Query 000342
Match_columns 1634
No_of_seqs 238 out of 1421
Neff 5.9
Searched_HMMs 29240
Date Tue Mar 26 15:56:50 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/000342.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_122-125//hhsearch_pdb/000342hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2y6e_A Ubiquitin carboxyl-term 1.0 1 1 412.8 28.5 315 1297-1634 5-359 (367)
2 2gfo_A Ubiquitin carboxyl-term 1.0 1 1 411.9 22.3 309 1296-1634 58-396 (396)
3 3nhe_A Ubiquitin carboxyl-term 1.0 1 1 404.4 25.8 311 1297-1634 6-343 (348)
4 2ayn_A Ubiquitin carboxyl-term 1.0 1 1 400.2 24.5 311 1297-1634 11-394 (404)
5 3i3t_A Ubiquitin carboxyl-term 1.0 1 1 399.6 22.9 311 1298-1634 1-351 (355)
6 1vjv_A Ubiquitin carboxyl-term 1.0 1 1 395.2 25.1 291 1296-1634 20-414 (415)
7 1nb8_A Ubiquitin carboxyl-term 1.0 1 1 393.0 27.9 287 1297-1634 3-315 (353)
8 2f1z_A Ubiquitin carboxyl-term 1.0 1 1 390.9 26.7 287 1297-1634 172-484 (522)
9 3ihp_A Ubiquitin carboxyl-term 1.0 1 1 388.9 24.1 292 1297-1634 341-853 (854)
10 3mhs_A Ubiquitin carboxyl-term 1.0 1 1 386.0 21.9 305 1298-1633 139-473 (476)
No 1
>2y6e_A Ubiquitin carboxyl-terminal hydrolase 4; HET: CME; 2.40A {Homo sapiens}
Probab=1.00 E-value=1 Score=412.76 Aligned_cols=315 Identities=19% Similarity=0.304 Sum_probs=238.7
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-----CCHHHHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf 44576765789887655339999998239999999235999877569-----7379999999999986146899986307
Q 000342 1297 DVYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPSEHIHVG-----EPCVVCALYEIFTALSIASTDTRKEAVA 1371 (1634)
Q Consensus 1297 ~v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~~~~~~~-----e~cv~~aL~~LF~~L~~ss~g~~~~~Vs 1371 (1634)
..+.+||.|+| |||||||+||||+|+|+|+++|+......+.... ..++.++|+.||..|+.. ....+.
T Consensus 5 ~~g~~GL~NlG--NTCYmNSvLQ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~L~~~l~~~----~~~~i~ 78 (367)
T 2y6e_A 5 QPGLCGLGNLG--NTCFMNSALQCLSNTAPLTDYFLKDEYEAEINRDNPLGMKGEIAEAYAELIKQMWSG----RDAHVA 78 (367)
T ss_dssp CTTCCEECCCS--SCHHHHHHHHHHHTCHHHHHHHHTTCGGGGCCSSCTTSCTTHHHHHHHHHHHHHTSS----SCSEEC
T ss_pred CCCCCCCCCCC--CCHHHHHHHHHHHCCHHHHHHHHCCCHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCC----CCCCCC
T ss_conf 98980876488--564989999999777999999973722555044698886429999999999999748----998738
Q ss_pred CHHHHHHHHHHCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC-------CCCCCC--CCCCCCCC
Q ss_conf 188999996128997000000126599999999999985309999999884111236-------898866--78875430
Q 000342 1372 PTSLRIALSNLYPDSNFFQEAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVESNC-------MGSWDC--TNSACIVH 1442 (1634)
Q Consensus 1372 P~~Lr~aL~ki~p~~~~F~~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e~~~-------~~~w~~--~~~~SiI~ 1442 (1634)
|..|+.+++...+. |.+++||||||||.+|||.||+++......+..+...... ...|.. ....++|+
T Consensus 79 P~~~~~~l~~~~~~---f~~~~QqDA~Efl~~LLd~L~~~l~~~~~~~~~~~~~~~g~~~~~~a~~~w~~~~~~~~s~i~ 155 (367)
T 2y6e_A 79 PRMFKTQVGRFAPQ---FSGYQQQDSQELLAFLLDGLHEDLNRVKKKPYLELKDANGRPDAVVAKEAWENHRLRNDSVIV 155 (367)
T ss_dssp CHHHHHHHHHHCGG---GCSSSCCCHHHHHHHHHHHHHHHTCSCSSCCCCCCCCCCSCCHHHHHHHHHHHHHHHCCSHHH
T ss_pred HHHHHHHHHHHHHH---CCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf 79999999974041---089878787999999999999998751257764455656796067789999998870698230
Q ss_pred CCCCCEEEEEEECCCCCCCCCCCCCCCEEEC---CCCHHHHHHH--------HHCCCCCHHHHHHHHHCC------CCCC
Q ss_conf 2332058999960588963333334320011---3500124555--------313558799999998313------5433
Q 000342 1443 SLFGMDIFERMNCYSCGLESRHLKYTSFFHN---INASALRTMK--------VMCAESSLDELLNLVEMN------HQLA 1505 (1634)
Q Consensus 1443 ~LF~G~l~s~i~C~~C~~~S~~~~~~sf~~l---I~as~l~~~k--------~~~~~~Sl~dlLk~~~~e------e~~~ 1505 (1634)
++|+|.+.++++|..|+.+|.+ +++|+.+ |+........ ......+++++|+.++.. +.|.
T Consensus 156 ~~F~G~l~s~~~C~~C~~~s~~--~e~f~~LsL~ip~~~~~~~~~~~~~~~~~~~~~~sL~~~L~~f~~~E~l~~~~~~~ 233 (367)
T 2y6e_A 156 DTFHGLFKSTLVCPECAKVSVT--FDPFCYLTLPLPLKKDRVMEGPMLQPQKKKKTTVALRDCIELFTTMETLGEHDPWY 233 (367)
T ss_dssp HHHCEEEEEEEECTTTCCEEEE--EEEESSEEEECCC-------------------CEEHHHHHHHHTSCEECCC-CCEE
T ss_pred CCCCCEEEEEEEECCCCCEEEE--ECCCEEEEEECCCCCCCCCEEEEECCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCC
T ss_conf 1337688435890899998533--75670577317987677501332056445678888999999861616478998724
Q ss_pred CCCCCCCCCCC--CEEEEEEECCCCEEEEEEEEECCCC-CCCCCCCCCCCCCC-CCCCCCCCCCC-CCCCCEEEEEEEEE
Q ss_conf 58999887742--1078885046770899998616886-42111222110110-01233222379-99984899999988
Q 000342 1506 CDPGAGGCEKL--NYIHHILSTPPHVFTTVLGWQNTCE-SFDDITATLAALSP-EIDISILYRGL-DPKRRHSLVSVVCY 1580 (1634)
Q Consensus 1506 Ce~~c~~Cgkk--~~k~~~IsrLP~VLiIhLkw~~~~~-s~~kI~~~i~~fp~-eLDLs~f~~g~-d~~~~Y~L~AVV~H 1580 (1634)
|+ +|+++ ..++..|.++|+||+|||+||.... ...|+...+. ||. .|||++|+... .....|+|+|||+|
T Consensus 234 C~----~C~~~~~a~K~~~i~~lP~vL~i~LkRF~~~~~~~~K~~~~v~-fp~~~Ldl~~~~~~~~~~~~~Y~L~avv~H 308 (367)
T 2y6e_A 234 CP----NCKKHQQATKKFDLWSLPKILVVHLKRFSYNRYWRDKLDTVVE-FPIRGLNMSEFVCNLSARPYVYDLIAVSNH 308 (367)
T ss_dssp ET----TTTEEECCEEEEEEEECCSEEEEEEECEEECSSCEEECCCCEE-CCSSCEECGGGBSCSSSCCCEEEEEEEEEE
T ss_pred CC----CCCCCCEEEEEEEEECCCCEEEEEEECEEECCCCCEECCCEEE-ECCCCCCHHHHCCCCCCCCCEEEEEEEEEC
T ss_conf 87----8788750789988824885789998476505766335376389-317767756642587889714889988562
Q ss_pred EC----CEEEEEEEECCCCCEEEECCCCEEEECCHHHHHHHCCCCCCCEEEEEEEECC
Q ss_conf 39----6499999847999699991981079289255631002799840999999529
Q 000342 1581 YG----QHYHCFAYSHDQERWIMYDDKTVKVVGSWSDVLSMCERGHLQPQVLFFEAVN 1634 (1634)
Q Consensus 1581 ~G----GHYvayVr~~~~~kW~~fDD~~Vt~Vs~WedVLs~~~~~~~qpYILFYERvn 1634 (1634)
.| |||+||+|+..+++||+|||+.|+.|+. ++|++ .+||||||+|.+
T Consensus 309 ~G~~~~GHY~a~~~~~~~~~W~~fnD~~V~~v~~-~~v~~------~~aYiLfY~r~~ 359 (367)
T 2y6e_A 309 YGAMGVGHYTAYAKNKLNGKWYYFDDSNVSLASE-DQIVT------KAAYVLFYQRRD 359 (367)
T ss_dssp ECSSSSCEEEEEEECTTTCCEEEEETTEEEECCG-GGTSS------TTEEEEEEEECC
T ss_pred CCCCCCCEEEEEEECCCCCEEEEECCCCCEECCH-HHCCC------CCCEEEEEEECC
T ss_conf 8999887366788769999089977987339988-88688------973799999738
No 2
>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=411.92 Aligned_cols=309 Identities=20% Similarity=0.363 Sum_probs=236.4
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCC-----CCCCHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 6445767657898876553399999982399999992359998775-----69737999999999998614689998630
Q 000342 1296 IDVYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPSEHIH-----VGEPCVVCALYEIFTALSIASTDTRKEAV 1370 (1634)
Q Consensus 1296 s~v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~~~~~-----~~e~cv~~aL~~LF~~L~~ss~g~~~~~V 1370 (1634)
...+.+||.|+| |||||||+||||+|+|+|+++|+......+.. ....++.++++.+|..||.. ....+
T Consensus 58 ~~~g~~GL~NlG--NTCYmNSvLQ~L~~~p~~~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~----~~~~i 131 (396)
T 2gfo_A 58 SGPALTGLRNLG--NTCYMNSILQCLCNAPHLADYFNRNCYQDDINRSNLLGHKGEVAEEFGIIMKALWTG----QYRYI 131 (396)
T ss_dssp SSTTCCEECCSS--SCHHHHHHHHHHHTCHHHHHHHHTTTHHHHCCTTCTTSCTTHHHHHHHHHHHHHHHS----CEEEE
T ss_pred CCCCCCCCCCCC--CCHHHHHHHHHHHCCHHHHHHHHCCCCHHHHCCCCCCCCCCHHHHHHHHHHHHHHCC----CCCEE
T ss_conf 877866656168--741672999985378899999970742133123587774109999999999999709----98437
Q ss_pred CCHHHHHHHHHHCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCC-------CCCCCC--CCCCCCC
Q ss_conf 7188999996128997000000126599999999999985309999999884111236-------898866--7887543
Q 000342 1371 APTSLRIALSNLYPDSNFFQEAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVESNC-------MGSWDC--TNSACIV 1441 (1634)
Q Consensus 1371 sP~~Lr~aL~ki~p~~~~F~~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e~~~-------~~~w~~--~~~~SiI 1441 (1634)
+|..|+.+++...+. |.+++||||+|||.+|||.||+++.........+...... ...|.. ....++|
T Consensus 132 ~P~~f~~~l~~~~~~---f~~~~QqDA~EFl~~LLd~L~~el~~~~~~~~~~~~~~~~~~~~~~a~~~w~~~~~~~~s~I 208 (396)
T 2gfo_A 132 SPKDFKITIGKINDQ---FAGYSQQDSQELLLFLMDGLHEDLNKADNRKRYKEENNDHLDDFKAAEHAWQKHKQLNESII 208 (396)
T ss_dssp CCHHHHHHHHHHCGG---GSSSSCCCHHHHHHHHHHHHHHHHCCCCC---------TTSCHHHHHHHHHHHHHHHCCSHH
T ss_pred CHHHHHHHHHHHCHH---HCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCC
T ss_conf 789999999974543---34878877599999999999999865314554455555566425677899987665068834
Q ss_pred CCCCCCEEEEEEECCCCCCCCCCCCCCCEEEC-CCCHHHHHHHHHCCCCCHHHHHHHHHCC------CCCCCCCCCCCCC
Q ss_conf 02332058999960588963333334320011-3500124555313558799999998313------5433589998877
Q 000342 1442 HSLFGMDIFERMNCYSCGLESRHLKYTSFFHN-INASALRTMKVMCAESSLDELLNLVEMN------HQLACDPGAGGCE 1514 (1634)
Q Consensus 1442 ~~LF~G~l~s~i~C~~C~~~S~~~~~~sf~~l-I~as~l~~~k~~~~~~Sl~dlLk~~~~e------e~~~Ce~~c~~Cg 1514 (1634)
.++|+|.+.++++|..|+.++.+ +++|+.+ ++.. .. ...+++++|+.+... +.+.|+ .|+
T Consensus 209 ~~lF~G~l~s~i~C~~C~~~s~~--~e~f~~LsL~ip--~~-----~~~sL~~~L~~f~~~E~l~~~n~~~C~----~C~ 275 (396)
T 2gfo_A 209 VALFQGQFKSTVQCLTCHKKSRT--FEAFMYLSLPLA--ST-----SKCTLQDCLRLFSKEEKLTDNNRFYCS----HCR 275 (396)
T ss_dssp HHHHCEEEEEEEEETTTCCEEEE--EEEESSEEECCS--CS-----SEEEHHHHHHHHTSCEEECSTTCEEET----TTT
T ss_pred CHHHCCEEEEEEEECCCCCEECC--CCCCEEEEECCC--CC-----CCCCHHHHHHHHCCCCCCCCCCCCCCC----CCC
T ss_conf 02008688777885799962032--446312333266--34-----657999999983772251687641157----755
Q ss_pred CCC--EEEEEEECCCCEEEEEEEEECCCCC-CCCCCCCCCCCCC-CCCCCCCCCCC-CCCCCEEEEEEEEEEC----CEE
Q ss_conf 421--0788850467708999986168864-2111222110110-01233222379-9998489999998839----649
Q 000342 1515 KLN--YIHHILSTPPHVFTTVLGWQNTCES-FDDITATLAALSP-EIDISILYRGL-DPKRRHSLVSVVCYYG----QHY 1585 (1634)
Q Consensus 1515 kk~--~k~~~IsrLP~VLiIhLkw~~~~~s-~~kI~~~i~~fp~-eLDLs~f~~g~-d~~~~Y~L~AVV~H~G----GHY 1585 (1634)
... .++..|.++|+||+|||+||..... ..|+...+. ||. .|||++|+.+. .....|+|+|||+|.| |||
T Consensus 276 ~~~~a~k~~~i~~lP~vLiihLkRF~~~~~~~~K~~~~v~-fp~~~Ldl~~~~~~~~~~~~~Y~L~avv~H~G~~~~GHY 354 (396)
T 2gfo_A 276 ARRDSLKKIEIWKLPPVLLVHLKRFSYDGRWKQKLQTSVD-FPLENLDLSQYVIGPKNNLKKYNLFSVSNHYGGLDGGHY 354 (396)
T ss_dssp EEECEEEEEEEEECCSEEEEEECCEEECSSSEEECCCEEE-CCSSCBCCGGGBCSCCSSCCCBEEEEEEEEESCTTTCEE
T ss_pred CCCCEEEEEEEECCCCEEEEEECCEECCCCCCEECCCEEE-CCHHHCCCCCCCCCCCCCCCEEEEEEEEEECCCCCCCCE
T ss_conf 5453589999803785799985011025761001674485-453424566433477778735889999985699999830
Q ss_pred EEEEEECCCCCEEEECCCCEEEECCHHHHHHHCCCCCCCEEEEEEEECC
Q ss_conf 9999847999699991981079289255631002799840999999529
Q 000342 1586 HCFAYSHDQERWIMYDDKTVKVVGSWSDVLSMCERGHLQPQVLFFEAVN 1634 (1634)
Q Consensus 1586 vayVr~~~~~kW~~fDD~~Vt~Vs~WedVLs~~~~~~~qpYILFYERvn 1634 (1634)
+||+|+..+++||+|||+.|+.|+. ++|++ .+||||||+|++
T Consensus 355 ~a~v~~~~~~~W~~fnD~~V~~v~~-~~v~~------~~aYiLfY~r~~ 396 (396)
T 2gfo_A 355 TAYCKNAARQRWFKFDDHEVSDISV-SSVKS------SAAYILFYTSLG 396 (396)
T ss_dssp EEEEEETTTTEEEEEETTEEEECCH-HHHSC------TTEEEEEEECC-
T ss_pred EEEECCCCCCCEEEEECCCEEECCH-HHCCC------CCCEEEEEEECC
T ss_conf 7998579999879974887389888-88689------985699999759
No 3
>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=404.40 Aligned_cols=311 Identities=19% Similarity=0.318 Sum_probs=240.4
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC---CCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCH
Q ss_conf 44576765789887655339999998239999999235999877---569737999999999998614689998630718
Q 000342 1297 DVYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPSEHI---HVGEPCVVCALYEIFTALSIASTDTRKEAVAPT 1373 (1634)
Q Consensus 1297 ~v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~~~~---~~~e~cv~~aL~~LF~~L~~ss~g~~~~~VsP~ 1373 (1634)
..+.+||.|+| |||||||+||+|+|+|+||++++........ .....++.++|+.||..|+... ....+.|.
T Consensus 6 ~~g~~GL~N~G--NtCY~NsvLQ~L~~~~~~r~~~l~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~---~~~~~~p~ 80 (348)
T 3nhe_A 6 AQGLAGLRNLG--NTCFMNSILQCLSNTRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIWTSS---PNDVVSPS 80 (348)
T ss_dssp CCSCCEECCCS--SCHHHHHHHHHHHTCHHHHHHHHTTGGGGTSCSSCCTTHHHHHHHHHHHHHHTTCC---TTCEECCH
T ss_pred CCCCCCCCCCC--CCHHHHHHHHHHHCCHHHHHHHHCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHCCC---CCCCCCHH
T ss_conf 99997787588--34798899999966799999985244667614688731189999999999997178---98724899
Q ss_pred HHHHHHHHHCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCC-------CCCC--CCCCCCCCCCC
Q ss_conf 89999961289970000001265999999999999853099999998841112368-------9886--67887543023
Q 000342 1374 SLRIALSNLYPDSNFFQEAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVESNCM-------GSWD--CTNSACIVHSL 1444 (1634)
Q Consensus 1374 ~Lr~aL~ki~p~~~~F~~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e~~~~-------~~w~--~~~~~SiI~~L 1444 (1634)
.|+.++....+. |.+++||||+|||.+|||.||+++......+.......... ..|. .....++|+++
T Consensus 81 ~~~~~l~~~~~~---f~~~~QqDa~Efl~~lLd~L~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~i~~~ 157 (348)
T 3nhe_A 81 EFKTQIQRYAPR---FVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPENLDHLPDDEKGRQMWRKYLEREDSRIGDL 157 (348)
T ss_dssp HHHHHHHHHSGG---GSSSCCBCHHHHHHHHHHHHHHHHCSCSSCCCCCCCCCTTSCHHHHHHHHHHHHHTTCCCHHHHH
T ss_pred HHHHHHHHHHHH---HCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 999999986064---07987447999999999999998753046788775222468822778999999875069845555
Q ss_pred CCCEEEEEEECCCCCCCCCCCCCCCEEEC-CCCHHHHHHHHHCCCCCHHHHHHHHHCCC------CCCCCCCCCCCCCCC
Q ss_conf 32058999960588963333334320011-35001245553135587999999983135------433589998877421
Q 000342 1445 FGMDIFERMNCYSCGLESRHLKYTSFFHN-INASALRTMKVMCAESSLDELLNLVEMNH------QLACDPGAGGCEKLN 1517 (1634)
Q Consensus 1445 F~G~l~s~i~C~~C~~~S~~~~~~sf~~l-I~as~l~~~k~~~~~~Sl~dlLk~~~~ee------~~~Ce~~c~~Cgkk~ 1517 (1634)
|+|.+.++++|..|+.++.+ +++|+.+ ++.. . ...+..++.++|+.+...+ .+.|+ .|+.+.
T Consensus 158 F~g~~~~~~~C~~C~~~s~~--~e~f~~LsL~i~--~---~~~~~~sl~~~L~~~~~~e~l~~~~~~~C~----~C~~~~ 226 (348)
T 3nhe_A 158 FVGQLKSSLTCTDCGYCSTV--FDPFWDLSLPIA--K---RGYPEVTLMDCMRLFTKEDVLDGDEKPTCC----RCRGRK 226 (348)
T ss_dssp HCEEEEEEEEETTTCCEEEE--EEEESSEEECCC--S---SCSSCEEHHHHHHHHHSCEEECGGGCCEET----TTTEEC
T ss_pred CCEEEEEEEECCCCCCEEEE--ECCCEEEEEECC--C---CCCCCCCHHHHHHHHCCCEEECCCCCEECC----CCCCCC
T ss_conf 12499989994899988644--446547764279--8---556777899999874680571688856788----888856
Q ss_pred --EEEEEEECCCCEEEEEEEEECCCC-CCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCEEEEEEEEEEC----CEEEEEE
Q ss_conf --078885046770899998616886-42111222110110-012332223799998489999998839----6499999
Q 000342 1518 --YIHHILSTPPHVFTTVLGWQNTCE-SFDDITATLAALSP-EIDISILYRGLDPKRRHSLVSVVCYYG----QHYHCFA 1589 (1634)
Q Consensus 1518 --~k~~~IsrLP~VLiIhLkw~~~~~-s~~kI~~~i~~fp~-eLDLs~f~~g~d~~~~Y~L~AVV~H~G----GHYvayV 1589 (1634)
.++..|.++|+||+|||+||.... ...|+...+. ||. .|||++++........|+|+|||+|.| |||+||+
T Consensus 227 ~~~k~~~i~~lP~vL~i~lkRf~~~~~~~~K~~~~v~-fp~~~ldl~~~~~~~~~~~~Y~L~avv~H~G~~~~GHY~~~~ 305 (348)
T 3nhe_A 227 RCIKKFSIQRFPKILVLHLKRFSESRIRTSKLTTFVN-FPLRDLDLREFASENTNHAVYNLYAVSNHSGTTMGGHYTAYC 305 (348)
T ss_dssp CEEEEEEEEECCSEEEEEECCBCCCSSCCCBCCCCEE-CCSSCEECGGGBCTTCCCCEEEEEEEEEEEECSSCEEEEEEE
T ss_pred CEEEEEEEECCCCEEEEEEECCCCCCCCEEECCCCEE-CCCCCCCHHHHCCCCCCCCCEEEEEEEECCCCCCCCCCEEEE
T ss_conf 4899988132986579998753456774145686230-347758776606788899867999999704899996438888
Q ss_pred EECCCCCEEEECCCCEEEECCHHHHHHHCCCCCCCEEEEEEEECC
Q ss_conf 847999699991981079289255631002799840999999529
Q 000342 1590 YSHDQERWIMYDDKTVKVVGSWSDVLSMCERGHLQPQVLFFEAVN 1634 (1634)
Q Consensus 1590 r~~~~~kW~~fDD~~Vt~Vs~WedVLs~~~~~~~qpYILFYERvn 1634 (1634)
|.+..++||+|||+.|++|+. ++|+. .+||||||+|++
T Consensus 306 ~~~~~~~W~~~nD~~V~~v~~-~~v~~------~~aY~LfY~r~~ 343 (348)
T 3nhe_A 306 RSPGTGEWHTFNDSSVTPMSS-SQVRT------SDAYLLFYELAS 343 (348)
T ss_dssp ECTTTCCEEEEETTEEEEECG-GGTCC------TTEEEEEEEECC
T ss_pred CCCCCCCEEEEECCCCEECCH-HHCCC------CCCEEEEEEECC
T ss_conf 169989379983898069988-88578------983699999648
No 4
>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=400.24 Aligned_cols=311 Identities=16% Similarity=0.229 Sum_probs=234.4
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCC---CCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCH
Q ss_conf 445767657898876553399999982399999992359998775---69737999999999998614689998630718
Q 000342 1297 DVYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPSEHIH---VGEPCVVCALYEIFTALSIASTDTRKEAVAPT 1373 (1634)
Q Consensus 1297 ~v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~~~~~---~~e~cv~~aL~~LF~~L~~ss~g~~~~~VsP~ 1373 (1634)
...++||.|+| |||||||+||||+|+|+||++|+......... ....+++++|+.||..|+.. ..++.|.
T Consensus 11 ~~~~~GL~NlG--NTCYmNSvLQ~L~~~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~l~~lf~~l~~~-----~~~v~P~ 83 (404)
T 2ayn_A 11 MELPCGLTNLG--NTCYMNATVQCIRSVPELKDALKRYAGALRASGEMASAQYITAALRDLFDSMDKT-----SSSIPPI 83 (404)
T ss_dssp CCCCCEECCCS--SCHHHHHHHHHHHTCHHHHHHHHTCCCCC------CHHHHHHHHHHHHHHHHHHH-----CSEECCH
T ss_pred CCCCCCCCCCC--CCCHHHHHHHHHHCCHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCC-----CCCCCHH
T ss_conf 69998865477--0439899999987689999999964510134788885438999999999998638-----9838869
Q ss_pred HHHHHHHHHCCCCCCCH------HHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCCC
Q ss_conf 89999961289970000------00126599999999999985309999999884111236898866--78875430233
Q 000342 1374 SLRIALSNLYPDSNFFQ------EAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVESNCMGSWDC--TNSACIVHSLF 1445 (1634)
Q Consensus 1374 ~Lr~aL~ki~p~~~~F~------~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e~~~~~~w~~--~~~~SiI~~LF 1445 (1634)
.|+.+++...+. |. +++||||+|||.+|||.||+++......... +......|.. ....++|+++|
T Consensus 84 ~~~~~l~~~~~~---f~~~~~~~~~~QqDA~Efl~~lLd~L~~~~~~~~~~~~~---e~~~~~~~~~~~~~~~s~i~~~F 157 (404)
T 2ayn_A 84 ILLQFLHMAFPQ---FAEKGEQGQYLQQDANECWIQMMRVLQQKLEAIEDDSVK---ETDSSSASAATPSKKKSLIDQFF 157 (404)
T ss_dssp HHHHHHHHHCGG---GGCBCTTSCBCCCCHHHHHHHHHHHHHTTSCCCCCC---------------------CCHHHHHT
T ss_pred HHHHHHHHHCCH---HHCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCC---CCCHHHHHHHHCCCCCCHHHHHC
T ss_conf 999999885700---202356788665489999999999999874435677522---10012210000011376024515
Q ss_pred CCEEEEEEECCCCCCCCCCCCCCCEEECCCCHHHHHHHHHCCCCCHHHHHHHHHCCC-CCCCCCCCCCCCCC--CEEEEE
Q ss_conf 205899996058896333333432001135001245553135587999999983135-43358999887742--107888
Q 000342 1446 GMDIFERMNCYSCGLESRHLKYTSFFHNINASALRTMKVMCAESSLDELLNLVEMNH-QLACDPGAGGCEKL--NYIHHI 1522 (1634)
Q Consensus 1446 ~G~l~s~i~C~~C~~~S~~~~~~sf~~lI~as~l~~~k~~~~~~Sl~dlLk~~~~ee-~~~Ce~~c~~Cgkk--~~k~~~ 1522 (1634)
+|.+.++++|..|+.++....++.|+.+ ...... ...++.++|+.++.++ .+.|+ .|++. ..++..
T Consensus 158 ~G~l~s~i~C~~C~~~s~s~~~e~f~~L-sl~i~~------~~~~l~~~L~~~~~e~l~~~c~----~c~~~~~~~k~~~ 226 (404)
T 2ayn_A 158 GVEFETTMKCTESEEEEVTKGKENQLQL-SCFINQ------EVKYLFTGLKLRLQEEITKQSP----TLQRNALYIKSSK 226 (404)
T ss_dssp CEEEEEEEEESSSCCCCCBCCEEEESSE-EEECSS------SCCBHHHHHHHTTEECCCCEET----TTTEECCEEEEEE
T ss_pred CEEEEEEEEECCCCCCCCCEEECCCCEE-EEECCC------CCCCHHHHHHHHCCCCEEECCH----HHCCCCCEEEEEE
T ss_conf 6799999982578981685242257468-765699------8542999998754401036252----0098301555531
Q ss_pred EECCCCEEEEEEEEECCCC---CCCCCCCCCCCCCCCCCCCCCCCC----------------------------------
Q ss_conf 5046770899998616886---421112221101100123322237----------------------------------
Q 000342 1523 LSTPPHVFTTVLGWQNTCE---SFDDITATLAALSPEIDISILYRG---------------------------------- 1565 (1634)
Q Consensus 1523 IsrLP~VLiIhLkw~~~~~---s~~kI~~~i~~fp~eLDLs~f~~g---------------------------------- 1565 (1634)
|.++|+||+|||+||.... ...|+...+. ||..|||.+|+..
T Consensus 227 i~~lP~vL~i~LkRF~~~~~~~~~~Ki~~~v~-fP~~Ldl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 305 (404)
T 2ayn_A 227 ISRLPAYLTIQMVRFFYKEKESVNAKVLKDVK-FPLMLDMYELCTPELQEKMVSFRSKFKDLEDKKVNQQPNTSDKKSSP 305 (404)
T ss_dssp EEECCSSEEEEEECBCCCCSSSSCCBCCCCCB-CCSEEECGGGBCHHHHHHTTTTTGGGTCTTC----------------
T ss_pred HHHCCCCEEEEEEEEEEECCCCCEECCCCEEC-CCCEEEHHHHCCHHHHHHCCHHHHHHHHHHCCCCHHHHHHCCCCCCC
T ss_conf 72199716999998898246683100174464-68256776744855541020135677655315401333110335555
Q ss_pred ----------------CCCCCCEEEEEEEEEEC-----CEEEEEEEECCCCCEEEECCCCEEEECCHHHHHHHCCC-CCC
Q ss_conf ----------------99998489999998839-----64999998479996999919810792892556310027-998
Q 000342 1566 ----------------LDPKRRHSLVSVVCYYG-----QHYHCFAYSHDQERWIMYDDKTVKVVGSWSDVLSMCER-GHL 1623 (1634)
Q Consensus 1566 ----------------~d~~~~Y~L~AVV~H~G-----GHYvayVr~~~~~kW~~fDD~~Vt~Vs~WedVLs~~~~-~~~ 1623 (1634)
......|+|+|||+|.| |||+||+|.. +++||+|||+.|+.|+. ++|+...++ ...
T Consensus 306 ~~~~~~e~~~~~~~~~~~~~~~Y~L~avv~H~G~s~~~GHY~a~v~~~-~~~W~~fnD~~V~~v~~-~~v~~~~~g~~~~ 383 (404)
T 2ayn_A 306 QKEVKYEPFSFADDIGSNNCGYYDLQAVLTHQGRSSSSGHYVSWVKRK-QDEWIKFDDDKVSIVTP-EDILRLSGGGDWH 383 (404)
T ss_dssp ------CCCCCSCTTTTCCCSEEEEEEEEEEESSSTTSSEEEEEEEEE-TTEEEEEBTTBCCCBCH-HHHGGGGSSSSSC
T ss_pred CCCCCCCCCCCCCCCCCCCCCEEEEEEEEEECCCCCCCCCEEEEEECC-CCEEEEEECCCCEECCH-HHHHHHHCCCCCC
T ss_conf 553334555554555768885399999999548999998869999899-99289960634566679-9997630799776
Q ss_pred CEEEEEEEECC
Q ss_conf 40999999529
Q 000342 1624 QPQVLFFEAVN 1634 (1634)
Q Consensus 1624 qpYILFYERvn 1634 (1634)
.||||||+|++
T Consensus 384 ~aYiLfY~r~~ 394 (404)
T 2ayn_A 384 IAYVLLYGPRR 394 (404)
T ss_dssp EEEEEEEECC-
T ss_pred EEEEEEEEECC
T ss_conf 28999998347
No 5
>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=399.58 Aligned_cols=311 Identities=20% Similarity=0.314 Sum_probs=234.2
Q ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC--CCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHH
Q ss_conf 4576765789887655339999998239999999235999877--56973799999999999861468999863071889
Q 000342 1298 VYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPSEHI--HVGEPCVVCALYEIFTALSIASTDTRKEAVAPTSL 1375 (1634)
Q Consensus 1298 v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~~~~--~~~e~cv~~aL~~LF~~L~~ss~g~~~~~VsP~~L 1375 (1634)
++.+||.|+| |||||||+||+|+++++||++++........ .....++.++|+.+|..|+... ....++|..|
T Consensus 1 TG~~GL~N~G--NtCY~NSvLQ~L~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~---~~~~v~p~~~ 75 (355)
T 3i3t_A 1 SGHVGLRNLG--NTCFLNAVLQCLSSTRPLRDFCLRRDFRQEVPGGGRAQELTEAFADVIGALWHPD---SCEAVNPTRF 75 (355)
T ss_dssp --CCCBCCCS--STHHHHHHHHHHHTCHHHHHHHHHTTHHHHC------CHHHHHHHHHHHHTSSCS---SCCCBCCHHH
T ss_pred CCCCCCEECC--CCHHHHHHHHHHHCCHHHHHHHHHCHHHHHCCCCCCHHHHHHHHHHHHHHHHCCC---CCCCCCHHHH
T ss_conf 9974758898--2669899999986789999999725488756789952699999999999984589---8874458999
Q ss_pred HHHHHHHCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCC-----C-C---CCC-------------CCC
Q ss_conf 99996128997000000126599999999999985309999999884111-----2-3---689-------------886
Q 000342 1376 RIALSNLYPDSNFFQEAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVE-----S-N---CMG-------------SWD 1433 (1634)
Q Consensus 1376 r~aL~ki~p~~~~F~~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e-----~-~---~~~-------------~w~ 1433 (1634)
+.++....+. |.+++||||+|||.+|||.||+++............. . . ... .|.
T Consensus 76 ~~~l~~~~~~---f~~~~QqDA~Efl~~LLd~L~~el~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 152 (355)
T 3i3t_A 76 RAVFQKYVPS---FSGYSQQDAQEFLKLLMERLHLEINRRGRRAPPILANGPVPSPPRRGGALLEEPELSDDDRANLMWK 152 (355)
T ss_dssp HHHHHHHCGG---GCSSCCCBHHHHHHHHHHHHHHHHCCC----------------------------CCHHHHHHHHHH
T ss_pred HHHHHHHCHH---HCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 9999973842---2898766789999999999999976541378752356766676444432235777887889999999
Q ss_pred --CCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEECCCCHHHHHHHHHCCCCCHHHHHHHHHCCCC------CC
Q ss_conf --6788754302332058999960588963333334320011350012455531355879999999831354------33
Q 000342 1434 --CTNSACIVHSLFGMDIFERMNCYSCGLESRHLKYTSFFHNINASALRTMKVMCAESSLDELLNLVEMNHQ------LA 1505 (1634)
Q Consensus 1434 --~~~~~SiI~~LF~G~l~s~i~C~~C~~~S~~~~~~sf~~lI~as~l~~~k~~~~~~Sl~dlLk~~~~ee~------~~ 1505 (1634)
.....++|.++|+|.+.+.++|..|+.++.+ ++.|..+ ....+.. ....+..++.++|+.++..+. +.
T Consensus 153 ~~~~~~~s~i~~~F~g~~~~~~~C~~C~~~s~~--~e~f~~l-sl~i~~~-~~~~~~~sl~~~L~~~~~~e~l~~~n~~~ 228 (355)
T 3i3t_A 153 RYLEREDSKIVDLFVGQLKSCLKCQACGYRSTT--FEVFCDL-SLPIPKK-GFAGGKVSLRDCFNLFTKEEELESENAPV 228 (355)
T ss_dssp HHHHHCCSHHHHHHCEEEEEEEEETTTCCEEEE--EEEESSE-EECCCC--------CBHHHHHHHHHCCEEECGGGCCC
T ss_pred HHHHCCCCCCCCCCCEEEEEEEEECCCCCCCEE--ECCCEEE-CCCCCCC-CCCCCCCCHHHHHHHHCCCCCCCCCCCEE
T ss_conf 852316981545335799955893899998402--2223465-2567864-44567658999999857835458999855
Q ss_pred CCCCCCCCCCCC--EEEEEEECCCCEEEEEEEEECCCC-CCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCEEEEEEEEEE
Q ss_conf 589998877421--078885046770899998616886-42111222110110-01233222379999848999999883
Q 000342 1506 CDPGAGGCEKLN--YIHHILSTPPHVFTTVLGWQNTCE-SFDDITATLAALSP-EIDISILYRGLDPKRRHSLVSVVCYY 1581 (1634)
Q Consensus 1506 Ce~~c~~Cgkk~--~k~~~IsrLP~VLiIhLkw~~~~~-s~~kI~~~i~~fp~-eLDLs~f~~g~d~~~~Y~L~AVV~H~ 1581 (1634)
|+ .|+++. .++..|.++|+||+|||+||.... ...|+...+. ||. .|||++++........|+|+|||+|.
T Consensus 229 C~----~C~~~~~a~k~~~i~~lP~vL~i~lkRF~~~~~~~~K~~~~v~-fp~~~l~l~~~~~~~~~~~~Y~L~avv~H~ 303 (355)
T 3i3t_A 229 CD----RCRQKTRSTKKLTVQRFPRILVLHLNRFSASRGSIKKSSVGVD-FPLQRLSLGDFASDKAGSPVYQLYALCNHS 303 (355)
T ss_dssp CS----SSCCCCCEEEEEEEEECCSEEEEEECCEECCSSCCEECCCCCB-CCSSCEECGGGBC----CCEEEEEEEEEEE
T ss_pred CC----CCCCCCCEEEEEECCCCCHHEEEEHHHEECCCCCCEECCCCEE-CCCCCCCCHHHCCCCCCCCCEEEEEEEEEC
T ss_conf 98----8788662379988113981309976020037898047886160-776546730211589999645999998826
Q ss_pred C----CEEEEEEEECCCCCEEEECCCCEEEECCHHHHHHHCCCCCCCEEEEEEEECC
Q ss_conf 9----6499999847999699991981079289255631002799840999999529
Q 000342 1582 G----QHYHCFAYSHDQERWIMYDDKTVKVVGSWSDVLSMCERGHLQPQVLFFEAVN 1634 (1634)
Q Consensus 1582 G----GHYvayVr~~~~~kW~~fDD~~Vt~Vs~WedVLs~~~~~~~qpYILFYERvn 1634 (1634)
| |||+||+| ..++||+|||+.|++|+. ++|++ .+||||||+|++
T Consensus 304 G~~~~GHY~~~~~--~~~~W~~~nD~~V~~v~~-~~v~~------~~aYiLfY~r~~ 351 (355)
T 3i3t_A 304 GSVHYGHYTALCR--CQTGWHVYNDSRVSPVSE-NQVAS------SEGYVLFYQLMQ 351 (355)
T ss_dssp EETTEEEEEEEEE--ETTEEEEEETTEEEEECH-HHHHT------SCCSEEEEEEC-
T ss_pred CCCCCCEEEEEEE--CCCEEEEECCCCCEECCH-HHCCC------CCCEEEEEEECC
T ss_conf 7899980799997--299289981987179889-99078------986799999606
No 6
>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=395.25 Aligned_cols=291 Identities=18% Similarity=0.230 Sum_probs=228.5
Q ss_pred CCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCC-------CCHHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 644576765789887655339999998239999999235999877569-------7379999999999986146899986
Q 000342 1296 IDVYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPSEHIHVG-------EPCVVCALYEIFTALSIASTDTRKE 1368 (1634)
Q Consensus 1296 s~v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~~~~~~~-------e~cv~~aL~~LF~~L~~ss~g~~~~ 1368 (1634)
....++||.|+| |||||||+||+|+++|+||++++........... ..++.++|+.||..|+.. ...
T Consensus 20 ~~~~~~GL~NlG--NTCYmNSvLQ~L~~~p~fr~~ll~~~~~~~~~~~~~~~~~~~~~l~~~l~~lf~~l~~~----~~~ 93 (415)
T 1vjv_A 20 FAQLPVGFKNMG--NTCYLNATLQALYRVNDLRDMILNYNPSQGVSNSGAQDEEIHKQIVIEMKRCFENLQNK----SFK 93 (415)
T ss_dssp CCCCCCEECCCS--SCHHHHHHHHHHHHSHHHHHHHHTCCGGGCCSCTTSTTHHHHHHHHHHHHHHHHHHHCC-----CC
T ss_pred CCCCCCCCEECC--CCCHHHHHHHHHHCCHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCC----CCC
T ss_conf 578988877388--51399999999974799999997126544667764334441138999999999998607----998
Q ss_pred CCCCHHHHHHHHHHCCCCCCCH-------HHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 3071889999961289970000-------001265999999999999853099999998841112368988667887543
Q 000342 1369 AVAPTSLRIALSNLYPDSNFFQ-------EAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVESNCMGSWDCTNSACIV 1441 (1634)
Q Consensus 1369 ~VsP~~Lr~aL~ki~p~~~~F~-------~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e~~~~~~w~~~~~~SiI 1441 (1634)
++.|..|+.+++...+. |. +++||||+|||.+||+.||+++.. ++|
T Consensus 94 ~v~p~~~~~~l~~~~~~---f~~~~~~~~~~~QqDa~Efl~~lLd~L~~~~~~------------------------~~i 146 (415)
T 1vjv_A 94 SVLPVVLLNTLRKCYPQ---FAERDSQGGFYKQQDAEELFTQLFHSMSIVFGD------------------------KFS 146 (415)
T ss_dssp EECCHHHHHHHHHHCGG---GGCBC----CBCCCCHHHHHHHHHHHHHHHHTH------------------------HHH
T ss_pred CCCHHHHHHHHHHHCCH---HHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCC------------------------CHH
T ss_conf 43779999999875850---210466777766668999999999999987343------------------------469
Q ss_pred CCCCCCEEEEEEECCCCCCCCCCCCCCCEEEC-CCCHHHHHHHHHCCCCCHHHHHHHHHCCC-CCCCCCCCCCCCCC--C
Q ss_conf 02332058999960588963333334320011-35001245553135587999999983135-43358999887742--1
Q 000342 1442 HSLFGMDIFERMNCYSCGLESRHLKYTSFFHN-INASALRTMKVMCAESSLDELLNLVEMNH-QLACDPGAGGCEKL--N 1517 (1634)
Q Consensus 1442 ~~LF~G~l~s~i~C~~C~~~S~~~~~~sf~~l-I~as~l~~~k~~~~~~Sl~dlLk~~~~ee-~~~Ce~~c~~Cgkk--~ 1517 (1634)
.++|+ .+.++++|..|+.++....++.|+.+ ++.. . ...++.++|+.++.++ .+.|+ .|+.. .
T Consensus 147 ~~~F~-~~~~~~~C~~C~~~s~s~~~e~f~~Lsl~i~--~------~~~~l~~~L~~~~~e~i~~~c~----~c~~~~~a 213 (415)
T 1vjv_A 147 EDFRI-QFKTTIKDTANDNDITVKENESDSKLQCHIS--G------TTNFMRNGLLEGLNEKIEKRSD----LTGANSIY 213 (415)
T ss_dssp TTTCE-EEEEEEEETTEEEEEEEECCCEESCEEECCC--T------TCCBHHHHHHHHHEEC-------------CCCCE
T ss_pred HHHHH-HHEEEEEECCCCCCCCCCCCCCCEEEEECCC--C------CCCHHHHHHHHHHHHHHHHCCC----CCCCCCCE
T ss_conf 99998-6117999779998746313545436651256--6------6123899999874455531461----21786427
Q ss_pred EEEEEEECCCCEEEEEEEEECCCC---CCCCCCCCCCCCCCCCCCCCCCCC-----------------------------
Q ss_conf 078885046770899998616886---421112221101100123322237-----------------------------
Q 000342 1518 YIHHILSTPPHVFTTVLGWQNTCE---SFDDITATLAALSPEIDISILYRG----------------------------- 1565 (1634)
Q Consensus 1518 ~k~~~IsrLP~VLiIhLkw~~~~~---s~~kI~~~i~~fp~eLDLs~f~~g----------------------------- 1565 (1634)
.++..|.++|+||+|||+||.... ...|+...+. ||..|||++|+..
T Consensus 214 ~k~~~i~~lP~vL~i~LkRF~~~~~~~~~~Ki~~~V~-FP~~Ldl~~~~~~~~~~~~~~~r~~~~~~~~~~~e~~~~~k~ 292 (415)
T 1vjv_A 214 SVEKKISRLPKFLTVQYVRFFWKRSTNKKSKILRKVV-FPFQLDVADMLTPEYAAEKVKVRDELRKVEKEKNEKEREIKR 292 (415)
T ss_dssp EEEEEEEECBSEEEEEECCEEEETTTTEEEECCCCCB-CCSEEECGGGBCHHHHHHHHHHHHHHHHHHHHHHHC------
T ss_pred EEEEECCCCCCEEEEEEEEEEEECCCCCCHHHCCCCC-CCCEEEHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 8887702699715999988998378884043167647-995767678428333222121579999875333345665531
Q ss_pred -----------------------------------------------CCCCCCEEEEEEEEEEC-----CEEEEEEEE-C
Q ss_conf -----------------------------------------------99998489999998839-----649999984-7
Q 000342 1566 -----------------------------------------------LDPKRRHSLVSVVCYYG-----QHYHCFAYS-H 1592 (1634)
Q Consensus 1566 -----------------------------------------------~d~~~~Y~L~AVV~H~G-----GHYvayVr~-~ 1592 (1634)
......|+|+|||+|.| |||+||+|. .
T Consensus 293 ~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~L~aVv~H~G~s~~~GHY~a~vr~~~ 372 (415)
T 1vjv_A 293 RKFDPSSSENVMTPREQYETQVALNESEKDQWLEEYKKHFPPNLEKGENPSCVYNLIGVITHQGANSESGHYQAFIRDEL 372 (415)
T ss_dssp ----------CCCHHHHHHHHHHHHHHHHHHHHHHHHTTSCTTCCTTBCSSSEEEEEEEEEEESSSTTSSEEEEEEECSS
T ss_pred CCCCCCCCCCCCCCCHHHHHCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEEEEEECCCCCCCCCEEEEEECCC
T ss_conf 02255544443453102220125677655443332053334323235678843889999993589999988799994788
Q ss_pred CCCCEEEECCCCEEEECCHHHHHHHCCCC-CCCEEEEEEEECC
Q ss_conf 99969999198107928925563100279-9840999999529
Q 000342 1593 DQERWIMYDDKTVKVVGSWSDVLSMCERG-HLQPQVLFFEAVN 1634 (1634)
Q Consensus 1593 ~~~kW~~fDD~~Vt~Vs~WedVLs~~~~~-~~qpYILFYERvn 1634 (1634)
..++||+|||+.|+.|+. ++|+...+++ ...||||||+|++
T Consensus 373 ~~~~W~~fnD~~V~~v~~-~~v~~~~~g~~~~~aYiLfY~r~~ 414 (415)
T 1vjv_A 373 DENKWYKFNDDKVSVVEK-EKIESLAGGGESDSALILMYKGFG 414 (415)
T ss_dssp CTTCEEEEETTEEEEECH-HHHHGGGCCTTSCEEEEEEEEETT
T ss_pred CCCCEEEEECCCCEECCH-HHHHHHCCCCCCCEEEEEEEEECC
T ss_conf 899489967885767279-997642079876607999999547
No 7
>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=392.97 Aligned_cols=287 Identities=15% Similarity=0.200 Sum_probs=226.6
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHH
Q ss_conf 44576765789887655339999998239999999235999877569737999999999998614689998630718899
Q 000342 1297 DVYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPSEHIHVGEPCVVCALYEIFTALSIASTDTRKEAVAPTSLR 1376 (1634)
Q Consensus 1297 ~v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~~~~~~~e~cv~~aL~~LF~~L~~ss~g~~~~~VsP~~Lr 1376 (1634)
..+++||.|+| |||||||+||||+|+|+||++++..... ......++.++|+.+|..|+.+ ..++.|..|.
T Consensus 3 ~~g~~GL~NlG--nTCYmNSvLQ~L~~~~~~r~~~~~~~~~--~~~~~~~~~~~l~~lf~~l~~~-----~~~~~~~~l~ 73 (353)
T 1nb8_A 3 HTGYVGLKNQG--ATCYMNSLLQTLFFTNQLRKAVYMMPTE--GDDSSKSVPLALQRVFYELQHS-----DKPVGTKKLT 73 (353)
T ss_dssp CSSCCCBCCCS--TTTTHHHHHHHHHTCHHHHHHHHTSCCT--TSCTTTCHHHHHHHHHHHHHHC-----SSCBCCHHHH
T ss_pred CCCCCCCCCCC--HHHHHHHHHHHHHCCHHHHHHHHHCCCC--CCCCCCCHHHHHHHHHHHHHHC-----CCCCCCHHHH
T ss_conf 88998756474--5449899999997779999999837877--7765440999999999988605-----8877877998
Q ss_pred HHHHHHCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECC
Q ss_conf 99961289970000001265999999999999853099999998841112368988667887543023320589999605
Q 000342 1377 IALSNLYPDSNFFQEAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVESNCMGSWDCTNSACIVHSLFGMDIFERMNCY 1456 (1634)
Q Consensus 1377 ~aL~ki~p~~~~F~~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e~~~~~~w~~~~~~SiI~~LF~G~l~s~i~C~ 1456 (1634)
..++ ++ .|.+++||||+|||.+|||.||+++.... ..++|+++|+|.+.+.++|.
T Consensus 74 ~~~~--~~---~~~~~~QqDA~EFl~~LLd~L~~~~~~~~--------------------~~s~i~~~F~g~~~~~i~C~ 128 (353)
T 1nb8_A 74 KSFG--WE---TLDSFMQHDVQELCRVLLDNVENKMKGTC--------------------VEGTIPKLFRGKMVSYIQCK 128 (353)
T ss_dssp HHHT--CC---BTTTTTTSCHHHHHHHHHHHHHHHTTTST--------------------TTTHHHHHHCEEEEEEEEES
T ss_pred HHCC--CC---CCCCCCCHHHHHHHHHHHHHHHHHHCCCC--------------------CCCHHHHHCEEEEEEEEEEC
T ss_conf 6418--87---77865326399999999999998844887--------------------55512350305899999925
Q ss_pred CCCCCCCCCCCCCEEEC-CCCHHHHHHHHHCCCCCHHHHHHHHHCCC------CCCCCCCCCCCCCC-CEEEEEEECCCC
Q ss_conf 88963333334320011-35001245553135587999999983135------43358999887742-107888504677
Q 000342 1457 SCGLESRHLKYTSFFHN-INASALRTMKVMCAESSLDELLNLVEMNH------QLACDPGAGGCEKL-NYIHHILSTPPH 1528 (1634)
Q Consensus 1457 ~C~~~S~~~~~~sf~~l-I~as~l~~~k~~~~~~Sl~dlLk~~~~ee------~~~Ce~~c~~Cgkk-~~k~~~IsrLP~ 1528 (1634)
.|+.+|.+ +++|+.+ ++.. ...++.++|..++..+ .+.|+ .|+.. ..++..|.++|+
T Consensus 129 ~C~~~s~~--~e~f~~LsL~i~---------~~~~l~~~L~~~~~~E~l~~~~~~~C~----~c~~~~a~k~~~i~~lP~ 193 (353)
T 1nb8_A 129 EVDYRSDR--REDYYDIQLSIK---------GKKNIFESFVDYVAVEQLDGDNKYDAG----EHGLQEAEKGVKFLTLPP 193 (353)
T ss_dssp SSCCEEEE--EEEESCEEECCT---------TCSBHHHHHHHHTCCEEECTTTCEECG----GGCEECEEEEEEESCCCS
T ss_pred CCCCEECE--EEEEEEEEEEEC---------CCCCHHHHHHHHHCCCCCCCCCCCCCC----CCCCEEEEEEEEHHCCCC
T ss_conf 68970022--223279988979---------976457799985173424787531477----675175689888400997
Q ss_pred EEEEEEEEECCCC---CCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCEEEEEEEEEEC----CEEEEEEEECCCCCEEE
Q ss_conf 0899998616886---42111222110110012332223799--998489999998839----64999998479996999
Q 000342 1529 VFTTVLGWQNTCE---SFDDITATLAALSPEIDISILYRGLD--PKRRHSLVSVVCYYG----QHYHCFAYSHDQERWIM 1599 (1634)
Q Consensus 1529 VLiIhLkw~~~~~---s~~kI~~~i~~fp~eLDLs~f~~g~d--~~~~Y~L~AVV~H~G----GHYvayVr~~~~~kW~~ 1599 (1634)
||+|||+||.... ...|+...+. ||..|||++|+...+ ....|+|+|||+|.| |||+||+|+...++||+
T Consensus 194 vL~i~LkRF~~~~~~~~~~K~~~~v~-fp~~Ldl~~~~~~~~~~~~~~Y~L~avv~H~G~~~~GHY~a~v~~~~~~~W~~ 272 (353)
T 1nb8_A 194 VLHLQLMRFMYDPQTDQNIKINDRFE-FPEQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCK 272 (353)
T ss_dssp EEEEEECCCC--------CCCCCCCB-CCSEEECGGGBSSCCTTSCCEEEEEEEEEEESSTTCCCEEEEECTTSSSCCEE
T ss_pred CEEEEEECEEEECCCCCEEECCCEEE-CCCEEEHHHHHCCCCCCCCCEEEEEEEEEEECCCCCCEEEEEEECCCCCCEEE
T ss_conf 25999836798423595075582897-79766523522133789981599999999747898867999994599998899
Q ss_pred ECCCCEEEECCHHHHHHHCCCC---------CCCEEEEEEEECC
Q ss_conf 9198107928925563100279---------9840999999529
Q 000342 1600 YDDKTVKVVGSWSDVLSMCERG---------HLQPQVLFFEAVN 1634 (1634)
Q Consensus 1600 fDD~~Vt~Vs~WedVLs~~~~~---------~~qpYILFYERvn 1634 (1634)
|||+.|+.|+. ++|+..+.++ ..+||||||+|.+
T Consensus 273 fnD~~V~~v~~-~~v~~~~~gg~~~~~~~~~~~~aYiLfY~r~~ 315 (353)
T 1nb8_A 273 FDDDVVSRCTK-EEAIEHNYGGHDDDLSVRHCTNAYMLVYIRES 315 (353)
T ss_dssp EETTEEEECCH-HHHTGGGSCCC-------CCEEEEEEEEEETT
T ss_pred EECCCEEECCH-HHHHHHHCCCCCCCCCCCCCCEEEEEEEEECC
T ss_conf 98960289788-99988723897654446768807999999885
No 8
>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=390.90 Aligned_cols=287 Identities=15% Similarity=0.200 Sum_probs=226.1
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHH
Q ss_conf 44576765789887655339999998239999999235999877569737999999999998614689998630718899
Q 000342 1297 DVYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPSEHIHVGEPCVVCALYEIFTALSIASTDTRKEAVAPTSLR 1376 (1634)
Q Consensus 1297 ~v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~~~~~~~e~cv~~aL~~LF~~L~~ss~g~~~~~VsP~~Lr 1376 (1634)
..+++||.|+| |||||||+||||+++|+||++++..... ......++.++|+.+|..|+.+ ..++.|..|.
T Consensus 172 ~~g~~GL~NlG--nTCYmNSvLQ~L~~~~~fr~~~~~~~~~--~~~~~~~~~~~l~~lf~~l~~~-----~~~~~~~~l~ 242 (522)
T 2f1z_A 172 HTGYVGLKNQG--ATCYMNSLLQTLFFTNQLRKAVYMMPTE--GDDSSKSVPLALQRVFYELQHS-----DKPVGTKKLT 242 (522)
T ss_dssp TTSCCCBCCC----CTTHHHHHHHHHTCHHHHHHHHTCCCC--SSCTTTCHHHHHHHHHHHHHHC-----SSCBCCTTHH
T ss_pred CCCCCCEECCC--CCHHHHHHHHHHHCCHHHHHHHHHCCCC--CCCCCCHHHHHHHHHHHHHHCC-----CCCCCCHHHH
T ss_conf 67854411386--3188889999986129999999606656--7765652899999999998637-----9855767888
Q ss_pred HHHHHHCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEECC
Q ss_conf 99961289970000001265999999999999853099999998841112368988667887543023320589999605
Q 000342 1377 IALSNLYPDSNFFQEAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVESNCMGSWDCTNSACIVHSLFGMDIFERMNCY 1456 (1634)
Q Consensus 1377 ~aL~ki~p~~~~F~~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e~~~~~~w~~~~~~SiI~~LF~G~l~s~i~C~ 1456 (1634)
..++ ++ .|.+++||||+|||.+|||.||+++.... ..++|+++|+|.+.+.++|.
T Consensus 243 ~~~~--~~---~~~~~~QqDa~Efl~~LLd~L~~~l~~~~--------------------~~s~i~~lF~G~~~s~i~C~ 297 (522)
T 2f1z_A 243 KSFG--WE---TLDSFMQHDVQELCRVLLDNVENKMKGTC--------------------VEGTIPKLFRGKMVSYIQCK 297 (522)
T ss_dssp HHTC--CC---TTTSSTTSCHHHHHHHHHHHHHHHHTTST--------------------TTTHHHHHHCEEEEEEECCS
T ss_pred HHCC--CC---CCCCCCCCCHHHHHHHHHHHHHHHCCCCC--------------------CCCCHHHHEEEEEEEEEECC
T ss_conf 6418--76---57876264699999999999986415886--------------------56602131337999988727
Q ss_pred CCCCCCCCCCCCCEEEC-CCCHHHHHHHHHCCCCCHHHHHHHHHCCC------CCCCCCCCCCCCCC-CEEEEEEECCCC
Q ss_conf 88963333334320011-35001245553135587999999983135------43358999887742-107888504677
Q 000342 1457 SCGLESRHLKYTSFFHN-INASALRTMKVMCAESSLDELLNLVEMNH------QLACDPGAGGCEKL-NYIHHILSTPPH 1528 (1634)
Q Consensus 1457 ~C~~~S~~~~~~sf~~l-I~as~l~~~k~~~~~~Sl~dlLk~~~~ee------~~~Ce~~c~~Cgkk-~~k~~~IsrLP~ 1528 (1634)
.|+.++.+ +++|+.+ ++.. ...++.++|..++..+ .+.|+ .|+.. ..++..|.++|+
T Consensus 298 ~C~~~s~~--~e~f~~LsL~i~---------~~~~l~~~L~~~~~~E~l~~~n~~~C~----~c~~~~a~k~~~i~~lP~ 362 (522)
T 2f1z_A 298 EVDYRSDR--REDYYDIQLSIK---------GKKNIFESFVDYVAVEQLDGDNKYDAG----EHGLQEAEKGVKFLTLPP 362 (522)
T ss_dssp SSCCCCCE--EEEESCEEECCT---------TCCBHHHHHHHHTCEEEECTTSCBCCG----GGCSBCEEEEEEESCCCS
T ss_pred CCCCEEEE--EEEEEEEEEEEC---------CCCCCHHHHHHHHCEEECCCCCEEECC----CCCCCCEEEEEEEECCCC
T ss_conf 89955536--632078988847---------864406799874050222776204047----677653679999341996
Q ss_pred EEEEEEEEECCCC---CCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCEEEEEEEEEEC----CEEEEEEEECCCCCEEE
Q ss_conf 0899998616886---42111222110110012332223799--998489999998839----64999998479996999
Q 000342 1529 VFTTVLGWQNTCE---SFDDITATLAALSPEIDISILYRGLD--PKRRHSLVSVVCYYG----QHYHCFAYSHDQERWIM 1599 (1634)
Q Consensus 1529 VLiIhLkw~~~~~---s~~kI~~~i~~fp~eLDLs~f~~g~d--~~~~Y~L~AVV~H~G----GHYvayVr~~~~~kW~~ 1599 (1634)
||+|||+||.... ...|+...+. ||..|||++|+...+ ....|+|+|||+|.| |||+||+|+...++||+
T Consensus 363 vL~i~LkRF~~~~~~~~~~Ki~~~v~-fp~~Ldl~~~~~~~~~~~~~~Y~L~avv~H~G~~~~GHY~a~v~~~~~~~W~~ 441 (522)
T 2f1z_A 363 VLHLQLMRFMYDPQTDQNIKINDRFE-FPEQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCK 441 (522)
T ss_dssp EEEEEECCEEECSSSSCEEECCCCCB-CCSEEECGGGBSSCCTTSCCEEEEEEEEEEECSSSCSEEEEEECTTSSSCCEE
T ss_pred EEEEEEEEEEECCCCCCCEECCCEEE-CCCEECCHHHHCCCCCCCCCEEEEEEEEEECCCCCCCEEEEEEECCCCCCEEE
T ss_conf 38999874788166785267682796-78813443540544689983799999999645699866899994389998999
Q ss_pred ECCCCEEEECCHHHHHHHCCCC---------CCCEEEEEEEECC
Q ss_conf 9198107928925563100279---------9840999999529
Q 000342 1600 YDDKTVKVVGSWSDVLSMCERG---------HLQPQVLFFEAVN 1634 (1634)
Q Consensus 1600 fDD~~Vt~Vs~WedVLs~~~~~---------~~qpYILFYERvn 1634 (1634)
|||+.|+.|+. ++|+..+.++ ..+||||||+|.+
T Consensus 442 fnD~~V~~v~~-~~v~~~~~Gg~~~~~~~~~~~~aYiLfY~r~~ 484 (522)
T 2f1z_A 442 FDDDVVSRCTK-EEAIEHNYGGHDDDLSVRHCTNAYMLVYIRES 484 (522)
T ss_dssp EETTEEEECCH-HHHSTTSSCCC--------CEEEEEEEEEETT
T ss_pred EECCEEEECCH-HHHHHHHCCCCCCCCCCCCCCCEEEEEEEECC
T ss_conf 97832489989-99988633887543345768934999999888
No 9
>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=388.92 Aligned_cols=292 Identities=15% Similarity=0.239 Sum_probs=223.7
Q ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCC---CCCCCCCCHHHHHHHHHHHHHHHCCCC---------
Q ss_conf 44576765789887655339999998239999999235999---877569737999999999998614689---------
Q 000342 1297 DVYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPS---EHIHVGEPCVVCALYEIFTALSIASTD--------- 1364 (1634)
Q Consensus 1297 ~v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~---~~~~~~e~cv~~aL~~LF~~L~~ss~g--------- 1364 (1634)
..+.+||.|+| |||||||+||+|+++|+||++|+..... ........++.++|+.||..|+.....
T Consensus 341 ~~G~~GL~NlG--NTCYmNSvLQ~L~~~p~fr~~ll~~~~~~~~~~~~~~~~~l~~~l~~L~~~L~s~~~s~~~~~~~~~ 418 (854)
T 3ihp_A 341 GPGYTGIRNLG--NSCYLNSVVQVLFSIPDFQRKYVDKLEKIFQNAPTDPTQDFSTQVAKLGHGLLSGEYSKPVPESGDG 418 (854)
T ss_dssp STTCCCBCCCS--SCHHHHHHHHHHTTSHHHHHHHTTTHHHHHHHCCSCGGGCHHHHHHHHHHHHHSCC-----------
T ss_pred CCCCCCEEECC--CCEEHHHHHHHHHCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCC
T ss_conf 78865517667--7620337999985729999999854344302566785411889999999987456645444211222
Q ss_pred -------CCCCCCCCHHHHHHHHHHCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf -------9986307188999996128997000000126599999999999985309999999884111236898866788
Q 000342 1365 -------TRKEAVAPTSLRIALSNLYPDSNFFQEAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVESNCMGSWDCTNS 1437 (1634)
Q Consensus 1365 -------~~~~~VsP~~Lr~aL~ki~p~~~~F~~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e~~~~~~w~~~~~ 1437 (1634)
.....+.|..|+.+++...+. |.+++||||+|||.+|||.||+++..
T Consensus 419 ~~~~~~~~~~~~isP~~f~~~l~~~~~~---F~~~~QQDA~EFl~~LLd~L~~el~~----------------------- 472 (854)
T 3ihp_A 419 ERVPEQKEVQDGIAPRMFKALIGKGHPE---FSTNRQQDAQEFFLHLINMVERNCRS----------------------- 472 (854)
T ss_dssp ----------CCBCCHHHHHHHTTTCTT---TTSSSCCBHHHHHHHHHHHHHHTCTT-----------------------
T ss_pred CCCCCCCCCCCCCCHHHHHHHHHHHCCC---CCCCCCCCHHHHHHHHHHHHHHHHCC-----------------------
T ss_conf 2333334677754819999998640331---12144337899999999999987365-----------------------
Q ss_pred CCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEC---CCCHHHHHHH---------------------HHCCCCCHHH
Q ss_conf 754302332058999960588963333334320011---3500124555---------------------3135587999
Q 000342 1438 ACIVHSLFGMDIFERMNCYSCGLESRHLKYTSFFHN---INASALRTMK---------------------VMCAESSLDE 1493 (1634)
Q Consensus 1438 ~SiI~~LF~G~l~s~i~C~~C~~~S~~~~~~sf~~l---I~as~l~~~k---------------------~~~~~~Sl~d 1493 (1634)
.++|.++|+|.+.++++|..|+.++.+ ++.|+.+ |+........ ...+..++.+
T Consensus 473 ~s~i~~lF~G~l~s~i~C~~C~~vs~t--~e~F~~LsL~Ip~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~sL~d 550 (854)
T 3ihp_A 473 SENPNEVFRFLVEEKIKCLATEKVKYT--QRVDYIMQLPVPMDAALNKEELLEYEEKKRQAEEEKMALPELVRAQVPFSS 550 (854)
T ss_dssp SCCGGGGTCEEEEEEEEETTTTEEEEE--EEEESEEEECCCGGGCTTHHHHHHHHHHHHHHHHTTCCCCCCCCEECCHHH
T ss_pred CCCCHHHCCCEEEEEEEECCCCCEEEE--EEECEEEEEECCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCHHH
T ss_conf 688222107358899996489977677--630647884578632344210001001111000235544324567777999
Q ss_pred HHHHHHCCCC---CCCCCCCCCCCCCC--EEEEEEECCCCEEEEEEEEECCC--CCCCCCCCCCCCCCCCCCCCCCCCC-
Q ss_conf 9999831354---33589998877421--07888504677089999861688--6421112221101100123322237-
Q 000342 1494 LLNLVEMNHQ---LACDPGAGGCEKLN--YIHHILSTPPHVFTTVLGWQNTC--ESFDDITATLAALSPEIDISILYRG- 1565 (1634)
Q Consensus 1494 lLk~~~~ee~---~~Ce~~c~~Cgkk~--~k~~~IsrLP~VLiIhLkw~~~~--~s~~kI~~~i~~fp~eLDLs~f~~g- 1565 (1634)
+|+.|+..+. +.|+ .|+.+. .++..|.++|+||+|||+||... ....|+...+. ||..|||++|+..
T Consensus 551 cL~~f~~~E~Le~y~C~----~C~~k~~a~K~~~i~~lP~vLiihLkRF~~d~~~~~~Ki~~~V~-FP~~LDl~~y~~~~ 625 (854)
T 3ihp_A 551 CLEAYGAPEQVDDFWST----ALQAKSVAVKTTRFASFPDYLVIQIKKFTFGLDWVPKKLDVSIE-MPEELDISQLRGTG 625 (854)
T ss_dssp HHHHHHSCEEEEEEEET----TTTEEEEEEEEEEESSCCSEEEEEECCEEECGGGCEEECCEECC-CCSEEECGGGBCCC
T ss_pred HHHHHCCCEEEEEEECC----CCCCCCEEEEEEEEEECCCEEEEEEEHHEECCCCCEEECCEEEE-CCCCEEHHHHCCCC
T ss_conf 99985584075331035----56873005388882128966799945313567773277886985-68807068850678
Q ss_pred C-------------------------------------------------------------------------------
Q ss_conf 9-------------------------------------------------------------------------------
Q 000342 1566 L------------------------------------------------------------------------------- 1566 (1634)
Q Consensus 1566 ~------------------------------------------------------------------------------- 1566 (1634)
.
T Consensus 626 ~q~~E~~lp~~~~~~~~~~~~~~~~~d~~~l~~L~~mGf~~~~~~kal~~t~n~~~e~a~~wl~~hmdd~di~~p~~~~~ 705 (854)
T 3ihp_A 626 LQPGEEELPDIAPPLVTPDEPKAPMLDESVIIQLVEMGFPMDACRKAVYYTGNSGAEAAMNWVMSHMDDPDFANPLILPG 705 (854)
T ss_dssp SCTTCCBCCCC----------------CHHHHHHHHHTCCHHHHHHHHHHTTSCCHHHHHHHHHHHTTSCGGGSCCCCC-
T ss_pred CCCCCEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf 89872121335665556554456676889999998648977888888863179856777677764167633246555666
Q ss_pred --------------------------------------------------------------------------------
Q ss_conf --------------------------------------------------------------------------------
Q 000342 1567 -------------------------------------------------------------------------------- 1566 (1634)
Q Consensus 1567 -------------------------------------------------------------------------------- 1566 (1634)
T Consensus 706 ~~~~~s~~~~~~~~~~e~i~~l~~mGf~~~~a~~aL~~t~~~~eraidwlfs~~d~~~~~~~~~~~~~~~~~~~~~~~~~ 785 (854)
T 3ihp_A 706 SSGPGSTSAAADPPPEDCVTTIVSMGFSRDQALKALRATNNSLERAVDWIFSHIDDLDAEAAMDISEGRSAADSISESVP 785 (854)
T ss_dssp -------------CCHHHHHHHHTTTCCHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCC----------------
T ss_pred CCCCCCCCCCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 66666655556889989999999828878899999986057387777764068443343210012222334565434455
Q ss_pred ------CCCCCEEEEEEEEEEC-----CEEEEEEEECCCCCEEEECCCCEEEECCHHHHHHHCCCCCCCEEEEEEEECC
Q ss_conf ------9998489999998839-----6499999847999699991981079289255631002799840999999529
Q 000342 1567 ------DPKRRHSLVSVVCYYG-----QHYHCFAYSHDQERWIMYDDKTVKVVGSWSDVLSMCERGHLQPQVLFFEAVN 1634 (1634)
Q Consensus 1567 ------d~~~~Y~L~AVV~H~G-----GHYvayVr~~~~~kW~~fDD~~Vt~Vs~WedVLs~~~~~~~qpYILFYERvn 1634 (1634)
+....|+|+|||+|.| ||||||+| ..++||+|||+.|+.+. +... ..||||||+|++
T Consensus 786 ~~~~~~~~~~~Y~L~avi~H~G~~~~~GHY~~~~~--~~~~W~~~nD~~V~~~~---~~~~------~~aYilfY~R~~ 853 (854)
T 3ihp_A 786 VGPKVRDGPGKYQLFAFISHMGTSTMCGHYVCHIK--KEGRWVIYNDQKVCASE---KPPK------DLGYIYFYQRVA 853 (854)
T ss_dssp --CCCCCCCSEEEEEEEEEEESSCSSCCEEEEEEE--ETTEEEEEETTEEEECS---SCCT------TSCSEEEEEECC
T ss_pred CCCCCCCCCCEEEEEEEEEEECCCCCCCCEEEEEE--ECCEEEEEECCEEEECC---CCCC------CCCEEEEEEECC
T ss_conf 55788889845999999996448999728299997--59989999777158714---6677------851699999568
No 10
>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=385.97 Aligned_cols=305 Identities=20% Similarity=0.294 Sum_probs=225.5
Q ss_pred CCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC--CCCCCCCHHHHHHHHHHHHHHHCCCC-----CCCCCC
Q ss_conf 45767657898876553399999982399999992359998--77569737999999999998614689-----998630
Q 000342 1298 VYGAGLKNEVGEYNCFLNVIIQSLWHLRRFREEFSRRSPSE--HIHVGEPCVVCALYEIFTALSIASTD-----TRKEAV 1370 (1634)
Q Consensus 1298 v~~~GL~NlG~~NTCFLNSILQaL~~ip~FR~~lL~~~~~~--~~~~~e~cv~~aL~~LF~~L~~ss~g-----~~~~~V 1370 (1634)
.+.+||.|+| |||||||+||+|+|+|+||++++...+.. .......|+.++|..+|..|+..... .....+
T Consensus 139 ~G~~GL~NlG--NTCYmNSvLQ~L~~~p~fr~~~l~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~~~~~~~~~ 216 (476)
T 3mhs_A 139 DGLSGLINMG--STCFMSSILQCLIHNPYFIRHSMSQIHSNNCKVRSPDKCFSCALDKIVHELYGALNTKQASSSSTSTN 216 (476)
T ss_dssp TCCCCCCCSS--STHHHHHHHHHHHTCHHHHHHHHTTHHHHHCSSCCTTTCHHHHHHHHHHHHHSCCCC--------CCC
T ss_pred CCCCCCCCCC--CCHHHHHHHHHHHCCHHHHHHHHHCCHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCC
T ss_conf 8997877088--46799899999867899999987450355445788641058999999999961203333456665565
Q ss_pred CCHHHHHHHHHHCCCCCCCHHHCCCCHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf 71889999961289970000001265999999999999853099999998841112368988667887543023320589
Q 000342 1371 APTSLRIALSNLYPDSNFFQEAQMNDASEVLAVIFDCLHRSFTPGSNVSDTESVESNCMGSWDCTNSACIVHSLFGMDIF 1450 (1634)
Q Consensus 1371 sP~~Lr~aL~ki~p~~~~F~~~~QQDA~EFL~~LLD~Lheel~~~~~~s~~es~e~~~~~~w~~~~~~SiI~~LF~G~l~ 1450 (1634)
.|..+...+...+.....|.+++||||+|||.+|||.||+++........ +.. ........++|+++|+|.+.
T Consensus 217 ~~~~~~~~l~~~~~~~~~f~~~~QqDA~EFl~~LLd~L~~~~~~~~~~~~-~~~------~~~~~~~~s~i~~~F~G~l~ 289 (476)
T 3mhs_A 217 RQTGFIYLLTCAWKINQNLAGYSQQDAHEFWQFIINQIHQSYVLDLPNAK-EVS------RANNKQCECIVHTVFEGSLE 289 (476)
T ss_dssp SCHHHHHHHHHHHHHCGGGSSSSCEEHHHHHHHHHHHHHHHHHHHCCC--------------CCCSCCSHHHHHSCEEEE
T ss_pred CCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC-CCC------CCCCCCCCCCCEEECCEEEE
T ss_conf 75008999999887451238887759999999999999999764156653-345------44556688800211325999
Q ss_pred EEEECCCCCCCCCCCCCCCEEECCCCHHHHHHHHHCCCCCHHHHHHHHHCCCC-----CCCCCCCCCCCCC--CEEEEEE
Q ss_conf 99960588963333334320011350012455531355879999999831354-----3358999887742--1078885
Q 000342 1451 ERMNCYSCGLESRHLKYTSFFHNINASALRTMKVMCAESSLDELLNLVEMNHQ-----LACDPGAGGCEKL--NYIHHIL 1523 (1634)
Q Consensus 1451 s~i~C~~C~~~S~~~~~~sf~~lI~as~l~~~k~~~~~~Sl~dlLk~~~~ee~-----~~Ce~~c~~Cgkk--~~k~~~I 1523 (1634)
++++|..|+.+|.+. +++|+.+ .... ....++.++|+.++..+. +.|+ .|+.+ ..++..|
T Consensus 290 ~~~~C~~C~~~s~~~-~e~f~~L-sL~i-------~~~~sl~~~L~~~~~~E~l~~~~~~C~----~C~~~~~a~k~~~i 356 (476)
T 3mhs_A 290 SSIVCPGCQNNSKTT-IDPFLDL-SLDI-------KDKKKLYECLDSFHKKEQLKDFNYHCG----ECNSTQDAIKQLGI 356 (476)
T ss_dssp EEEECTTTCCCCEEE-EEEESCE-EECC-------TTCCBHHHHHHHHHCCEECSSCCCEET----TTTEECCCEEEEEE
T ss_pred EEEEECCCCCEECCC-CCCHHHH-CCCH-------HHHHHHHHHHHHHCCHHHCCCCCCCCC----CCCCCCCEEEEEEC
T ss_conf 889989999851786-5666661-3201-------246689999998638422147787688----66885657899870
Q ss_pred ECCCCEEEEEEEEECCC--CCCCCCCCCCCCCCCCCCCCCCCCCCC----------CCCCEEEEEEEEEEC----CEEEE
Q ss_conf 04677089999861688--642111222110110012332223799----------998489999998839----64999
Q 000342 1524 STPPHVFTTVLGWQNTC--ESFDDITATLAALSPEIDISILYRGLD----------PKRRHSLVSVVCYYG----QHYHC 1587 (1634)
Q Consensus 1524 srLP~VLiIhLkw~~~~--~s~~kI~~~i~~fp~eLDLs~f~~g~d----------~~~~Y~L~AVV~H~G----GHYva 1587 (1634)
.++|+||+|||+||... ....|+...+. ||..|||++|+.... +...|+|+|||+|.| |||+|
T Consensus 357 ~~lP~vL~i~LkRF~~~~~~~~~K~~~~V~-fP~~Ldl~~~~~~~~~~~~~~~~~~~~~~Y~L~avv~H~G~~~~GHY~a 435 (476)
T 3mhs_A 357 HKLPSVLVLQLKRFEHLLNGSNRKLDDFIE-FPTYLNMKNYCSTKEKDKHSENGKVPDIIYELIGIVSHKGTVNEGHYIA 435 (476)
T ss_dssp EEBCSEEEEEECCEEECTTSCEEECCCCCB-CCSEEECGGGBSCCBCCC--CCCBCCCEEEEEEEEEEEEECSSSEEEEE
T ss_pred CCCCCCEEEEEEECCCCCCCCEEECCEEEC-CCCEEECHHHCCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCEEE
T ss_conf 149711399844021548997178987873-8970003432375323432234678997389999999689998875499
Q ss_pred EEEECCCCCEEEECCCCEEEECCHHHHHHHCCCCCCCEEEEEEEEC
Q ss_conf 9984799969999198107928925563100279984099999952
Q 000342 1588 FAYSHDQERWIMYDDKTVKVVGSWSDVLSMCERGHLQPQVLFFEAV 1633 (1634)
Q Consensus 1588 yVr~~~~~kW~~fDD~~Vt~Vs~WedVLs~~~~~~~qpYILFYERv 1633 (1634)
|+|.. +++||+|||+.|++|+. ++|+. .+||||||+|.
T Consensus 436 ~vr~~-~~~W~~fnD~~V~~v~~-~~v~~------~~aYiLfY~r~ 473 (476)
T 3mhs_A 436 FCKIS-GGQWFKFNDSMVSSISQ-EEVLK------EQAYLLFYTIR 473 (476)
T ss_dssp EEECT-TSCEEEEETTEEEEECH-HHHTT------SCEEEEEEEEE
T ss_pred EEECC-CCCEEEEECCCEEECCH-HHHCC------CCCEEEEEEEE
T ss_conf 99889-89189994981589998-99566------98679999984
Done!