Query 003583
Match_columns 809
No_of_seqs 364 out of 2384
Neff 7.7
Searched_HMMs 29240
Date Tue Mar 26 17:45:31 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/003583.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1633-1637//hhsearch_pdb/003583hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3ihp_A Ubiquitin carboxyl-term 1.0 1 1 1457.8 62.4 795 6-809 27-854 (854)
2 3mhs_A Ubiquitin carboxyl-term 1.0 1 1 634.7 28.9 402 180-808 47-474 (476)
3 2y6e_A Ubiquitin carboxyl-term 1.0 1 1 501.5 31.3 318 306-808 3-359 (367)
4 2gfo_A Ubiquitin carboxyl-term 1.0 1 1 497.7 28.1 305 302-808 50-396 (396)
5 2ayn_A Ubiquitin carboxyl-term 1.0 1 1 482.2 20.7 344 308-808 11-394 (404)
6 3i3t_A Ubiquitin carboxyl-term 1.0 1 1 479.6 26.4 300 309-809 1-352 (355)
7 3nhe_A Ubiquitin carboxyl-term 1.0 1 1 479.5 29.6 303 305-809 3-344 (348)
8 1vjv_A Ubiquitin carboxyl-term 1.0 1 1 474.8 24.6 364 306-808 19-414 (415)
9 1nb8_A Ubiquitin carboxyl-term 1.0 1 1 458.2 27.2 288 308-808 3-315 (353)
10 2f1z_A Ubiquitin carboxyl-term 1.0 1 1 454.7 26.9 291 305-808 169-484 (522)
No 1
>3ihp_A Ubiquitin carboxyl-terminal hydrolase 5; hydrolase, protease, thiol protease, UBL conjugation pathway, metal-binding, zinc-finger,structural genomics; 2.80A {Homo sapiens}
Probab=1.00 E-value=1 Score=1457.84 Aligned_cols=795 Identities=51% Similarity=0.908 Sum_probs=713.4
Q ss_pred HHHHHCCCCCCCCCCCCEECCCCCEECCCCCCCCCCEEECCCCCCCCCCHHHHHHHCCCCCEEEEEEEEEECCCCC----
Q ss_conf 1464308667899899210444410023478999718835674123800376653005991899999898427999----
Q 003583 6 LLRSNLSRVRIPEPTNRIFKQECCVSFDTPRSEGGLFVDLNSFLAYGKDHVGWNFEKTGNPVYLHIKQTRKLVAPE---- 81 (809)
Q Consensus 6 ~~~~~~~~~~~p~~~~~v~k~eC~~~f~~~~~~~gl~vcl~~f~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---- 81 (809)
++++|++.+++|+++++||||||+||||||++++||||||.||+|||++|+.+|+++|+|++||||||++|+++++
T Consensus 27 ~~~~~~~~~~~p~~~~~v~k~eC~~~f~~~~~~~gl~vcl~~f~~~~~~~~~~~~~~~~~~~~l~i~~~~~~~~~~~~~~ 106 (854)
T 3ihp_A 27 ALLSVLPTIRVPKAGDRVHKDECAFSFDTPESEGGLYICMNTFLGFGKQYVERHFNKTGQRVYLHLRRTRRPKEEDPATG 106 (854)
T ss_dssp HHHHTGGGCCCCCTTCCCCCSSCSSSSCCTTSTTCEEEETTTCCEECTTTHHHHHHHHCCCEEEEEEEC-----------
T ss_pred HHHHHHCCCCCCCCCCCEECCCCCEECCCCCCCCCEEECCCCCCCCCHHHHHHHHHCCCCCEEEEEEEEECCCCCCCCCC
T ss_conf 78886167758899984840427141378999997487101144306899999874328806999999962564222334
Q ss_pred --CCCCCCCCEEEEECCCCCCCCCCCCE--EEEEEEEECCCCCCCCCC-CCCCHH----HHHHHHHHHHCCCHHHHHHHH
Q ss_conf --99999984135200489999955720--368999914873225899-999688----999999999214833799887
Q 003583 82 --DRPSKKPTLLAIGVEGGFDNNEAEYD--ETHSIVILPEYVTLSYPS-VELPEK----VRLAVDAILMAEGAERKEQVA 152 (809)
Q Consensus 82 --~~~~~~~~kl~i~~~~g~~~~~~~y~--~~~~~~~~~~~~~~~~~~-~~~~~~----~~~~~~~i~~~~~~~~~~~~~ 152 (809)
++|++||||||||+||||+.++++|+ ++|+|||+|+...|++++ +++|+. +..+|++||+|.|++++++++
T Consensus 107 ~~~~~~~~~~kl~i~~~~g~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~ 186 (854)
T 3ihp_A 107 TGDPPRKKPTRLAIGVEGGFDLSEEKFELDEDVKIVILPDYLEIARDGLGGLPDIVRDRVTSAVEALLSADSASRKQEVQ 186 (854)
T ss_dssp -----------------------------CEEEEEEETTTTEEECTTCCTTSCHHHHHHHHHHHHHHTC-----------
T ss_pred CCCCCCCCCCEEEEEECCCCCCCCCCEEEEEEEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf 46677667633678611477665454046645899991487612578734487366799999999998558888999998
Q ss_pred HHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCEEEE
Q ss_conf 62416899882310111347875469887643334878972775103840235876799999826765761029608996
Q 003583 153 AWTADKKQTSAYAMNLQQIDNGVIIPPSGWKCAKCDKRDNLWLNLTDGMILCGRRNWDGTGGNNHAVEHYKETGYPLAVK 232 (809)
Q Consensus 153 ~w~~~~~~~c~h~~~l~q~~~~~~~~~~~~~C~~C~~~~~lw~Cl~Cg~~~Cgr~~~~g~~gn~ha~~H~~~~~H~~~v~ 232 (809)
+|+++++++|+|+.++.|++++..+++++|+|+.|+...|+|+||+||+|||||++|+|+|||+||+.||++++|+++++
T Consensus 187 ~w~~~~~~~c~h~~~~~~~~~~~~~~~~~~~C~~c~~~~~lw~CL~Cg~vgC~r~~~~~~~~~~ha~~H~~~~~H~~~~~ 266 (854)
T 3ihp_A 187 AWDGEVRQVSKHAFSLKQLDNPARIPPCGWKCSKCDMRENLWLNLTDGSILCGRRYFDGSGGNNHAVEHYRETGYPLAVK 266 (854)
T ss_dssp -----CCCBCTTTTTCCCCSSCCCCCSSCCCCSSSCCCSSEEEETTTCCEEECCBC-CCCBCCSHHHHHHHHHCCCEEEE
T ss_pred HHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCEEEE
T ss_conf 64276688773816121035556679889937676896866897127986615130478887538999876118757998
Q ss_pred ECCCCCCCCCCEEEECCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHCCCCC-CCCCCCCCCCCCCCCCCCCC
Q ss_conf 07424688874799466897645046999987426655554223220233432002444-53321347875455558964
Q 003583 233 LGTITSDLEGADVFSYPEDDSVVDPLLAQHLAFFGIDFSSLQKTEMTTAERELDQNTNF-DWNRIQESGQDVEPLFGPGY 311 (809)
Q Consensus 233 lgtit~~~~~~~v~cy~cd~~v~d~~l~~~L~~~gi~~~~~~kteks~~el~~~~n~~~-e~~~~~e~g~~l~p~~g~g~ 311 (809)
|+||||+ .++||||.||++|.||.|++||++|||++..+.||+|++.++++++|.+| +|++++++|..+.|.++||+
T Consensus 267 l~t~~~~--~~~~~cy~~~~~v~~~~l~~~l~~~gi~~~~~~kt~k~~~el~~~~n~~~g~~~~~~~~g~~l~p~~~~G~ 344 (854)
T 3ihp_A 267 LGTITPD--GADVYSYDEDDMVLDPSLAEHLSHFGIDMLKMQKTDKTMTELEIDMNQRIGEWELIQESGVPLKPLFGPGY 344 (854)
T ss_dssp TTCCBTT--BCCEEETTTTEECBCTTHHHHHHHTTCCC-----------------------------------CCCSTTC
T ss_pred CCCCCCC--CCEEEECCCCCEEECCCHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHCCCCCCCCCCCCCCC
T ss_conf 5776777--77089816787334752788998737222444455012101003322220013331335762354567886
Q ss_pred CCCCCCCCHHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCC
Q ss_conf 44345898045889999974427799998147820221003999998638999999999981399889713455542025
Q 003583 312 TGLVNLGNSCYLAATMQVMFSTHAFCTRYYTQEPLKAAFEAAPADPTVDLNMQLTKLAHGLLSGKYSVPAQEKDAAANAA 391 (809)
Q Consensus 312 ~GL~NLGNTCYmNSvLQ~L~~ip~f~~~~l~~~~~~~~~~~~~~~~~~~l~~qL~kL~~~l~sg~ys~~~~~~~~~~~~~ 391 (809)
+||.|+|||||||||||+|+++|+|+++|+... ...+......+..++.++|++|+.+|++++|+.+......... .
T Consensus 345 ~GL~NlGNTCYmNSvLQ~L~~~p~fr~~ll~~~--~~~~~~~~~~~~~~l~~~l~~L~~~L~s~~~s~~~~~~~~~~~-~ 421 (854)
T 3ihp_A 345 TGIRNLGNSCYLNSVVQVLFSIPDFQRKYVDKL--EKIFQNAPTDPTQDFSTQVAKLGHGLLSGEYSKPVPESGDGER-V 421 (854)
T ss_dssp CCBCCCSSCHHHHHHHHHHTTSHHHHHHHTTTH--HHHHHHCCSCGGGCHHHHHHHHHHHHHSCC---------------
T ss_pred CCEEECCCCEEHHHHHHHHHCCHHHHHHHHHHH--HHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCC-C
T ss_conf 551766776203379999857299999998543--4430256678541188999999998745664544421122223-3
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEEEEEE-CCCCEEEE
Q ss_conf 56799878889277999998009888876657789999999999998807999999857501089789981-69987531
Q 003583 392 TTTDTKQEGIPPRMFKAVIAASHPEFSSMRQQDALEFFLHFVDQVERVHSGKPEVDPTKSFKFGIEERISC-PSGKVAYN 470 (809)
Q Consensus 392 ~~~~~~~~~I~P~~l~~~i~~~~~~F~~~~QQDA~EFl~~LLd~L~~~~~~~~~~~i~~~F~~~l~~~i~C-~C~~v~~~ 470 (809)
......+.+|+|..|+.++++.++.|.+++||||+|||.+||+.|+++.+. ...+.++|+|.++++++| .|++++++
T Consensus 422 ~~~~~~~~~isP~~f~~~l~~~~~~F~~~~QQDA~EFl~~LLd~L~~el~~--~s~i~~lF~G~l~s~i~C~~C~~vs~t 499 (854)
T 3ihp_A 422 PEQKEVQDGIAPRMFKALIGKGHPEFSTNRQQDAQEFFLHLINMVERNCRS--SENPNEVFRFLVEEKIKCLATEKVKYT 499 (854)
T ss_dssp -------CCBCCHHHHHHHTTTCTTTTSSSCCBHHHHHHHHHHHHHHTCTT--SCCGGGGTCEEEEEEEEETTTTEEEEE
T ss_pred CCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCC--CCCCHHHCCCEEEEEEEECCCCCEEEE
T ss_conf 333467775481999999864033112144337899999999999987365--688222107358899996489977677
Q ss_pred EECCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf 10572465115785334668999999877755206987784333688746999985213984468511787887453468
Q 003583 471 RRLDYILSLGIPLDEATNKEELAAFQKLKMERISEGKDVTNEEIVRPRVPLEACLSTFSAPEELPDFYSTALKAKTTATK 550 (809)
Q Consensus 471 ~e~~~~LsL~ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~sL~~cL~~~~~~E~ie~~~C~~C~~~~~a~k 550 (809)
.++|++|+|+||.....+..++..|+.++......|.+.+ +.+++.++|++||+.|+.+|.|++|+|++|+.++.|+|
T Consensus 500 ~e~F~~LsL~Ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~--~~~~~~~sL~dcL~~f~~~E~Le~y~C~~C~~k~~a~K 577 (854)
T 3ihp_A 500 QRVDYIMQLPVPMDAALNKEELLEYEEKKRQAEEEKMALP--ELVRAQVPFSSCLEAYGAPEQVDDFWSTALQAKSVAVK 577 (854)
T ss_dssp EEEESEEEECCCGGGCTTHHHHHHHHHHHHHHHHTTCCCC--CCCCEECCHHHHHHHHHSCEEEEEEEETTTTEEEEEEE
T ss_pred EEECEEEEEECCCCCCCCCCCHHHHCCCCCCCCCCCCCCC--CCCCCCCCHHHHHHHHCCCEEEEEEECCCCCCCCEEEE
T ss_conf 6306478845786323442100010011110002355443--24567777999999855840753310355687300538
Q ss_pred EEECCCCCCEEEEEEEEEEECCCCEEEECEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCHHHHH
Q ss_conf 74033467515999866898159413303033227873026534478999998779999999854--6899788677899
Q 003583 551 SAGLTSFPDYLVLHMRKFVMEAGWVPKKLDVYIDVPDIIDISHMRSKGLQPGEELLPEGGPEDEV--QSNKPVANKDIVS 628 (809)
Q Consensus 551 ~~~i~~lP~vLiI~LkRF~~~~~~~~~Ki~~~V~fP~~LdL~~y~~~~~~~~e~~l~~~~~~~~~--~~~~~~~~~~~~~ 628 (809)
+.+|.+||+||+||||||.++.+|.++|+++.|.||+.|||++|++.+.+++|+++|+..+.... ....+.+|+++++
T Consensus 578 ~~~i~~lP~vLiihLkRF~~d~~~~~~Ki~~~V~FP~~LDl~~y~~~~~q~~E~~lp~~~~~~~~~~~~~~~~~d~~~l~ 657 (854)
T 3ihp_A 578 TTRFASFPDYLVIQIKKFTFGLDWVPKKLDVSIEMPEELDISQLRGTGLQPGEEELPDIAPPLVTPDEPKAPMLDESVII 657 (854)
T ss_dssp EEEESSCCSEEEEEECCEEECGGGCEEECCEECCCCSEEECGGGBCCCSCTTCCBCCCC----------------CHHHH
T ss_pred EEEEEECCCEEEEEEEHHEECCCCCEEECCEEEECCCCEEHHHHCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCHHHHH
T ss_conf 88821289667999453135677732778869856880706885067889872121335665556554456676889999
Q ss_pred HHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCC------C---CCCCCHHHHHHHHCCCCCHHHH
Q ss_conf 999469995798899988089558999998650399999899996332------2---3458902244451379999999
Q 003583 629 QLVSMGFNHLHCEKAAVNTSNAGVEEAMNWLLSHMDDPDIDMPLSQET------Q---CAAIDQSKVETLLSFGFSEEVA 699 (809)
Q Consensus 629 ~l~~mgf~~~~~~~a~~~t~n~~~e~a~~wl~~h~ddpd~~~p~~~~~------~---~~~~~~~~i~~l~~mgf~~~~a 699 (809)
+|++|||++++|+||+++|+|+++|+||||+|+|||||||++|+.... . ...++++.+++|.+|||+..+|
T Consensus 658 ~L~~mGf~~~~~~kal~~t~n~~~e~a~~wl~~hmdd~di~~p~~~~~~~~~~s~~~~~~~~~~e~i~~l~~mGf~~~~a 737 (854)
T 3ihp_A 658 QLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILPGSSGPGSTSAAADPPPEDCVTTIVSMGFSRDQA 737 (854)
T ss_dssp HHHHHTCCHHHHHHHHHHTTSCCHHHHHHHHHHHTTSCGGGSCCCCC--------------CCHHHHHHHHTTTCCHHHH
T ss_pred HHHHCCCCHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHH
T ss_conf 99864897788888886317985677767776416763324655566666666655556889989999999828878899
Q ss_pred HHHHHHCCCCHHHHCCCCCCCCCCCCC---CCCCCCCCC----CCCCCCCCCCCCCCCEEEEEEEEEEECCCCCCCEEEE
Q ss_conf 999997089733201100039998887---654324678----8789999999999930999998864246788647999
Q 003583 700 RNALKASGGDIEKATDWIFNNPDASTS---SDMDAATSS----TAQTPADAGLPDGGGKYRLFGIVSHIGTSTQCGHYVA 772 (809)
Q Consensus 700 ~~aL~~~~~~~~~a~dwlfs~~dd~~~---~~~~~~~~~----~~~~~~~~~~~~~~~~Y~L~avI~H~G~s~~sGHYva 772 (809)
++||++++||++||+||+|+|+|+.+. .+.+..... ..........++++++|+|+|||+|+|.++++|||||
T Consensus 738 ~~aL~~t~~~~eraidwlfs~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~L~avi~H~G~~~~~GHY~~ 817 (854)
T 3ihp_A 738 LKALRATNNSLERAVDWIFSHIDDLDAEAAMDISEGRSAADSISESVPVGPKVRDGPGKYQLFAFISHMGTSTMCGHYVC 817 (854)
T ss_dssp HHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCC------------------CCCCCCCSEEEEEEEEEEESSCSSCCEEEE
T ss_pred HHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEECCCCCCCCEEE
T ss_conf 99998605738777776406844334321001222233456543445555788889845999999996448999728299
Q ss_pred EEEECCCEEEEECCEEECCCCCCCCCEEEEEEEECCC
Q ss_conf 9954791899828611003589997407999984489
Q 003583 773 HILKDGRWAIFNDNKVGASVDPPKEMGYLYFFERLNS 809 (809)
Q Consensus 773 ~ikk~~~W~~fND~kV~~~~~~~~~~~Yiy~Y~R~~~ 809 (809)
|||++++||+|||++|+.+++++++.||||||+|++|
T Consensus 818 ~~~~~~~W~~~nD~~V~~~~~~~~~~aYilfY~R~~s 854 (854)
T 3ihp_A 818 HIKKEGRWVIYNDQKVCASEKPPKDLGYIYFYQRVAS 854 (854)
T ss_dssp EEEETTEEEEEETTEEEECSSCCTTSCSEEEEEECC-
T ss_pred EEEECCEEEEEECCEEEECCCCCCCCCEEEEEEECCC
T ss_conf 9975998999977715871466778516999995689
No 2
>3mhs_A Ubiquitin carboxyl-terminal hydrolase 8; multi-protein complex, hydrolase-transcription regulator-Pro binding complex, acetylation, cytoplasm; 1.89A {Saccharomyces cerevisiae} PDB: 3mhh_A 4fjc_A 4fk5_A 4fip_A 3m99_A
Probab=1.00 E-value=1 Score=634.66 Aligned_cols=402 Identities=22% Similarity=0.338 Sum_probs=322.5
Q ss_pred CCCCCCCCCCC--CCEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCEEEEECCCCCCCCCCEEEECCCCCCCCCH
Q ss_conf 87643334878--9727751038402358767999998267657610296089960742468887479946689764504
Q 003583 180 SGWKCAKCDKR--DNLWLNLTDGMILCGRRNWDGTGGNNHAVEHYKETGYPLAVKLGTITSDLEGADVFSYPEDDSVVDP 257 (809)
Q Consensus 180 ~~~~C~~C~~~--~~lw~Cl~Cg~~~Cgr~~~~g~~gn~ha~~H~~~~~H~~~v~lgtit~~~~~~~v~cy~cd~~v~d~ 257 (809)
..++|+.|... .++|+||+||++|||+ ++||+.|+.+++|++++.+ .++++|||.||++|.||
T Consensus 47 ~~~~C~~c~~~~~~~~~~cl~cg~~~c~~--------~~h~~~H~~~~~h~~~~~~-------~~~~~~c~~~~~~v~d~ 111 (476)
T 3mhs_A 47 NTMKCGTCHEINSGATFMCLQCGFCGCWN--------HSHFLSHSKQIGHIFGINS-------NNGLLFCFKCEDYIGNI 111 (476)
T ss_dssp HHSBCTTTCCBCSSSEEEESSSSCEEETT--------TTHHHHHHHHHCCCEEEET-------TTCCEEETTTTEEECSC
T ss_pred CCCCCCCCCCCCCCCCEEECCCCCCCCCC--------CHHHHHHHCCCCCCEEEEC-------CCCCEEECCCCCCCCCH
T ss_conf 79974436677999866958799875698--------3099998530499689977-------99938868988783467
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHCHHHHH
Q ss_conf 69999874266555542232202334320024445332134787545555896444345898045889999974427799
Q 003583 258 LLAQHLAFFGIDFSSLQKTEMTTAERELDQNTNFDWNRIQESGQDVEPLFGPGYTGLVNLGNSCYLAATMQVMFSTHAFC 337 (809)
Q Consensus 258 ~l~~~L~~~gi~~~~~~kteks~~el~~~~n~~~e~~~~~e~g~~l~p~~g~g~~GL~NLGNTCYmNSvLQ~L~~ip~f~ 337 (809)
.|.++... +..| ..+.+......+.+++|++||.|+|||||||||||+|+++|+|+
T Consensus 112 ~l~~~~~~----------------------~~~~--~~~~~~~~~~~~~~~~G~~GL~NlGNTCYmNSvLQ~L~~~p~fr 167 (476)
T 3mhs_A 112 DLINDAIL----------------------AKYW--DDVCTKTMVPSMERRDGLSGLINMGSTCFMSSILQCLIHNPYFI 167 (476)
T ss_dssp HHHHTGGG----------------------GGGH--HHHHHHEECCCGGGTTCCCCCCCSSSTHHHHHHHHHHHTCHHHH
T ss_pred HHHHHHHH----------------------HHCC--CHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHH
T ss_conf 89999876----------------------5111--11222146887657889978770884679989999986789999
Q ss_pred HHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCCCCCCHHHHH---HHHHHHC
Q ss_conf 9981478202210039999986389999999999813998897134555420255679987888927799---9998009
Q 003583 338 TRYYTQEPLKAAFEAAPADPTVDLNMQLTKLAHGLLSGKYSVPAQEKDAAANAATTTDTKQEGIPPRMFK---AVIAASH 414 (809)
Q Consensus 338 ~~~l~~~~~~~~~~~~~~~~~~~l~~qL~kL~~~l~sg~ys~~~~~~~~~~~~~~~~~~~~~~I~P~~l~---~~i~~~~ 414 (809)
++++... +...+....+..++.++|.+++..|++........ ......+.|..++ ..+++.+
T Consensus 168 ~~~l~~~---~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~------------~~~~~~~~~~~~~~~l~~~~~~~ 232 (476)
T 3mhs_A 168 RHSMSQI---HSNNCKVRSPDKCFSCALDKIVHELYGALNTKQAS------------SSSTSTNRQTGFIYLLTCAWKIN 232 (476)
T ss_dssp HHHHTTH---HHHHCSSCCTTTCHHHHHHHHHHHHHSCCCC--------------------CCCSCHHHHHHHHHHHHHC
T ss_pred HHHHHCC---HHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCC------------CCCCCCCCCCHHHHHHHHHHHHC
T ss_conf 9987450---35544578864105899999999996120333345------------66655657500899999988745
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHCCC--------------CCCCCCCCCCEEEEEEEEE-CCCCEE-EEEECCEEEE
Q ss_conf 88887665778999999999999880799--------------9999857501089789981-699875-3110572465
Q 003583 415 PEFSSMRQQDALEFFLHFVDQVERVHSGK--------------PEVDPTKSFKFGIEERISC-PSGKVA-YNRRLDYILS 478 (809)
Q Consensus 415 ~~F~~~~QQDA~EFl~~LLd~L~~~~~~~--------------~~~~i~~~F~~~l~~~i~C-~C~~v~-~~~e~~~~Ls 478 (809)
+.|++++||||+|||.+||+.|+++.... ..+++.++|+|.++++++| .|+.++ .+.++|++|+
T Consensus 233 ~~f~~~~QqDA~EFl~~LLd~L~~~~~~~~~~~~~~~~~~~~~~~s~i~~~F~G~l~~~~~C~~C~~~s~~~~e~f~~Ls 312 (476)
T 3mhs_A 233 QNLAGYSQQDAHEFWQFIINQIHQSYVLDLPNAKEVSRANNKQCECIVHTVFEGSLESSIVCPGCQNNSKTTIDPFLDLS 312 (476)
T ss_dssp GGGSSSSCEEHHHHHHHHHHHHHHHHHHHCCC-------CCCSCCSHHHHHSCEEEEEEEECTTTCCCCEEEEEEESCEE
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCEEECCEEEEEEEEECCCCCEECCCCCCHHHHC
T ss_conf 12388877599999999999999997641566533454455668880021132599988998999985178656666613
Q ss_pred ECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCC--CCCCCCCCCCCEEEEEECCC
Q ss_conf 1157853346689999998777552069877843336887469999852139844685--11787887453468740334
Q 003583 479 LGIPLDEATNKEELAAFQKLKMERISEGKDVTNEEIVRPRVPLEACLSTFSAPEELPD--FYSTALKAKTTATKSAGLTS 556 (809)
Q Consensus 479 L~ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~sL~~cL~~~~~~E~ie~--~~C~~C~~~~~a~k~~~i~~ 556 (809)
|+||.. .+|++||+.|+.+|.+++ |.|++|+.++.++|+.+|.+
T Consensus 313 L~i~~~----------------------------------~sl~~~L~~~~~~E~l~~~~~~C~~C~~~~~a~k~~~i~~ 358 (476)
T 3mhs_A 313 LDIKDK----------------------------------KKLYECLDSFHKKEQLKDFNYHCGECNSTQDAIKQLGIHK 358 (476)
T ss_dssp ECCTTC----------------------------------CBHHHHHHHHHCCEECSSCCCEETTTTEECCCEEEEEEEE
T ss_pred CCHHHH----------------------------------HHHHHHHHHHCCHHHCCCCCCCCCCCCCCCCEEEEEECCC
T ss_conf 201246----------------------------------6899999986384221477876886688565789987014
Q ss_pred CCCEEEEEEEEEEECCCCEEEECEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCC
Q ss_conf 67515999866898159413303033227873026534478999998779999999854689978867789999946999
Q 003583 557 FPDYLVLHMRKFVMEAGWVPKKLDVYIDVPDIIDISHMRSKGLQPGEELLPEGGPEDEVQSNKPVANKDIVSQLVSMGFN 636 (809)
Q Consensus 557 lP~vLiI~LkRF~~~~~~~~~Ki~~~V~fP~~LdL~~y~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~l~~mgf~ 636 (809)
+|+||+|||+||.++.+|..+|+++.|.||..|||.+|+.........
T Consensus 359 lP~vL~i~LkRF~~~~~~~~~K~~~~V~fP~~Ldl~~~~~~~~~~~~~-------------------------------- 406 (476)
T 3mhs_A 359 LPSVLVLQLKRFEHLLNGSNRKLDDFIEFPTYLNMKNYCSTKEKDKHS-------------------------------- 406 (476)
T ss_dssp BCSEEEEEECCEEECTTSCEEECCCCCBCCSEEECGGGBSCCBCCC----------------------------------
T ss_pred CCCCEEEEEEECCCCCCCCEEECCEEECCCCEEECHHHCCCCCCCCCC--------------------------------
T ss_conf 971139984402154899717898787389700034323753234322--------------------------------
Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHCCC
Q ss_conf 57988999880895589999986503999998999963322345890224445137999999999999708973320110
Q 003583 637 HLHCEKAAVNTSNAGVEEAMNWLLSHMDDPDIDMPLSQETQCAAIDQSKVETLLSFGFSEEVARNALKASGGDIEKATDW 716 (809)
Q Consensus 637 ~~~~~~a~~~t~n~~~e~a~~wl~~h~ddpd~~~p~~~~~~~~~~~~~~i~~l~~mgf~~~~a~~aL~~~~~~~~~a~dw 716 (809)
T Consensus 407 -------------------------------------------------------------------------------- 406 (476)
T 3mhs_A 407 -------------------------------------------------------------------------------- 406 (476)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred --------------------------------------------------------------------------------
T ss_conf --------------------------------------------------------------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEECCCCCCCEEEEEEEE-CCCEEEEECCEEECCC--C
Q ss_conf 003999888765432467887899999999999309999988642467886479999954-7918998286110035--8
Q 003583 717 IFNNPDASTSSDMDAATSSTAQTPADAGLPDGGGKYRLFGIVSHIGTSTQCGHYVAHILK-DGRWAIFNDNKVGASV--D 793 (809)
Q Consensus 717 lfs~~dd~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~L~avI~H~G~s~~sGHYva~ikk-~~~W~~fND~kV~~~~--~ 793 (809)
.........|+|+|||+|.|+ +++|||+||+|. +++||+|||+.|+.+. +
T Consensus 407 --------------------------~~~~~~~~~Y~L~avv~H~G~-~~~GHY~a~vr~~~~~W~~fnD~~V~~v~~~~ 459 (476)
T 3mhs_A 407 --------------------------ENGKVPDIIYELIGIVSHKGT-VNEGHYIAFCKISGGQWFKFNDSMVSSISQEE 459 (476)
T ss_dssp --------------------------CCCBCCCEEEEEEEEEEEEEC-SSSEEEEEEEECTTSCEEEEETTEEEEECHHH
T ss_pred --------------------------CCCCCCCCCEEEEEEEEECCC-CCCCCEEEEEECCCCCEEEEECCCEEECCHHH
T ss_conf --------------------------346789973899999996899-98875499998898918999498158999899
Q ss_pred CCCCCEEEEEEEECC
Q ss_conf 999740799998448
Q 003583 794 PPKEMGYLYFFERLN 808 (809)
Q Consensus 794 ~~~~~~Yiy~Y~R~~ 808 (809)
.....||||||+|.+
T Consensus 460 v~~~~aYiLfY~r~~ 474 (476)
T 3mhs_A 460 VLKEQAYLLFYTIRQ 474 (476)
T ss_dssp HTTSCEEEEEEEEEE
T ss_pred HCCCCCEEEEEEEEC
T ss_conf 566986799999843
No 3
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo sapiens}
Probab=1.00 E-value=1 Score=501.53 Aligned_cols=318 Identities=25% Similarity=0.430 Sum_probs=263.2
Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHH
Q ss_conf 55896444345898045889999974427799998147820221003999998638999999999981399889713455
Q 003583 306 LFGPGYTGLVNLGNSCYLAATMQVMFSTHAFCTRYYTQEPLKAAFEAAPADPTVDLNMQLTKLAHGLLSGKYSVPAQEKD 385 (809)
Q Consensus 306 ~~g~g~~GL~NLGNTCYmNSvLQ~L~~ip~f~~~~l~~~~~~~~~~~~~~~~~~~l~~qL~kL~~~l~sg~ys~~~~~~~ 385 (809)
.++||++||.|+|||||||||||+|+++|+|+++++...+........+.....++.++|+.|+..||++
T Consensus 3 ~~~~g~~GL~NlGNTCYmNSvLQ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~L~~~l~~~---------- 72 (367)
T 2y6e_A 3 HIQPGLCGLGNLGNTCFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEAYAELIKQMWSG---------- 72 (367)
T ss_dssp -CCTTCCEECCCSSCHHHHHHHHHHHTCHHHHHHHHTTCGGGGCCSSCTTSCTTHHHHHHHHHHHHHTSS----------
T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHCCCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCC----------
T ss_conf 7898980876488564989999999777999999973722555044698886429999999999999748----------
Q ss_pred HHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCC---------------------
Q ss_conf 54202556799878889277999998009888876657789999999999998807999---------------------
Q 003583 386 AAANAATTTDTKQEGIPPRMFKAVIAASHPEFSSMRQQDALEFFLHFVDQVERVHSGKP--------------------- 444 (809)
Q Consensus 386 ~~~~~~~~~~~~~~~I~P~~l~~~i~~~~~~F~~~~QQDA~EFl~~LLd~L~~~~~~~~--------------------- 444 (809)
....|+|..|+..+++.++.|.+++||||||||.+||+.|++++....
T Consensus 73 -----------~~~~i~P~~~~~~l~~~~~~f~~~~QqDA~Efl~~LLd~L~~~l~~~~~~~~~~~~~~~g~~~~~~a~~ 141 (367)
T 2y6e_A 73 -----------RDAHVAPRMFKTQVGRFAPQFSGYQQQDSQELLAFLLDGLHEDLNRVKKKPYLELKDANGRPDAVVAKE 141 (367)
T ss_dssp -----------SCSEECCHHHHHHHHHHCGGGCSSSCCCHHHHHHHHHHHHHHHTCSCSSCCCCCCCCCCSCCHHHHHHH
T ss_pred -----------CCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHH
T ss_conf -----------998738799999999740410898787879999999999999987512577644556567960677899
Q ss_pred ---------CCCCCCCCCEEEEEEEEE-CCCCEEEEEECCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf ---------999857501089789981-6998753110572465115785334668999999877755206987784333
Q 003583 445 ---------EVDPTKSFKFGIEERISC-PSGKVAYNRRLDYILSLGIPLDEATNKEELAAFQKLKMERISEGKDVTNEEI 514 (809)
Q Consensus 445 ---------~~~i~~~F~~~l~~~i~C-~C~~v~~~~e~~~~LsL~ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 514 (809)
.+.|.++|+|.++++++| .|++++.+.++|++|+|+||....... ++..++ ....
T Consensus 142 ~w~~~~~~~~s~i~~~F~G~l~s~~~C~~C~~~s~~~e~f~~LsL~ip~~~~~~~-~~~~~~--------------~~~~ 206 (367)
T 2y6e_A 142 AWENHRLRNDSVIVDTFHGLFKSTLVCPECAKVSVTFDPFCYLTLPLPLKKDRVM-EGPMLQ--------------PQKK 206 (367)
T ss_dssp HHHHHHHHCCSHHHHHHCEEEEEEEECTTTCCEEEEEEEESSEEEECCC-------------------------------
T ss_pred HHHHHHHHCCCCCCCCCCCEEEEEEEECCCCCEEEEECCCEEEEEECCCCCCCCC-EEEEEC--------------CCCC
T ss_conf 9999887069823013376884358908999985337567057731798767750-133205--------------6445
Q ss_pred CCCCCCHHHHHHHHCCCCCCCC---CCCCCCCCCCCEEEEEECCCCCCEEEEEEEEEEECCCCEEEECEEEECCCC-CCC
Q ss_conf 6887469999852139844685---117878874534687403346751599986689815941330303322787-302
Q 003583 515 VRPRVPLEACLSTFSAPEELPD---FYSTALKAKTTATKSAGLTSFPDYLVLHMRKFVMEAGWVPKKLDVYIDVPD-IID 590 (809)
Q Consensus 515 ~~~~~sL~~cL~~~~~~E~ie~---~~C~~C~~~~~a~k~~~i~~lP~vLiI~LkRF~~~~~~~~~Ki~~~V~fP~-~Ld 590 (809)
..+.++|++||+.|+.+|.+++ |+|++|+.++.|+|+.+|.++|+||+||||||.++ .|...|++..|.||. .||
T Consensus 207 ~~~~~sL~~~L~~f~~~E~l~~~~~~~C~~C~~~~~a~K~~~i~~lP~vL~i~LkRF~~~-~~~~~K~~~~v~fp~~~Ld 285 (367)
T 2y6e_A 207 KKTTVALRDCIELFTTMETLGEHDPWYCPNCKKHQQATKKFDLWSLPKILVVHLKRFSYN-RYWRDKLDTVVEFPIRGLN 285 (367)
T ss_dssp ---CEEHHHHHHHHTSCEECCC-CCEEETTTTEEECCEEEEEEEECCSEEEEEEECEEEC-SSCEEECCCCEECCSSCEE
T ss_pred CCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCEEEEEEECEEEC-CCCCEECCCEEEECCCCCC
T ss_conf 678888999999861616478998724878788750789988824885789998476505-7663353763893177677
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCC
Q ss_conf 65344789999987799999998546899788677899999469995798899988089558999998650399999899
Q 003583 591 ISHMRSKGLQPGEELLPEGGPEDEVQSNKPVANKDIVSQLVSMGFNHLHCEKAAVNTSNAGVEEAMNWLLSHMDDPDIDM 670 (809)
Q Consensus 591 L~~y~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~l~~mgf~~~~~~~a~~~t~n~~~e~a~~wl~~h~ddpd~~~ 670 (809)
|++|+....
T Consensus 286 l~~~~~~~~----------------------------------------------------------------------- 294 (367)
T 2y6e_A 286 MSEFVCNLS----------------------------------------------------------------------- 294 (367)
T ss_dssp CGGGBSCSS-----------------------------------------------------------------------
T ss_pred HHHHCCCCC-----------------------------------------------------------------------
T ss_conf 566425878-----------------------------------------------------------------------
Q ss_pred CCCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 99633223458902244451379999999999997089733201100039998887654324678878999999999993
Q 003583 671 PLSQETQCAAIDQSKVETLLSFGFSEEVARNALKASGGDIEKATDWIFNNPDASTSSDMDAATSSTAQTPADAGLPDGGG 750 (809)
Q Consensus 671 p~~~~~~~~~~~~~~i~~l~~mgf~~~~a~~aL~~~~~~~~~a~dwlfs~~dd~~~~~~~~~~~~~~~~~~~~~~~~~~~ 750 (809)
.++.
T Consensus 295 ----------------------------------------------------------------------------~~~~ 298 (367)
T 2y6e_A 295 ----------------------------------------------------------------------------ARPY 298 (367)
T ss_dssp ----------------------------------------------------------------------------SCCC
T ss_pred ----------------------------------------------------------------------------CCCC
T ss_conf ----------------------------------------------------------------------------8971
Q ss_pred EEEEEEEEEEECCCCCCCEEEEEEEE--CCCEEEEECCEEECCC--CCCCCCEEEEEEEECC
Q ss_conf 09999988642467886479999954--7918998286110035--8999740799998448
Q 003583 751 KYRLFGIVSHIGTSTQCGHYVAHILK--DGRWAIFNDNKVGASV--DPPKEMGYLYFFERLN 808 (809)
Q Consensus 751 ~Y~L~avI~H~G~s~~sGHYva~ikk--~~~W~~fND~kV~~~~--~~~~~~~Yiy~Y~R~~ 808 (809)
.|+|+|||+|.|+ +++|||+||+|. +++||+|||+.|+.+. +.....||||||+|.+
T Consensus 299 ~Y~L~avv~H~G~-~~~GHY~a~~~~~~~~~W~~fnD~~V~~v~~~~v~~~~aYiLfY~r~~ 359 (367)
T 2y6e_A 299 VYDLIAVSNHYGA-MGVGHYTAYAKNKLNGKWYYFDDSNVSLASEDQIVTKAAYVLFYQRRD 359 (367)
T ss_dssp EEEEEEEEEEECS-SSSCEEEEEEECTTTCCEEEEETTEEEECCGGGTSSTTEEEEEEEECC
T ss_pred EEEEEEEEECCCC-CCCCEEEEEEECCCCCEEEEECCCCCEECCHHHCCCCCCEEEEEEECC
T ss_conf 4889988562899-988736678876999908997798733998888688973799999738
No 4
>2gfo_A Ubiquitin carboxyl-terminal hydrolase 8; protease, thiol protease, UBL conjugation pathway deubiquitinating enzyme, DUB, zinc ribbon; 2.00A {Homo sapiens} SCOP: d.3.1.9 PDB: 3n3k_A
Probab=1.00 E-value=1 Score=497.69 Aligned_cols=305 Identities=25% Similarity=0.454 Sum_probs=259.5
Q ss_pred CCCCCC---CCCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCC
Q ss_conf 545555---89644434589804588999997442779999814782022100399999863899999999998139988
Q 003583 302 DVEPLF---GPGYTGLVNLGNSCYLAATMQVMFSTHAFCTRYYTQEPLKAAFEAAPADPTVDLNMQLTKLAHGLLSGKYS 378 (809)
Q Consensus 302 ~l~p~~---g~g~~GL~NLGNTCYmNSvLQ~L~~ip~f~~~~l~~~~~~~~~~~~~~~~~~~l~~qL~kL~~~l~sg~ys 378 (809)
.+.|.+ ++|++||.|+|||||||||||+|+++|+|+++++...+..............++..++..|+..||++.
T Consensus 50 ~l~p~~~~~~~g~~GL~NlGNTCYmNSvLQ~L~~~p~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~-- 127 (396)
T 2gfo_A 50 NLNPVFGGSGPALTGLRNLGNTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIMKALWTGQ-- 127 (396)
T ss_dssp GGCCEECCSSTTCCEECCSSSCHHHHHHHHHHHTCHHHHHHHHTTTHHHHCCTTCTTSCTTHHHHHHHHHHHHHHHSC--
T ss_pred CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHCCCCHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCC--
T ss_conf 568766888778666561687416729999853788999999707421331235877741099999999999997099--
Q ss_pred CCHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCC--------------
Q ss_conf 971345554202556799878889277999998009888876657789999999999998807999--------------
Q 003583 379 VPAQEKDAAANAATTTDTKQEGIPPRMFKAVIAASHPEFSSMRQQDALEFFLHFVDQVERVHSGKP-------------- 444 (809)
Q Consensus 379 ~~~~~~~~~~~~~~~~~~~~~~I~P~~l~~~i~~~~~~F~~~~QQDA~EFl~~LLd~L~~~~~~~~-------------- 444 (809)
...|+|..|+..+++.++.|.+++||||+|||.+||+.|++++....
T Consensus 128 -------------------~~~i~P~~f~~~l~~~~~~f~~~~QqDA~EFl~~LLd~L~~el~~~~~~~~~~~~~~~~~~ 188 (396)
T 2gfo_A 128 -------------------YRYISPKDFKITIGKINDQFAGYSQQDSQELLLFLMDGLHEDLNKADNRKRYKEENNDHLD 188 (396)
T ss_dssp -------------------EEEECCHHHHHHHHHHCGGGSSSSCCCHHHHHHHHHHHHHHHHCCCCC---------TTSC
T ss_pred -------------------CCEECHHHHHHHHHHHCHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf -------------------8437789999999974543348788775999999999999998653145544555555664
Q ss_pred ----------------CCCCCCCCCEEEEEEEEE-CCCCEEEEEECCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCC
Q ss_conf ----------------999857501089789981-699875311057246511578533466899999987775520698
Q 003583 445 ----------------EVDPTKSFKFGIEERISC-PSGKVAYNRRLDYILSLGIPLDEATNKEELAAFQKLKMERISEGK 507 (809)
Q Consensus 445 ----------------~~~i~~~F~~~l~~~i~C-~C~~v~~~~e~~~~LsL~ip~~~~~~~~~~~~~~~~~~~~~~~g~ 507 (809)
.+.|.++|+|.++++++| .|+.++.+.++|++|+|+||...
T Consensus 189 ~~~~a~~~w~~~~~~~~s~I~~lF~G~l~s~i~C~~C~~~s~~~e~f~~LsL~ip~~~---------------------- 246 (396)
T 2gfo_A 189 DFKAAEHAWQKHKQLNESIIVALFQGQFKSTVQCLTCHKKSRTFEAFMYLSLPLASTS---------------------- 246 (396)
T ss_dssp HHHHHHHHHHHHHHHCCSHHHHHHCEEEEEEEEETTTCCEEEEEEEESSEEECCSCSS----------------------
T ss_pred HHHHHHHHHHHHHHCCCCCCCHHHCCEEEEEEEECCCCCEECCCCCCEEEEECCCCCC----------------------
T ss_conf 2567789998766506883402008688777885799962032446312333266346----------------------
Q ss_pred CCCCCCCCCCCCCHHHHHHHHCCCCCCCC---CCCCCCCCCCCEEEEEECCCCCCEEEEEEEEEEECCCCEEEECEEEEC
Q ss_conf 77843336887469999852139844685---117878874534687403346751599986689815941330303322
Q 003583 508 DVTNEEIVRPRVPLEACLSTFSAPEELPD---FYSTALKAKTTATKSAGLTSFPDYLVLHMRKFVMEAGWVPKKLDVYID 584 (809)
Q Consensus 508 ~~~~~~~~~~~~sL~~cL~~~~~~E~ie~---~~C~~C~~~~~a~k~~~i~~lP~vLiI~LkRF~~~~~~~~~Ki~~~V~ 584 (809)
..+|++||+.|+.+|.++| |.|++|+.++.|+|+.+|.++|+||+||||||.++..| ..|+++.|.
T Consensus 247 ----------~~sL~~~L~~f~~~E~l~~~n~~~C~~C~~~~~a~k~~~i~~lP~vLiihLkRF~~~~~~-~~K~~~~v~ 315 (396)
T 2gfo_A 247 ----------KCTLQDCLRLFSKEEKLTDNNRFYCSHCRARRDSLKKIEIWKLPPVLLVHLKRFSYDGRW-KQKLQTSVD 315 (396)
T ss_dssp ----------EEEHHHHHHHHTSCEEECSTTCEEETTTTEEECEEEEEEEEECCSEEEEEECCEEECSSS-EEECCCEEE
T ss_pred ----------CCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCEEEEEECCEECCCCC-CEECCCEEE
T ss_conf ----------579999999837722516876411577555453589999803785799985011025761-001674485
Q ss_pred CCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCC
Q ss_conf 787-3026534478999998779999999854689978867789999946999579889998808955899999865039
Q 003583 585 VPD-IIDISHMRSKGLQPGEELLPEGGPEDEVQSNKPVANKDIVSQLVSMGFNHLHCEKAAVNTSNAGVEEAMNWLLSHM 663 (809)
Q Consensus 585 fP~-~LdL~~y~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~l~~mgf~~~~~~~a~~~t~n~~~e~a~~wl~~h~ 663 (809)
||. .|||.+|+....
T Consensus 316 fp~~~Ldl~~~~~~~~---------------------------------------------------------------- 331 (396)
T 2gfo_A 316 FPLENLDLSQYVIGPK---------------------------------------------------------------- 331 (396)
T ss_dssp CCSSCBCCGGGBCSCC----------------------------------------------------------------
T ss_pred CCHHHCCCCCCCCCCC----------------------------------------------------------------
T ss_conf 4534245664334777----------------------------------------------------------------
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 99998999963322345890224445137999999999999708973320110003999888765432467887899999
Q 003583 664 DDPDIDMPLSQETQCAAIDQSKVETLLSFGFSEEVARNALKASGGDIEKATDWIFNNPDASTSSDMDAATSSTAQTPADA 743 (809)
Q Consensus 664 ddpd~~~p~~~~~~~~~~~~~~i~~l~~mgf~~~~a~~aL~~~~~~~~~a~dwlfs~~dd~~~~~~~~~~~~~~~~~~~~ 743 (809)
T Consensus 332 -------------------------------------------------------------------------------- 331 (396)
T 2gfo_A 332 -------------------------------------------------------------------------------- 331 (396)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred --------------------------------------------------------------------------------
T ss_conf --------------------------------------------------------------------------------
Q ss_pred CCCCCCCEEEEEEEEEEECCCCCCCEEEEEEEE--CCCEEEEECCEEECCC--CCCCCCEEEEEEEECC
Q ss_conf 999999309999988642467886479999954--7918998286110035--8999740799998448
Q 003583 744 GLPDGGGKYRLFGIVSHIGTSTQCGHYVAHILK--DGRWAIFNDNKVGASV--DPPKEMGYLYFFERLN 808 (809)
Q Consensus 744 ~~~~~~~~Y~L~avI~H~G~s~~sGHYva~ikk--~~~W~~fND~kV~~~~--~~~~~~~Yiy~Y~R~~ 808 (809)
....+|+|+|||+|.| ++++|||+||+|. +++||+|||+.|+.+. +.....||||||+|++
T Consensus 332 ---~~~~~Y~L~avv~H~G-~~~~GHY~a~v~~~~~~~W~~fnD~~V~~v~~~~v~~~~aYiLfY~r~~ 396 (396)
T 2gfo_A 332 ---NNLKKYNLFSVSNHYG-GLDGGHYTAYCKNAARQRWFKFDDHEVSDISVSSVKSSAAYILFYTSLG 396 (396)
T ss_dssp ---SSCCCBEEEEEEEEES-CTTTCEEEEEEEETTTTEEEEEETTEEEECCHHHHSCTTEEEEEEECC-
T ss_pred ---CCCCEEEEEEEEEECC-CCCCCCEEEEECCCCCCCEEEEECCCEEECCHHHCCCCCCEEEEEEECC
T ss_conf ---7873588999998569-9999830799857999987997488738988888689985699999759
No 5
>2ayn_A Ubiquitin carboxyl-terminal hydrolase 14; deubiquitinating enzymes, DUB, USP14, proteasome, enzyme mechanism; 3.20A {Homo sapiens} SCOP: d.3.1.9 PDB: 2ayo_A
Probab=1.00 E-value=1 Score=482.19 Aligned_cols=344 Identities=21% Similarity=0.284 Sum_probs=256.3
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHH
Q ss_conf 89644434589804588999997442779999814782022100399999863899999999998139988971345554
Q 003583 308 GPGYTGLVNLGNSCYLAATMQVMFSTHAFCTRYYTQEPLKAAFEAAPADPTVDLNMQLTKLAHGLLSGKYSVPAQEKDAA 387 (809)
Q Consensus 308 g~g~~GL~NLGNTCYmNSvLQ~L~~ip~f~~~~l~~~~~~~~~~~~~~~~~~~l~~qL~kL~~~l~sg~ys~~~~~~~~~ 387 (809)
..+++||.|+|||||||||||+|+++|+|+++++..... ........+..++.++|++|+..|+.+
T Consensus 11 ~~~~~GL~NlGNTCYmNSvLQ~L~~~~~~~~~l~~~~~~--~~~~~~~~~~~~l~~~l~~lf~~l~~~------------ 76 (404)
T 2ayn_A 11 MELPCGLTNLGNTCYMNATVQCIRSVPELKDALKRYAGA--LRASGEMASAQYITAALRDLFDSMDKT------------ 76 (404)
T ss_dssp CCCCCEECCCSSCHHHHHHHHHHHTCHHHHHHHHTCCCC--C------CHHHHHHHHHHHHHHHHHHH------------
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHCCHHHHHHHHHCCCC--CCCCCCCCCCCHHHHHHHHHHHHHHCC------------
T ss_conf 699988654770439899999987689999999964510--134788885438999999999998638------------
Q ss_pred HHCCCCCCCCCCCCCHHHHHHHHHHHCCCCC------CCCCCCHHHHHHHHHHHHHHHHCCCC-----------------
Q ss_conf 2025567998788892779999980098888------76657789999999999998807999-----------------
Q 003583 388 ANAATTTDTKQEGIPPRMFKAVIAASHPEFS------SMRQQDALEFFLHFVDQVERVHSGKP----------------- 444 (809)
Q Consensus 388 ~~~~~~~~~~~~~I~P~~l~~~i~~~~~~F~------~~~QQDA~EFl~~LLd~L~~~~~~~~----------------- 444 (809)
...|+|..|+..+++.++.|. +++||||+|||.+||+.|++++....
T Consensus 77 ----------~~~v~P~~~~~~l~~~~~~f~~~~~~~~~~QqDA~Efl~~lLd~L~~~~~~~~~~~~~e~~~~~~~~~~~ 146 (404)
T 2ayn_A 77 ----------SSSIPPIILLQFLHMAFPQFAEKGEQGQYLQQDANECWIQMMRVLQQKLEAIEDDSVKETDSSSASAATP 146 (404)
T ss_dssp ----------CSEECCHHHHHHHHHHCGGGGCBCTTSCBCCCCHHHHHHHHHHHHHTTSCCCCCC---------------
T ss_pred ----------CCCCCHHHHHHHHHHHCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHC
T ss_conf ----------9838869999999885700202356788665489999999999999874435677522100122100000
Q ss_pred ---CCCCCCCCCEEEEEEEEE-CCCCEE--EEEECCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf ---999857501089789981-699875--31105724651157853346689999998777552069877843336887
Q 003583 445 ---EVDPTKSFKFGIEERISC-PSGKVA--YNRRLDYILSLGIPLDEATNKEELAAFQKLKMERISEGKDVTNEEIVRPR 518 (809)
Q Consensus 445 ---~~~i~~~F~~~l~~~i~C-~C~~v~--~~~e~~~~LsL~ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 518 (809)
.+.+.++|+|.+.++++| .|+.++ .+.++|++|+|+||...
T Consensus 147 ~~~~s~i~~~F~G~l~s~i~C~~C~~~s~s~~~e~f~~Lsl~i~~~~--------------------------------- 193 (404)
T 2ayn_A 147 SKKKSLIDQFFGVEFETTMKCTESEEEEVTKGKENQLQLSCFINQEV--------------------------------- 193 (404)
T ss_dssp ---CCHHHHHTCEEEEEEEEESSSCCCCCBCCEEEESSEEEECSSSC---------------------------------
T ss_pred CCCCCHHHHHCCEEEEEEEEECCCCCCCCCEEECCCCEEEEECCCCC---------------------------------
T ss_conf 11376024515679999998257898168524225746876569985---------------------------------
Q ss_pred CCHHHHHHHHCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCEEEEEEEEEEECCC-CEEEECEEEECCCCCCCCCCCCCC
Q ss_conf 4699998521398446851178788745346874033467515999866898159-413303033227873026534478
Q 003583 519 VPLEACLSTFSAPEELPDFYSTALKAKTTATKSAGLTSFPDYLVLHMRKFVMEAG-WVPKKLDVYIDVPDIIDISHMRSK 597 (809)
Q Consensus 519 ~sL~~cL~~~~~~E~ie~~~C~~C~~~~~a~k~~~i~~lP~vLiI~LkRF~~~~~-~~~~Ki~~~V~fP~~LdL~~y~~~ 597 (809)
.+|++||+.|+. |.++ ++|++|++...++|+.+|.++|+||+|||+||.++.. +...|++.+|.||..|||.+|+..
T Consensus 194 ~~l~~~L~~~~~-e~l~-~~c~~c~~~~~~~k~~~i~~lP~vL~i~LkRF~~~~~~~~~~Ki~~~v~fP~~Ldl~~~~~~ 271 (404)
T 2ayn_A 194 KYLFTGLKLRLQ-EEIT-KQSPTLQRNALYIKSSKISRLPAYLTIQMVRFFYKEKESVNAKVLKDVKFPLMLDMYELCTP 271 (404)
T ss_dssp CBHHHHHHHTTE-ECCC-CEETTTTEECCEEEEEEEEECCSSEEEEEECBCCCCSSSSCCBCCCCCBCCSEEECGGGBCH
T ss_pred CCHHHHHHHHCC-CCEE-ECCHHHCCCCCEEEEEEHHHCCCCEEEEEEEEEEECCCCCEECCCCEECCCCEEEHHHHCCH
T ss_conf 429999987544-0103-62520098301555531721997169999988982466831001744646825677674485
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf 99999877999999985468997886778999994699957988999880895589999986503999998999963322
Q 003583 598 GLQPGEELLPEGGPEDEVQSNKPVANKDIVSQLVSMGFNHLHCEKAAVNTSNAGVEEAMNWLLSHMDDPDIDMPLSQETQ 677 (809)
Q Consensus 598 ~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~l~~mgf~~~~~~~a~~~t~n~~~e~a~~wl~~h~ddpd~~~p~~~~~~ 677 (809)
+.+.......+..... . +.. .. ..+ +++ |. .+.
T Consensus 272 ~~~~~~~~~~~~~~~~-------~-~~~-~~--------~~~-~~~-----~~-------------~~~----------- 304 (404)
T 2ayn_A 272 ELQEKMVSFRSKFKDL-------E-DKK-VN--------QQP-NTS-----DK-------------KSS----------- 304 (404)
T ss_dssp HHHHHTTTTTGGGTCT-------T-C------------------------------------------------------
T ss_pred HHHHHCCHHHHHHHHH-------H-CCC-CH--------HHH-HHC-----CC-------------CCC-----------
T ss_conf 5541020135677655-------3-154-01--------333-110-----33-------------555-----------
Q ss_pred CCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEE
Q ss_conf 34589022444513799999999999970897332011000399988876543246788789999999999930999998
Q 003583 678 CAAIDQSKVETLLSFGFSEEVARNALKASGGDIEKATDWIFNNPDASTSSDMDAATSSTAQTPADAGLPDGGGKYRLFGI 757 (809)
Q Consensus 678 ~~~~~~~~i~~l~~mgf~~~~a~~aL~~~~~~~~~a~dwlfs~~dd~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~L~av 757 (809)
..+....+ ++.+ +++ ........|+|+||
T Consensus 305 --------------------------~~~~~~~e---~~~~--~~~--------------------~~~~~~~~Y~L~av 333 (404)
T 2ayn_A 305 --------------------------PQKEVKYE---PFSF--ADD--------------------IGSNNCGYYDLQAV 333 (404)
T ss_dssp ---------------------------------C---CCCC--SCT--------------------TTTCCCSEEEEEEE
T ss_pred --------------------------CCCCCCCC---CCCC--CCC--------------------CCCCCCCEEEEEEE
T ss_conf --------------------------55533345---5555--455--------------------57688853999999
Q ss_pred EEEECCCCCCCEEEEEEEE-CCCEEEEECCEEECCCC---------CCCCCEEEEEEEECC
Q ss_conf 8642467886479999954-79189982861100358---------999740799998448
Q 003583 758 VSHIGTSTQCGHYVAHILK-DGRWAIFNDNKVGASVD---------PPKEMGYLYFFERLN 808 (809)
Q Consensus 758 I~H~G~s~~sGHYva~ikk-~~~W~~fND~kV~~~~~---------~~~~~~Yiy~Y~R~~ 808 (809)
|+|.|.++++||||||||. +++||+|||++|+.+.. .....||||||+|.+
T Consensus 334 v~H~G~s~~~GHY~a~v~~~~~~W~~fnD~~V~~v~~~~v~~~~~g~~~~~aYiLfY~r~~ 394 (404)
T 2ayn_A 334 LTHQGRSSSSGHYVSWVKRKQDEWIKFDDDKVSIVTPEDILRLSGGGDWHIAYVLLYGPRR 394 (404)
T ss_dssp EEEESSSTTSSEEEEEEEEETTEEEEEBTTBCCCBCHHHHGGGGSSSSSCEEEEEEEECC-
T ss_pred EEECCCCCCCCCEEEEEECCCCEEEEEECCCCEECCHHHHHHHHCCCCCCEEEEEEEEECC
T ss_conf 9954899999886999989999289960634566679999763079977628999998347
No 6
>3i3t_A Ubiquitin carboxyl-terminal hydrolase 21; hydrolase, structural genomics consortium, SGC, activator, alternative splicing, chromatin regulator, nucleus, polymorphism, protease; 2.59A {Homo sapiens} SCOP: d.3.1.0 PDB: 2y5b_A 3mtn_A
Probab=1.00 E-value=1 Score=479.56 Aligned_cols=300 Identities=26% Similarity=0.425 Sum_probs=257.3
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHHH
Q ss_conf 96444345898045889999974427799998147820221003999998638999999999981399889713455542
Q 003583 309 PGYTGLVNLGNSCYLAATMQVMFSTHAFCTRYYTQEPLKAAFEAAPADPTVDLNMQLTKLAHGLLSGKYSVPAQEKDAAA 388 (809)
Q Consensus 309 ~g~~GL~NLGNTCYmNSvLQ~L~~ip~f~~~~l~~~~~~~~~~~~~~~~~~~l~~qL~kL~~~l~sg~ys~~~~~~~~~~ 388 (809)
.|++||.|+||||||||+||+|+++|+|+++++........ .......++.++|+.|+..||++
T Consensus 1 TG~~GL~N~GNtCY~NSvLQ~L~~~~~~~~~~l~~~~~~~~---~~~~~~~~l~~~l~~l~~~l~~~------------- 64 (355)
T 3i3t_A 1 SGHVGLRNLGNTCFLNAVLQCLSSTRPLRDFCLRRDFRQEV---PGGGRAQELTEAFADVIGALWHP------------- 64 (355)
T ss_dssp --CCCBCCCSSTHHHHHHHHHHHTCHHHHHHHHHTTHHHHC---------CHHHHHHHHHHHHTSSC-------------
T ss_pred CCCCCCEECCCCHHHHHHHHHHHCCHHHHHHHHHCHHHHHC---CCCCCHHHHHHHHHHHHHHHHCC-------------
T ss_conf 99747588982669899999986789999999725488756---78995269999999999998458-------------
Q ss_pred HCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCC------------------------
Q ss_conf 02556799878889277999998009888876657789999999999998807999------------------------
Q 003583 389 NAATTTDTKQEGIPPRMFKAVIAASHPEFSSMRQQDALEFFLHFVDQVERVHSGKP------------------------ 444 (809)
Q Consensus 389 ~~~~~~~~~~~~I~P~~l~~~i~~~~~~F~~~~QQDA~EFl~~LLd~L~~~~~~~~------------------------ 444 (809)
.....++|..|+..+++.++.|.+++||||+|||.+||+.|++++....
T Consensus 65 -------~~~~~v~p~~~~~~l~~~~~~f~~~~QqDA~Efl~~LLd~L~~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 137 (355)
T 3i3t_A 65 -------DSCEAVNPTRFRAVFQKYVPSFSGYSQQDAQEFLKLLMERLHLEINRRGRRAPPILANGPVPSPPRRGGALLE 137 (355)
T ss_dssp -------SSCCCBCCHHHHHHHHHHCGGGCSSCCCBHHHHHHHHHHHHHHHHCCC-------------------------
T ss_pred -------CCCCCCCHHHHHHHHHHHCHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf -------9887445899999999738422898766789999999999999976541378752356766676444432235
Q ss_pred ---------------------CCCCCCCCCEEEEEEEEE-CCCCEEEEEECCEEEEECCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf ---------------------999857501089789981-6998753110572465115785334668999999877755
Q 003583 445 ---------------------EVDPTKSFKFGIEERISC-PSGKVAYNRRLDYILSLGIPLDEATNKEELAAFQKLKMER 502 (809)
Q Consensus 445 ---------------------~~~i~~~F~~~l~~~i~C-~C~~v~~~~e~~~~LsL~ip~~~~~~~~~~~~~~~~~~~~ 502 (809)
.+.+.++|.|.+.++++| .|+.++.+.++|++|+|+||.....
T Consensus 138 ~~~~~~~~~~~~~~~~~~~~~~s~i~~~F~g~~~~~~~C~~C~~~s~~~e~f~~lsl~i~~~~~~--------------- 202 (355)
T 3i3t_A 138 EPELSDDDRANLMWKRYLEREDSKIVDLFVGQLKSCLKCQACGYRSTTFEVFCDLSLPIPKKGFA--------------- 202 (355)
T ss_dssp ---CCHHHHHHHHHHHHHHHCCSHHHHHHCEEEEEEEEETTTCCEEEEEEEESSEEECCCC-------------------
T ss_pred CCCCCHHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEEECCCEEECCCCCCCCCC---------------
T ss_conf 77788788999999985231698154533579995589389999840222234652567864445---------------
Q ss_pred HCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCC---CCCCCCCCCCCEEEEEECCCCCCEEEEEEEEEEECCCCEEEEC
Q ss_conf 2069877843336887469999852139844685---1178788745346874033467515999866898159413303
Q 003583 503 ISEGKDVTNEEIVRPRVPLEACLSTFSAPEELPD---FYSTALKAKTTATKSAGLTSFPDYLVLHMRKFVMEAGWVPKKL 579 (809)
Q Consensus 503 ~~~g~~~~~~~~~~~~~sL~~cL~~~~~~E~ie~---~~C~~C~~~~~a~k~~~i~~lP~vLiI~LkRF~~~~~~~~~Ki 579 (809)
.+.++|++||+.|+.+|.+++ |.|++|+.++.|+|+.+|.++|+||+|||+||.++ .+..+|+
T Consensus 203 -------------~~~~sl~~~L~~~~~~e~l~~~n~~~C~~C~~~~~a~k~~~i~~lP~vL~i~lkRF~~~-~~~~~K~ 268 (355)
T 3i3t_A 203 -------------GGKVSLRDCFNLFTKEEELESENAPVCDRCRQKTRSTKKLTVQRFPRILVLHLNRFSAS-RGSIKKS 268 (355)
T ss_dssp ----------------CBHHHHHHHHHCCEEECGGGCCCCSSSCCCCCEEEEEEEEECCSEEEEEECCEECC-SSCCEEC
T ss_pred -------------CCCCCHHHHHHHHCCCCCCCCCCCEECCCCCCCCCEEEEEECCCCCHHEEEEHHHEECC-CCCCEEC
T ss_conf -------------67658999999857835458999855988788662379988113981309976020037-8980478
Q ss_pred EEEECCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf 0332278-730265344789999987799999998546899788677899999469995798899988089558999998
Q 003583 580 DVYIDVP-DIIDISHMRSKGLQPGEELLPEGGPEDEVQSNKPVANKDIVSQLVSMGFNHLHCEKAAVNTSNAGVEEAMNW 658 (809)
Q Consensus 580 ~~~V~fP-~~LdL~~y~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~l~~mgf~~~~~~~a~~~t~n~~~e~a~~w 658 (809)
+..|.|| +.|||.+|+...
T Consensus 269 ~~~v~fp~~~l~l~~~~~~~------------------------------------------------------------ 288 (355)
T 3i3t_A 269 SVGVDFPLQRLSLGDFASDK------------------------------------------------------------ 288 (355)
T ss_dssp CCCCBCCSSCEECGGGBC--------------------------------------------------------------
T ss_pred CCCEECCCCCCCCHHHCCCC------------------------------------------------------------
T ss_conf 86160776546730211589------------------------------------------------------------
Q ss_pred HHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 65039999989999633223458902244451379999999999997089733201100039998887654324678878
Q 003583 659 LLSHMDDPDIDMPLSQETQCAAIDQSKVETLLSFGFSEEVARNALKASGGDIEKATDWIFNNPDASTSSDMDAATSSTAQ 738 (809)
Q Consensus 659 l~~h~ddpd~~~p~~~~~~~~~~~~~~i~~l~~mgf~~~~a~~aL~~~~~~~~~a~dwlfs~~dd~~~~~~~~~~~~~~~ 738 (809)
T Consensus 289 -------------------------------------------------------------------------------- 288 (355)
T 3i3t_A 289 -------------------------------------------------------------------------------- 288 (355)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred --------------------------------------------------------------------------------
T ss_conf --------------------------------------------------------------------------------
Q ss_pred CCCCCCCCCCCCEEEEEEEEEEECCCCCCCEEEEEEEECCCEEEEECCEEECCC--CCCCCCEEEEEEEECCC
Q ss_conf 999999999993099999886424678864799999547918998286110035--89997407999984489
Q 003583 739 TPADAGLPDGGGKYRLFGIVSHIGTSTQCGHYVAHILKDGRWAIFNDNKVGASV--DPPKEMGYLYFFERLNS 809 (809)
Q Consensus 739 ~~~~~~~~~~~~~Y~L~avI~H~G~s~~sGHYva~ikk~~~W~~fND~kV~~~~--~~~~~~~Yiy~Y~R~~~ 809 (809)
.+...|+|+|||+|.|+ +++|||+||+|..+.|++|||+.|+.+. +.....||||||+|++.
T Consensus 289 --------~~~~~Y~L~avv~H~G~-~~~GHY~~~~~~~~~W~~~nD~~V~~v~~~~v~~~~aYiLfY~r~~~ 352 (355)
T 3i3t_A 289 --------AGSPVYQLYALCNHSGS-VHYGHYTALCRCQTGWHVYNDSRVSPVSENQVASSEGYVLFYQLMQE 352 (355)
T ss_dssp ----------CCEEEEEEEEEEEEE-TTEEEEEEEEEETTEEEEEETTEEEEECHHHHHTSCCSEEEEEEC--
T ss_pred --------CCCCCEEEEEEEEECCC-CCCCEEEEEEECCCEEEEECCCCCEECCHHHCCCCCCEEEEEEECCC
T ss_conf --------99964599999882678-99980799997299289981987179889990789867999996068
No 7
>3nhe_A Ubiquitin carboxyl-terminal hydrolase 2; cysteine protease, substrate ENZY complex, hydrolase-protein binding complex; HET: CME; 1.26A {Homo sapiens} SCOP: d.3.1.9 PDB: 2hd5_A 3v6c_A 3v6e_A 2ibi_A
Probab=1.00 E-value=1 Score=479.48 Aligned_cols=303 Identities=24% Similarity=0.405 Sum_probs=260.3
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHH
Q ss_conf 55589644434589804588999997442779999814782022100399999863899999999998139988971345
Q 003583 305 PLFGPGYTGLVNLGNSCYLAATMQVMFSTHAFCTRYYTQEPLKAAFEAAPADPTVDLNMQLTKLAHGLLSGKYSVPAQEK 384 (809)
Q Consensus 305 p~~g~g~~GL~NLGNTCYmNSvLQ~L~~ip~f~~~~l~~~~~~~~~~~~~~~~~~~l~~qL~kL~~~l~sg~ys~~~~~~ 384 (809)
+..++|++||.|+|||||||||||+|+++|+|+++++...+.... ........++.++|++|+..||+.
T Consensus 3 sk~~~g~~GL~N~GNtCY~NsvLQ~L~~~~~~r~~~l~~~~~~~~--~~~~~~~~~l~~~l~~l~~~l~~~--------- 71 (348)
T 3nhe_A 3 SKSAQGLAGLRNLGNTCFMNSILQCLSNTRELRDYCLQRLYMRDL--HHGSNAHTALVEEFAKLIQTIWTS--------- 71 (348)
T ss_dssp ---CCSCCEECCCSSCHHHHHHHHHHHTCHHHHHHHHTTGGGGTS--CSSCCTTHHHHHHHHHHHHHHTTC---------
T ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHHCCHHHHHHHHCCHHHHHH--CCCCCCCCHHHHHHHHHHHHHHCC---------
T ss_conf 788999977875883479889999996679999998524466761--468873118999999999999717---------
Q ss_pred HHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCC--------------------
Q ss_conf 554202556799878889277999998009888876657789999999999998807999--------------------
Q 003583 385 DAAANAATTTDTKQEGIPPRMFKAVIAASHPEFSSMRQQDALEFFLHFVDQVERVHSGKP-------------------- 444 (809)
Q Consensus 385 ~~~~~~~~~~~~~~~~I~P~~l~~~i~~~~~~F~~~~QQDA~EFl~~LLd~L~~~~~~~~-------------------- 444 (809)
.....++|..|+..++...+.|.+++||||+|||.+||+.|+++.....
T Consensus 72 -----------~~~~~~~p~~~~~~l~~~~~~f~~~~QqDa~Efl~~lLd~L~~e~~~~~~~~~~~~~~~~~~~~~~~~~ 140 (348)
T 3nhe_A 72 -----------SPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPENLDHLPDDEKGR 140 (348)
T ss_dssp -----------CTTCEECCHHHHHHHHHHSGGGSSSCCBCHHHHHHHHHHHHHHHHCSCSSCCCCCCCCCTTSCHHHHHH
T ss_pred -----------CCCCCCCHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHH
T ss_conf -----------898724899999999986064079874479999999999999987530467887752224688227789
Q ss_pred ----------CCCCCCCCCEEEEEEEEE-CCCCEEEEEECCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf ----------999857501089789981-699875311057246511578533466899999987775520698778433
Q 003583 445 ----------EVDPTKSFKFGIEERISC-PSGKVAYNRRLDYILSLGIPLDEATNKEELAAFQKLKMERISEGKDVTNEE 513 (809)
Q Consensus 445 ----------~~~i~~~F~~~l~~~i~C-~C~~v~~~~e~~~~LsL~ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~ 513 (809)
.+.+.++|.|.+.++++| .|+.++.+.++|++|+|+||...
T Consensus 141 ~~~~~~~~~~~s~i~~~F~g~~~~~~~C~~C~~~s~~~e~f~~LsL~i~~~~---------------------------- 192 (348)
T 3nhe_A 141 QMWRKYLEREDSRIGDLFVGQLKSSLTCTDCGYCSTVFDPFWDLSLPIAKRG---------------------------- 192 (348)
T ss_dssp HHHHHHHTTCCCHHHHHHCEEEEEEEEETTTCCEEEEEEEESSEEECCCSSC----------------------------
T ss_pred HHHHHHHHHCCCCCCCCCCEEEEEEEECCCCCCEEEEECCCEEEEEECCCCC----------------------------
T ss_conf 9999987506984555512499989994899988644446547764279855----------------------------
Q ss_pred CCCCCCCHHHHHHHHCCCCCCCC---CCCCCCCCCCCEEEEEECCCCCCEEEEEEEEEEECCCCEEEECEEEECCC-CCC
Q ss_conf 36887469999852139844685---11787887453468740334675159998668981594133030332278-730
Q 003583 514 IVRPRVPLEACLSTFSAPEELPD---FYSTALKAKTTATKSAGLTSFPDYLVLHMRKFVMEAGWVPKKLDVYIDVP-DII 589 (809)
Q Consensus 514 ~~~~~~sL~~cL~~~~~~E~ie~---~~C~~C~~~~~a~k~~~i~~lP~vLiI~LkRF~~~~~~~~~Ki~~~V~fP-~~L 589 (809)
.+.++|++||+.|+.+|.++| |.|++|+.++.+.|+.+|.++|+||+|||+||.++ .+...|+...|.|| ..|
T Consensus 193 --~~~~sl~~~L~~~~~~e~l~~~~~~~C~~C~~~~~~~k~~~i~~lP~vL~i~lkRf~~~-~~~~~K~~~~v~fp~~~l 269 (348)
T 3nhe_A 193 --YPEVTLMDCMRLFTKEDVLDGDEKPTCCRCRGRKRCIKKFSIQRFPKILVLHLKRFSES-RIRTSKLTTFVNFPLRDL 269 (348)
T ss_dssp --SSCEEHHHHHHHHHSCEEECGGGCCEETTTTEECCEEEEEEEEECCSEEEEEECCBCCC-SSCCCBCCCCEECCSSCE
T ss_pred --CCCCCHHHHHHHHCCCEEECCCCCEECCCCCCCCCEEEEEEEECCCCEEEEEEECCCCC-CCCEEECCCCEECCCCCC
T ss_conf --67778999998746805716888567888888564899988132986579998753456-774145686230347758
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCC
Q ss_conf 26534478999998779999999854689978867789999946999579889998808955899999865039999989
Q 003583 590 DISHMRSKGLQPGEELLPEGGPEDEVQSNKPVANKDIVSQLVSMGFNHLHCEKAAVNTSNAGVEEAMNWLLSHMDDPDID 669 (809)
Q Consensus 590 dL~~y~~~~~~~~e~~l~~~~~~~~~~~~~~~~~~~~~~~l~~mgf~~~~~~~a~~~t~n~~~e~a~~wl~~h~ddpd~~ 669 (809)
||.+|+...
T Consensus 270 dl~~~~~~~----------------------------------------------------------------------- 278 (348)
T 3nhe_A 270 DLREFASEN----------------------------------------------------------------------- 278 (348)
T ss_dssp ECGGGBCTT-----------------------------------------------------------------------
T ss_pred CHHHHCCCC-----------------------------------------------------------------------
T ss_conf 776606788-----------------------------------------------------------------------
Q ss_pred CCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 99963322345890224445137999999999999708973320110003999888765432467887899999999999
Q 003583 670 MPLSQETQCAAIDQSKVETLLSFGFSEEVARNALKASGGDIEKATDWIFNNPDASTSSDMDAATSSTAQTPADAGLPDGG 749 (809)
Q Consensus 670 ~p~~~~~~~~~~~~~~i~~l~~mgf~~~~a~~aL~~~~~~~~~a~dwlfs~~dd~~~~~~~~~~~~~~~~~~~~~~~~~~ 749 (809)
...
T Consensus 279 -----------------------------------------------------------------------------~~~ 281 (348)
T 3nhe_A 279 -----------------------------------------------------------------------------TNH 281 (348)
T ss_dssp -----------------------------------------------------------------------------CCC
T ss_pred -----------------------------------------------------------------------------CCC
T ss_conf -----------------------------------------------------------------------------899
Q ss_pred CEEEEEEEEEEECCCCCCCEEEEEEEE--CCCEEEEECCEEECC--CCCCCCCEEEEEEEECCC
Q ss_conf 309999988642467886479999954--791899828611003--589997407999984489
Q 003583 750 GKYRLFGIVSHIGTSTQCGHYVAHILK--DGRWAIFNDNKVGAS--VDPPKEMGYLYFFERLNS 809 (809)
Q Consensus 750 ~~Y~L~avI~H~G~s~~sGHYva~ikk--~~~W~~fND~kV~~~--~~~~~~~~Yiy~Y~R~~~ 809 (809)
..|+|+|||+|.|+ +++|||+||+|. +++|++|||+.|+.+ ++.....||||||+|.+.
T Consensus 282 ~~Y~L~avv~H~G~-~~~GHY~~~~~~~~~~~W~~~nD~~V~~v~~~~v~~~~aY~LfY~r~~~ 344 (348)
T 3nhe_A 282 AVYNLYAVSNHSGT-TMGGHYTAYCRSPGTGEWHTFNDSSVTPMSSSQVRTSDAYLLFYELASP 344 (348)
T ss_dssp CEEEEEEEEEEEEC-SSCEEEEEEEECTTTCCEEEEETTEEEEECGGGTCCTTEEEEEEEECC-
T ss_pred CCEEEEEEEECCCC-CCCCCCEEEECCCCCCCEEEEECCCCEECCHHHCCCCCCEEEEEEECCC
T ss_conf 86799999970489-9996438888169989379983898069988885789836999996487
No 8
>1vjv_A Ubiquitin carboxyl-terminal hydrolase 6; YFR010W, structural genomics, JCSG, PSI, protein structure initiative; HET: MSE; 1.74A {Saccharomyces cerevisiae} SCOP: d.3.1.9
Probab=1.00 E-value=1 Score=474.80 Aligned_cols=364 Identities=16% Similarity=0.221 Sum_probs=256.6
Q ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHCCCCCCC-------CCCHHHHHHHHHHHHHCCCCC
Q ss_conf 5589644434589804588999997442779999814782022100399999-------863899999999998139988
Q 003583 306 LFGPGYTGLVNLGNSCYLAATMQVMFSTHAFCTRYYTQEPLKAAFEAAPADP-------TVDLNMQLTKLAHGLLSGKYS 378 (809)
Q Consensus 306 ~~g~g~~GL~NLGNTCYmNSvLQ~L~~ip~f~~~~l~~~~~~~~~~~~~~~~-------~~~l~~qL~kL~~~l~sg~ys 378 (809)
...++++||.|+|||||||||||+|+++|+|+++++..... . ....+ ..++.++|++|+..|+.+
T Consensus 19 ~~~~~~~GL~NlGNTCYmNSvLQ~L~~~p~fr~~ll~~~~~--~---~~~~~~~~~~~~~~~l~~~l~~lf~~l~~~--- 90 (415)
T 1vjv_A 19 QFAQLPVGFKNMGNTCYLNATLQALYRVNDLRDMILNYNPS--Q---GVSNSGAQDEEIHKQIVIEMKRCFENLQNK--- 90 (415)
T ss_dssp CCCCCCCEECCCSSCHHHHHHHHHHHHSHHHHHHHHTCCGG--G---CCSCTTSTTHHHHHHHHHHHHHHHHHHHCC---
T ss_pred CCCCCCCCCEECCCCCHHHHHHHHHHCCHHHHHHHHHCCCC--C---CCCCCCCCCCCCHHHHHHHHHHHHHHHHCC---
T ss_conf 35789888773885139999999997479999999712654--4---667764334441138999999999998607---
Q ss_pred CCHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCC-------CCCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 9713455542025567998788892779999980098888-------766577899999999999988079999998575
Q 003583 379 VPAQEKDAAANAATTTDTKQEGIPPRMFKAVIAASHPEFS-------SMRQQDALEFFLHFVDQVERVHSGKPEVDPTKS 451 (809)
Q Consensus 379 ~~~~~~~~~~~~~~~~~~~~~~I~P~~l~~~i~~~~~~F~-------~~~QQDA~EFl~~LLd~L~~~~~~~~~~~i~~~ 451 (809)
....|+|..|+..++..++.|. +++||||+|||.+||+.|++++.. +.+.++
T Consensus 91 ------------------~~~~v~p~~~~~~l~~~~~~f~~~~~~~~~~~QqDa~Efl~~lLd~L~~~~~~---~~i~~~ 149 (415)
T 1vjv_A 91 ------------------SFKSVLPVVLLNTLRKCYPQFAERDSQGGFYKQQDAEELFTQLFHSMSIVFGD---KFSEDF 149 (415)
T ss_dssp -------------------CCEECCHHHHHHHHHHCGGGGCBC----CBCCCCHHHHHHHHHHHHHHHHTH---HHHTTT
T ss_pred ------------------CCCCCCHHHHHHHHHHHCCHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCC---CHHHHH
T ss_conf ------------------99843779999999875850210466777766668999999999999987343---469999
Q ss_pred CCEEEEEEEEE-CCCCEE--EEEECCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 01089789981-699875--311057246511578533466899999987775520698778433368874699998521
Q 003583 452 FKFGIEERISC-PSGKVA--YNRRLDYILSLGIPLDEATNKEELAAFQKLKMERISEGKDVTNEEIVRPRVPLEACLSTF 528 (809)
Q Consensus 452 F~~~l~~~i~C-~C~~v~--~~~e~~~~LsL~ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~sL~~cL~~~ 528 (809)
|+ .++++++| .|+.++ .+.++|++|+|+||... .+|++||+.|
T Consensus 150 F~-~~~~~~~C~~C~~~s~s~~~e~f~~Lsl~i~~~~---------------------------------~~l~~~L~~~ 195 (415)
T 1vjv_A 150 RI-QFKTTIKDTANDNDITVKENESDSKLQCHISGTT---------------------------------NFMRNGLLEG 195 (415)
T ss_dssp CE-EEEEEEEETTEEEEEEEECCCEESCEEECCCTTC---------------------------------CBHHHHHHHH
T ss_pred HH-HHEEEEEECCCCCCCCCCCCCCCEEEEECCCCCC---------------------------------CHHHHHHHHH
T ss_conf 98-6117999779998746313545436651256661---------------------------------2389999987
Q ss_pred CCCCCCCCCCCCCCCCCCCEEEEEECCCCCCEEEEEEEEEEECCC-CEEEECEEEECCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 398446851178788745346874033467515999866898159-4133030332278730265344789999987799
Q 003583 529 SAPEELPDFYSTALKAKTTATKSAGLTSFPDYLVLHMRKFVMEAG-WVPKKLDVYIDVPDIIDISHMRSKGLQPGEELLP 607 (809)
Q Consensus 529 ~~~E~ie~~~C~~C~~~~~a~k~~~i~~lP~vLiI~LkRF~~~~~-~~~~Ki~~~V~fP~~LdL~~y~~~~~~~~e~~l~ 607 (809)
+. +.++ ++|++|+....++|+.+|.++|+||+|||+||.++.. +...|++..|.||..|||.+|+..+.++...
T Consensus 196 ~~-e~i~-~~c~~c~~~~~a~k~~~i~~lP~vL~i~LkRF~~~~~~~~~~Ki~~~V~FP~~Ldl~~~~~~~~~~~~~--- 270 (415)
T 1vjv_A 196 LN-EKIE-KRSDLTGANSIYSVEKKISRLPKFLTVQYVRFFWKRSTNKKSKILRKVVFPFQLDVADMLTPEYAAEKV--- 270 (415)
T ss_dssp HE-EC----------CCCCEEEEEEEEECBSEEEEEECCEEEETTTTEEEECCCCCBCCSEEECGGGBCHHHHHHHH---
T ss_pred HH-HHHH-HCCCCCCCCCCEEEEEECCCCCCEEEEEEEEEEEECCCCCCHHHCCCCCCCCEEEHHHHCCHHHHHHHH---
T ss_conf 44-5553-146121786427888770269971599998899837888404316764799576767842833322212---
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHC--CCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 99999854689978867789999946--9995798899988089558999998650399999899996332234589022
Q 003583 608 EGGPEDEVQSNKPVANKDIVSQLVSM--GFNHLHCEKAAVNTSNAGVEEAMNWLLSHMDDPDIDMPLSQETQCAAIDQSK 685 (809)
Q Consensus 608 ~~~~~~~~~~~~~~~~~~~~~~l~~m--gf~~~~~~~a~~~t~n~~~e~a~~wl~~h~ddpd~~~p~~~~~~~~~~~~~~ 685 (809)
+..+.+..+..- +-.. ..+++.. + . .|.+.. ..+..
T Consensus 271 --------------~~r~~~~~~~~~~~e~~~-~~k~~~~---~--------~---~~~~~~-------------~~~~~ 308 (415)
T 1vjv_A 271 --------------KVRDELRKVEKEKNEKER-EIKRRKF---D--------P---SSSENV-------------MTPRE 308 (415)
T ss_dssp --------------HHHHHHHHHHHHHHHC-------------------------------C-------------CCHHH
T ss_pred --------------HHHHHHHHHHHHHHHHHH-HHHHCCC---C--------C---CCCCCC-------------CCCCH
T ss_conf --------------157999987533334566-5531022---5--------5---544443-------------45310
Q ss_pred HHHHHCCCCCHHHHHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEECCCC
Q ss_conf 44451379999999999997089733201100039998887654324678878999999999993099999886424678
Q 003583 686 VETLLSFGFSEEVARNALKASGGDIEKATDWIFNNPDASTSSDMDAATSSTAQTPADAGLPDGGGKYRLFGIVSHIGTST 765 (809)
Q Consensus 686 i~~l~~mgf~~~~a~~aL~~~~~~~~~a~dwlfs~~dd~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~L~avI~H~G~s~ 765 (809)
.+ .++.+..+..++.+ ...++.-+...++ .....+..|+|+|||+|.|.++
T Consensus 309 ~e--~~~~~~~~~~~~~~-------~~~~~~~~~~~~~--------------------~~~~~~~~Y~L~aVv~H~G~s~ 359 (415)
T 1vjv_A 309 QY--ETQVALNESEKDQW-------LEEYKKHFPPNLE--------------------KGENPSCVYNLIGVITHQGANS 359 (415)
T ss_dssp HH--HHHHHHHHHHHHHH-------HHHHHTTSCTTCC--------------------TTBCSSSEEEEEEEEEEESSST
T ss_pred HH--HHCHHHHHHHHHHH-------HHHCCCCCCCCCC--------------------CCCCCCCEEEEEEEEEECCCCC
T ss_conf 22--20125677655443-------3320533343232--------------------3567884388999999358999
Q ss_pred CCCEEEEEEEE---CCCEEEEECCEEECCCC---------CCCCCEEEEEEEECC
Q ss_conf 86479999954---79189982861100358---------999740799998448
Q 003583 766 QCGHYVAHILK---DGRWAIFNDNKVGASVD---------PPKEMGYLYFFERLN 808 (809)
Q Consensus 766 ~sGHYva~ikk---~~~W~~fND~kV~~~~~---------~~~~~~Yiy~Y~R~~ 808 (809)
++||||||||. +++||+|||++|+.+.. .....||||||+|++
T Consensus 360 ~~GHY~a~vr~~~~~~~W~~fnD~~V~~v~~~~v~~~~~g~~~~~aYiLfY~r~~ 414 (415)
T 1vjv_A 360 ESGHYQAFIRDELDENKWYKFNDDKVSVVEKEKIESLAGGGESDSALILMYKGFG 414 (415)
T ss_dssp TSSEEEEEEECSSCTTCEEEEETTEEEEECHHHHHGGGCCTTSCEEEEEEEEETT
T ss_pred CCCCEEEEEECCCCCCCEEEEECCCCEECCHHHHHHHCCCCCCCEEEEEEEEECC
T ss_conf 9988799994788899489967885767279997642079876607999999547
No 9
>1nb8_A Ubiquitin carboxyl-terminal hydrolase 7; UBP, deubiquitination, hausp, P53 binding; 2.30A {Homo sapiens} SCOP: d.3.1.9 PDB: 1nbf_A
Probab=1.00 E-value=1 Score=458.16 Aligned_cols=288 Identities=21% Similarity=0.350 Sum_probs=245.0
Q ss_pred CCCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHHHHH
Q ss_conf 89644434589804588999997442779999814782022100399999863899999999998139988971345554
Q 003583 308 GPGYTGLVNLGNSCYLAATMQVMFSTHAFCTRYYTQEPLKAAFEAAPADPTVDLNMQLTKLAHGLLSGKYSVPAQEKDAA 387 (809)
Q Consensus 308 g~g~~GL~NLGNTCYmNSvLQ~L~~ip~f~~~~l~~~~~~~~~~~~~~~~~~~l~~qL~kL~~~l~sg~ys~~~~~~~~~ 387 (809)
.+|++||.|+|||||||||||+|+++|+|+++++.... ....+..++.++|++|+..|+.+
T Consensus 3 ~~g~~GL~NlGnTCYmNSvLQ~L~~~~~~r~~~~~~~~-------~~~~~~~~~~~~l~~lf~~l~~~------------ 63 (353)
T 1nb8_A 3 HTGYVGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPT-------EGDDSSKSVPLALQRVFYELQHS------------ 63 (353)
T ss_dssp CSSCCCBCCCSTTTTHHHHHHHHHTCHHHHHHHHTSCC-------TTSCTTTCHHHHHHHHHHHHHHC------------
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHCCC-------CCCCCCCCHHHHHHHHHHHHHHC------------
T ss_conf 88998756474544989999999777999999983787-------77765440999999999988605------------
Q ss_pred HHCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCC-CCCCCCCCCEEEEEEEEE-CCC
Q ss_conf 202556799878889277999998009888876657789999999999998807999-999857501089789981-699
Q 003583 388 ANAATTTDTKQEGIPPRMFKAVIAASHPEFSSMRQQDALEFFLHFVDQVERVHSGKP-EVDPTKSFKFGIEERISC-PSG 465 (809)
Q Consensus 388 ~~~~~~~~~~~~~I~P~~l~~~i~~~~~~F~~~~QQDA~EFl~~LLd~L~~~~~~~~-~~~i~~~F~~~l~~~i~C-~C~ 465 (809)
..++.|..|+..++ ++.|.+++||||+|||.+||+.|+++.+... .+.+.++|+|.+.++++| .|+
T Consensus 64 ----------~~~~~~~~l~~~~~--~~~~~~~~QqDA~EFl~~LLd~L~~~~~~~~~~s~i~~~F~g~~~~~i~C~~C~ 131 (353)
T 1nb8_A 64 ----------DKPVGTKKLTKSFG--WETLDSFMQHDVQELCRVLLDNVENKMKGTCVEGTIPKLFRGKMVSYIQCKEVD 131 (353)
T ss_dssp ----------SSCBCCHHHHHHHT--CCBTTTTTTSCHHHHHHHHHHHHHHHTTTSTTTTHHHHHHCEEEEEEEEESSSC
T ss_pred ----------CCCCCCHHHHHHCC--CCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHCEEEEEEEEEECCCC
T ss_conf ----------88778779986418--877786532639999999999999884488755512350305899999925689
Q ss_pred CEEEEEECCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCC---CCCCCC
Q ss_conf 87531105724651157853346689999998777552069877843336887469999852139844685---117878
Q 003583 466 KVAYNRRLDYILSLGIPLDEATNKEELAAFQKLKMERISEGKDVTNEEIVRPRVPLEACLSTFSAPEELPD---FYSTAL 542 (809)
Q Consensus 466 ~v~~~~e~~~~LsL~ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~sL~~cL~~~~~~E~ie~---~~C~~C 542 (809)
.++.+.++|++|+|+||.. .+|.+||+.|+.+|.+++ |.|+.|
T Consensus 132 ~~s~~~e~f~~LsL~i~~~----------------------------------~~l~~~L~~~~~~E~l~~~~~~~C~~c 177 (353)
T 1nb8_A 132 YRSDRREDYYDIQLSIKGK----------------------------------KNIFESFVDYVAVEQLDGDNKYDAGEH 177 (353)
T ss_dssp CEEEEEEEESCEEECCTTC----------------------------------SBHHHHHHHHTCCEEECTTTCEECGGG
T ss_pred CEECEEEEEEEEEEEECCC----------------------------------CCHHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf 7002222327998897997----------------------------------645779998517342478753147767
Q ss_pred CCCCCEEEEEECCCCCCEEEEEEEEEEECCC-CEEEECEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 8745346874033467515999866898159-413303033227873026534478999998779999999854689978
Q 003583 543 KAKTTATKSAGLTSFPDYLVLHMRKFVMEAG-WVPKKLDVYIDVPDIIDISHMRSKGLQPGEELLPEGGPEDEVQSNKPV 621 (809)
Q Consensus 543 ~~~~~a~k~~~i~~lP~vLiI~LkRF~~~~~-~~~~Ki~~~V~fP~~LdL~~y~~~~~~~~e~~l~~~~~~~~~~~~~~~ 621 (809)
+ ++.|.|+.+|.++|+||+|||+||.++.. |...|++..|.||..|||.+|+....
T Consensus 178 ~-~~~a~k~~~i~~lP~vL~i~LkRF~~~~~~~~~~K~~~~v~fp~~Ldl~~~~~~~~---------------------- 234 (353)
T 1nb8_A 178 G-LQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEFLQKTD---------------------- 234 (353)
T ss_dssp C-EECEEEEEEESCCCSEEEEEECCCC--------CCCCCCCBCCSEEECGGGBSSCC----------------------
T ss_pred C-CEEEEEEEEHHCCCCCEEEEEECEEEECCCCCEEECCCEEECCCEEEHHHHHCCCC----------------------
T ss_conf 5-17568988840099725999836798423595075582897797665235221337----------------------
Q ss_pred CCHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCHHHHHH
Q ss_conf 86778999994699957988999880895589999986503999998999963322345890224445137999999999
Q 003583 622 ANKDIVSQLVSMGFNHLHCEKAAVNTSNAGVEEAMNWLLSHMDDPDIDMPLSQETQCAAIDQSKVETLLSFGFSEEVARN 701 (809)
Q Consensus 622 ~~~~~~~~l~~mgf~~~~~~~a~~~t~n~~~e~a~~wl~~h~ddpd~~~p~~~~~~~~~~~~~~i~~l~~mgf~~~~a~~ 701 (809)
T Consensus 235 -------------------------------------------------------------------------------- 234 (353)
T 1nb8_A 235 -------------------------------------------------------------------------------- 234 (353)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred --------------------------------------------------------------------------------
T ss_conf --------------------------------------------------------------------------------
Q ss_pred HHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEECCCCCCCEEEEEEEE--CCC
Q ss_conf 999708973320110003999888765432467887899999999999309999988642467886479999954--791
Q 003583 702 ALKASGGDIEKATDWIFNNPDASTSSDMDAATSSTAQTPADAGLPDGGGKYRLFGIVSHIGTSTQCGHYVAHILK--DGR 779 (809)
Q Consensus 702 aL~~~~~~~~~a~dwlfs~~dd~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~L~avI~H~G~s~~sGHYva~ikk--~~~ 779 (809)
...+..|+|+|||+|.|+ +++|||+||+|. +++
T Consensus 235 --------------------------------------------~~~~~~Y~L~avv~H~G~-~~~GHY~a~v~~~~~~~ 269 (353)
T 1nb8_A 235 --------------------------------------------PKDPANYILHAVLVHSGD-NHGGHYVVYLNPKGDGK 269 (353)
T ss_dssp --------------------------------------------TTSCCEEEEEEEEEEESS-TTCCCEEEEECTTSSSC
T ss_pred --------------------------------------------CCCCCEEEEEEEEEEECC-CCCCEEEEEEECCCCCC
T ss_conf --------------------------------------------899815999999997478-98867999994599998
Q ss_pred EEEEECCEEECCCC--C---------------CCCCEEEEEEEECC
Q ss_conf 89982861100358--9---------------99740799998448
Q 003583 780 WAIFNDNKVGASVD--P---------------PKEMGYLYFFERLN 808 (809)
Q Consensus 780 W~~fND~kV~~~~~--~---------------~~~~~Yiy~Y~R~~ 808 (809)
||+|||+.|+.+.. . ....||||||+|.+
T Consensus 270 W~~fnD~~V~~v~~~~v~~~~~gg~~~~~~~~~~~~aYiLfY~r~~ 315 (353)
T 1nb8_A 270 WCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRES 315 (353)
T ss_dssp CEEEETTEEEECCHHHHTGGGSCCC-------CCEEEEEEEEEETT
T ss_pred EEEEECCCEEECCHHHHHHHHCCCCCCCCCCCCCCEEEEEEEEECC
T ss_conf 8999896028978899988723897654446768807999999885
No 10
>2f1z_A Ubiquitin carboxyl-terminal hydrolase 7; hausp, USP7, UBP, deubiquitinating enzyme, substrate recognition; 3.20A {Homo sapiens}
Probab=1.00 E-value=1 Score=454.70 Aligned_cols=291 Identities=21% Similarity=0.342 Sum_probs=245.7
Q ss_pred CCCCCCCCCCCCCCCHHHHHHHHHHHHCHHHHHHHHHCCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCHHHH
Q ss_conf 55589644434589804588999997442779999814782022100399999863899999999998139988971345
Q 003583 305 PLFGPGYTGLVNLGNSCYLAATMQVMFSTHAFCTRYYTQEPLKAAFEAAPADPTVDLNMQLTKLAHGLLSGKYSVPAQEK 384 (809)
Q Consensus 305 p~~g~g~~GL~NLGNTCYmNSvLQ~L~~ip~f~~~~l~~~~~~~~~~~~~~~~~~~l~~qL~kL~~~l~sg~ys~~~~~~ 384 (809)
+...+|++||.|+||||||||+||+|+++|+|+++++.... ....+..++.++|++|+..|+.+
T Consensus 169 ~~~~~g~~GL~NlGnTCYmNSvLQ~L~~~~~fr~~~~~~~~-------~~~~~~~~~~~~l~~lf~~l~~~--------- 232 (522)
T 2f1z_A 169 SKKHTGYVGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPT-------EGDDSSKSVPLALQRVFYELQHS--------- 232 (522)
T ss_dssp TTTTTSCCCBCCC--CTTHHHHHHHHHTCHHHHHHHHTCCC-------CSSCTTTCHHHHHHHHHHHHHHC---------
T ss_pred CCCCCCCCCEECCCCCHHHHHHHHHHHCCHHHHHHHHHCCC-------CCCCCCCHHHHHHHHHHHHHHCC---------
T ss_conf 65567854411386318888999998612999999960665-------67765652899999999998637---------
Q ss_pred HHHHHCCCCCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCC-CCCCCCCCCCEEEEEEEEE-
Q ss_conf 55420255679987888927799999800988887665778999999999999880799-9999857501089789981-
Q 003583 385 DAAANAATTTDTKQEGIPPRMFKAVIAASHPEFSSMRQQDALEFFLHFVDQVERVHSGK-PEVDPTKSFKFGIEERISC- 462 (809)
Q Consensus 385 ~~~~~~~~~~~~~~~~I~P~~l~~~i~~~~~~F~~~~QQDA~EFl~~LLd~L~~~~~~~-~~~~i~~~F~~~l~~~i~C- 462 (809)
..++.|..|+..++ ++.|.+++||||+|||.+||+.|+++++.. ..+.+.++|+|.+.++++|
T Consensus 233 -------------~~~~~~~~l~~~~~--~~~~~~~~QqDa~Efl~~LLd~L~~~l~~~~~~s~i~~lF~G~~~s~i~C~ 297 (522)
T 2f1z_A 233 -------------DKPVGTKKLTKSFG--WETLDSFMQHDVQELCRVLLDNVENKMKGTCVEGTIPKLFRGKMVSYIQCK 297 (522)
T ss_dssp -------------SSCBCCTTHHHHTC--CCTTTSSTTSCHHHHHHHHHHHHHHHHTTSTTTTHHHHHHCEEEEEEECCS
T ss_pred -------------CCCCCCHHHHHHCC--CCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCHHHHEEEEEEEEEECC
T ss_conf -------------98557678886418--765787626469999999999998641588656602131337999988727
Q ss_pred CCCCEEEEEECCEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCCCC---CCC
Q ss_conf 69987531105724651157853346689999998777552069877843336887469999852139844685---117
Q 003583 463 PSGKVAYNRRLDYILSLGIPLDEATNKEELAAFQKLKMERISEGKDVTNEEIVRPRVPLEACLSTFSAPEELPD---FYS 539 (809)
Q Consensus 463 ~C~~v~~~~e~~~~LsL~ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~sL~~cL~~~~~~E~ie~---~~C 539 (809)
.|+.++.+.++|++|+|+||.. .+|.+||+.|+.+|.+++ |.|
T Consensus 298 ~C~~~s~~~e~f~~LsL~i~~~----------------------------------~~l~~~L~~~~~~E~l~~~n~~~C 343 (522)
T 2f1z_A 298 EVDYRSDRREDYYDIQLSIKGK----------------------------------KNIFESFVDYVAVEQLDGDNKYDA 343 (522)
T ss_dssp SSCCCCCEEEEESCEEECCTTC----------------------------------CBHHHHHHHHTCEEEECTTSCBCC
T ss_pred CCCCEEEEEEEEEEEEEEECCC----------------------------------CCCHHHHHHHHCEEECCCCCEEEC
T ss_conf 8995553663207898884786----------------------------------440679987405022277620404
Q ss_pred CCCCCCCCEEEEEECCCCCCEEEEEEEEEEECCC-CEEEECEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 8788745346874033467515999866898159-413303033227873026534478999998779999999854689
Q 003583 540 TALKAKTTATKSAGLTSFPDYLVLHMRKFVMEAG-WVPKKLDVYIDVPDIIDISHMRSKGLQPGEELLPEGGPEDEVQSN 618 (809)
Q Consensus 540 ~~C~~~~~a~k~~~i~~lP~vLiI~LkRF~~~~~-~~~~Ki~~~V~fP~~LdL~~y~~~~~~~~e~~l~~~~~~~~~~~~ 618 (809)
+.|+ ++.|.|+.+|.++|+||+||||||.++.. +...|++..|.||..|||.+|+....
T Consensus 344 ~~c~-~~~a~k~~~i~~lP~vL~i~LkRF~~~~~~~~~~Ki~~~v~fp~~Ldl~~~~~~~~------------------- 403 (522)
T 2f1z_A 344 GEHG-LQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEFLQKTD------------------- 403 (522)
T ss_dssp GGGC-SBCEEEEEEESCCCSEEEEEECCEEECSSSSCEEECCCCCBCCSEEECGGGBSSCC-------------------
T ss_pred CCCC-CCCEEEEEEEECCCCEEEEEEEEEEECCCCCCCEECCCEEECCCEECCHHHHCCCC-------------------
T ss_conf 7677-65367999934199638999874788166785267682796788134435405446-------------------
Q ss_pred CCCCCHHHHHHHHHCCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHHHCCCCCHHH
Q ss_conf 97886778999994699957988999880895589999986503999998999963322345890224445137999999
Q 003583 619 KPVANKDIVSQLVSMGFNHLHCEKAAVNTSNAGVEEAMNWLLSHMDDPDIDMPLSQETQCAAIDQSKVETLLSFGFSEEV 698 (809)
Q Consensus 619 ~~~~~~~~~~~l~~mgf~~~~~~~a~~~t~n~~~e~a~~wl~~h~ddpd~~~p~~~~~~~~~~~~~~i~~l~~mgf~~~~ 698 (809)
T Consensus 404 -------------------------------------------------------------------------------- 403 (522)
T 2f1z_A 404 -------------------------------------------------------------------------------- 403 (522)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred --------------------------------------------------------------------------------
T ss_conf --------------------------------------------------------------------------------
Q ss_pred HHHHHHHCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEECCCCCCCEEEEEEEE--
Q ss_conf 999999708973320110003999888765432467887899999999999309999988642467886479999954--
Q 003583 699 ARNALKASGGDIEKATDWIFNNPDASTSSDMDAATSSTAQTPADAGLPDGGGKYRLFGIVSHIGTSTQCGHYVAHILK-- 776 (809)
Q Consensus 699 a~~aL~~~~~~~~~a~dwlfs~~dd~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~L~avI~H~G~s~~sGHYva~ikk-- 776 (809)
...+..|+|+|||+|.|. +++|||+||||.
T Consensus 404 -----------------------------------------------~~~~~~Y~L~avv~H~G~-~~~GHY~a~v~~~~ 435 (522)
T 2f1z_A 404 -----------------------------------------------PKDPANYILHAVLVHSGD-NHGGHYVVYLNPKG 435 (522)
T ss_dssp -----------------------------------------------TTSCCEEEEEEEEEEECS-SSCSEEEEEECTTS
T ss_pred -----------------------------------------------CCCCCEEEEEEEEEECCC-CCCCEEEEEEECCC
T ss_conf -----------------------------------------------899837999999996456-99866899994389
Q ss_pred CCCEEEEECCEEECCCC--C---------------CCCCEEEEEEEECC
Q ss_conf 79189982861100358--9---------------99740799998448
Q 003583 777 DGRWAIFNDNKVGASVD--P---------------PKEMGYLYFFERLN 808 (809)
Q Consensus 777 ~~~W~~fND~kV~~~~~--~---------------~~~~~Yiy~Y~R~~ 808 (809)
+++||+|||++|+.+.. . ....||||||+|.+
T Consensus 436 ~~~W~~fnD~~V~~v~~~~v~~~~~Gg~~~~~~~~~~~~aYiLfY~r~~ 484 (522)
T 2f1z_A 436 DGKWCKFDDDVVSRCTKEEAIEHNYGGHDDDLSVRHCTNAYMLVYIRES 484 (522)
T ss_dssp SSCCEEEETTEEEECCHHHHSTTSSCCC--------CEEEEEEEEEETT
T ss_pred CCCEEEEECCEEEECCHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEECC
T ss_conf 9989999783248998999988633887543345768934999999888
Done!