG
T ss_pred             -----C-CCC-CCHHHHCCCEEEHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHCCHHHHHHHHHHHHHH--HHHCHH
T ss_conf             -----0-133-20455225565199999999728783112344457887888817889999999999975--666899


Done!