Query 041233
Match_columns 240
No_of_seqs 164 out of 803
Neff 5.9
Searched_HMMs 29240
Date Mon Mar 25 08:11:15 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041233.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/041233hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2znr_A AMSH-like protease; met 100.0 4.5E-51 1.5E-55 346.1 15.0 173 61-240 6-178 (178)
2 3rzv_A STAM-binding protein; u 100.0 2.6E-50 8.9E-55 349.5 15.7 178 56-240 34-211 (211)
3 2og4_A PRE-mRNA-splicing facto 100.0 3.1E-31 1.1E-35 234.0 9.2 139 62-205 36-178 (254)
4 2p8r_A PRP8, PRE-mRNA-splicing 100.0 5.8E-30 2E-34 228.0 9.4 142 62-210 37-191 (273)
5 4b4t_V 26S proteasome regulato 100.0 5.3E-29 1.8E-33 226.4 14.8 141 55-198 16-165 (306)
6 2kks_A Uncharacterized protein 99.9 2.6E-25 8.7E-30 181.5 14.1 121 65-192 1-125 (146)
7 2kcq_A MOV34/MPN/PAD-1 family; 99.9 1.4E-25 4.8E-30 184.4 11.1 120 66-192 1-127 (153)
8 3sbg_A PRE-mRNA-splicing facto 99.8 3.1E-21 1.1E-25 183.2 11.0 139 61-206 346-490 (565)
9 1oi0_A AF2198, hypothetical pr 99.8 4.9E-20 1.7E-24 146.4 9.9 109 65-191 3-112 (124)
10 2o95_A 26S proteasome non-ATPa 99.8 4.4E-19 1.5E-23 149.8 14.9 131 61-196 5-146 (187)
11 4e0q_A COP9 signalosome comple 99.7 2.5E-16 8.4E-21 128.4 9.3 116 62-182 4-127 (141)
12 4b4t_U RPN8, 26S proteasome re 99.1 2.8E-09 9.6E-14 97.7 15.7 126 63-192 5-141 (338)
13 2qlc_A DNA repair protein RADC 94.5 0.31 1.1E-05 38.3 9.8 74 87-165 23-96 (126)
No 1
>2znr_A AMSH-like protease; metal binding protein, alternative splicing, hydrolase, metal-binding, metalloprotease, UBL conjugation pathway, zinc; 1.20A {Homo sapiens} PDB: 2znv_A
Probab=100.00 E-value=4.5e-51 Score=346.05 Aligned_cols=173 Identities=43% Similarity=0.802 Sum_probs=162.9
Q ss_pred CceeEEEECHHHHHHHHHHHhccCCCCcceEEEeeeeecCCEEEEEEEEecCCCCCCCceeccChHHHHHHhhhCCCcce
Q 041233 61 NVLQDVHISAQLMEDFLELAKENTDKDLETCGVLGAFLENGTFYVTTLIIPKQDSTSSSCQALNEEDVFAIQNERSLFPM 140 (240)
Q Consensus 61 ~~~~~V~I~~~ll~k~l~hA~~~~~~p~EvcGlL~G~~~~~~~~Vt~l~~ppq~~ts~~~~~~de~e~~~~~~~~gl~iV 140 (240)
.++++|.|+++++++|++||+.++.++.|+||+|+|+..++.++|++++++||.++++++++.++++++++++++|+++|
T Consensus 6 ~~~~~v~i~~~~l~k~l~hA~~~~~~~~EvcGlL~G~~~~~~~~V~~v~~~pq~~t~~~~~~~~~~e~~~~~~~~~l~~v 85 (178)
T 2znr_A 6 EGLRCVVLPEDLCHKFLQLAESNTVRGIETCGILCGKLTHNEFTITHVIVPKQSAGPDYCDMENVEELFNVQDQHDLLTL 85 (178)
T ss_dssp CSCCCEEEETTHHHHHHHHHHHHHTTTCCCEEEEEEEEETTEEEEEEEEECCEEEETTEEEECCHHHHHHHHHHHTCEEE
T ss_pred CCcEEEEECHHHHHHHHHHHHhCCCCCceEEEEEeeEecCCCeEEEEEEeCCcCCCCCeeccCCHHHHHHHHHhCCCEEE
Confidence 45788999999999999999998744589999999999888999999999999999999999999999999999999999
Q ss_pred EEEecCCCCCCCCCHHHHHHHHhhhhcCCCEEEEEEccCCCCceeEEEEeeCCCCcchhhcccCCCcccCCCCCCCCCcc
Q 041233 141 GWIHTHPSQSCFMSSVDLHTHYSYQMMVPEAFAIVLAPTDSSRSYGIFQLTEPSGMSVLKECQETGFHPHKEPADGSPIY 220 (240)
Q Consensus 141 GWYHSHP~~~~fpSs~Dl~tq~syQ~~~pe~vaIVisP~~~~~~l~aFrLt~p~gm~~~~~c~~~~fhph~~~~~~~~~y 220 (240)
|||||||+++++||.+|+++|++||+++|++++||+||+.+ .++||||+ ++|++++++|+++|||||++ +++||
T Consensus 86 GwyHSHP~~~~~pS~~Dv~tq~~yq~~~~~~v~iIvsp~~~--~~~afrl~-~~g~~~~~~~~~~~f~p~~~---~~~~~ 159 (178)
T 2znr_A 86 GWIHTHPTQTAFLSSVDLHTHCSYQLMLPEAIAIVCSPKHK--DTGIFRLT-NAGMLEVSACKKKGFHPHTK---EPRLF 159 (178)
T ss_dssp EEEEECSSSCSCCCHHHHHHHHHHHHHCTTCEEEEEEGGGT--EEEEEEEC-HHHHHHHHHCCCCSSCCCCC---SSCSE
T ss_pred EEEeCCCCCCCCCCHHHHHHHHHHHhhcCCEEEEEEcCCCC--cceEEEEE-CCcEeeecccCCCCcccCCC---CCCce
Confidence 99999999999999999999999999999999999999985 49999999 59999999999999999984 57999
Q ss_pred cccCceEecCCceeEEeeCC
Q 041233 221 EHCSHVYTNSNLRFEIFDLR 240 (240)
Q Consensus 221 ~~~~hv~~~~~~~~~~~dlr 240 (240)
++|+||++++++ |+|+|||
T Consensus 160 ~~~~~~~~~~~~-~~~~~~r 178 (178)
T 2znr_A 160 SICKHVLVKDIK-IIVLDLR 178 (178)
T ss_dssp EECSSEEEECCC-CEEEECC
T ss_pred EEeceEEEeCCe-eEEEecC
Confidence 999999999999 9999999
No 2
>3rzv_A STAM-binding protein; ubiquitin hydrolase, endosome-associated deubiquitinat enzyme, hydrolase; 1.67A {Homo sapiens} PDB: 3rzu_A
Probab=100.00 E-value=2.6e-50 Score=349.49 Aligned_cols=178 Identities=43% Similarity=0.787 Sum_probs=166.1
Q ss_pred CCCCCCceeEEEECHHHHHHHHHHHhccCCCCcceEEEeeeeecCCEEEEEEEEecCCCCCCCceeccChHHHHHHhhhC
Q 041233 56 EPSVSNVLQDVHISAQLMEDFLELAKENTDKDLETCGVLGAFLENGTFYVTTLIIPKQDSTSSSCQALNEEDVFAIQNER 135 (240)
Q Consensus 56 ~~~~~~~~~~V~I~~~ll~k~l~hA~~~~~~p~EvcGlL~G~~~~~~~~Vt~l~~ppq~~ts~~~~~~de~e~~~~~~~~ 135 (240)
......+++.|.||++++++|++||+.++.+++|+||+|+|+..++.++|+++++++|.++++++++.++++++++++.+
T Consensus 34 ~~~~~~~lr~v~Ipk~ll~kfL~~A~~~tp~~~EvcGlL~Gk~~~~~~~I~~v~~ppq~gt~~~v~~~~~~e~~~~~~~~ 113 (211)
T 3rzv_A 34 SIPTIDGLRHVVVPGRLCPQFLQLASANTARGVATCGILCGKLMRNEFTITHVLIPKQSAGSDYCNTENEEELFLIQDQQ 113 (211)
T ss_dssp CCCCBTTBCCEEEETTHHHHHHHHHHHHHHTTCCCEEEEEEEEETTEEEEEEEEECCEEECSSCEEECCHHHHHHHHHHH
T ss_pred ccccccccEEEEECHHHHHHHHHHHHhCCCCCceEEEEEEeEcCCCCEEEEEEEeCCccCCCCceeccChHHHHHHHhhC
Confidence 44445678999999999999999999987446899999999998889999999999999999999999999999999999
Q ss_pred CCcceEEEecCCCCCCCCCHHHHHHHHhhhhcCCCEEEEEEccCCCCceeEEEEeeCCCCcchhhcccCCCcccCCCCCC
Q 041233 136 SLFPMGWIHTHPSQSCFMSSVDLHTHYSYQMMVPEAFAIVLAPTDSSRSYGIFQLTEPSGMSVLKECQETGFHPHKEPAD 215 (240)
Q Consensus 136 gl~iVGWYHSHP~~~~fpSs~Dl~tq~syQ~~~pe~vaIVisP~~~~~~l~aFrLt~p~gm~~~~~c~~~~fhph~~~~~ 215 (240)
++++||||||||++++|||+.|+++|++||.++|++|+|||||... +++||||+ |+||+|+++|+++|||||+.
T Consensus 114 ~l~~vGWyHSHP~~~~~pS~~Dl~tq~~~q~~~~~~I~IVvsP~~~--~lgaFrLt-p~G~~~~~~c~~~~fhph~~--- 187 (211)
T 3rzv_A 114 GLITLGWIHTHPTQTAFLSSVDLHTHCSYQMMLPESVAIVCSPKFQ--ETGFFKLT-DHGLEEISSCRQKGFHPHSK--- 187 (211)
T ss_dssp TCEEEEEEEECTTSCSCCCHHHHHHHHHHHHHCTTCEEEEEETTTT--EEEEEEEC-HHHHHHHHHCCCCSSCCCCC---
T ss_pred CCEEEEEEeCCCCCCCCCCHHHHHHHHHHHhcCCCeEEEEEcCCCC--eeeEEEec-cchhhhhhccccCCcccCCC---
Confidence 9999999999999999999999999999999999999999999965 79999999 59999999999999999996
Q ss_pred CCCcccccCceEecCCceeEEeeCC
Q 041233 216 GSPIYEHCSHVYTNSNLRFEIFDLR 240 (240)
Q Consensus 216 ~~~~y~~~~hv~~~~~~~~~~~dlr 240 (240)
+++||++|+||++++++ |+|+|||
T Consensus 188 ~~~~~~~~~hv~~~~~~-~~~~dlr 211 (211)
T 3rzv_A 188 DPPLFCSCSHVTVVDRA-VTITDLR 211 (211)
T ss_dssp SSCSEEECSSEEEECCC-CEEEECC
T ss_pred CCCceEEeeeEEEcCCE-eEEEeCC
Confidence 47999999999998887 9999999
No 3
>2og4_A PRE-mRNA-splicing factor 8; isopeptidase, JAB1/MPN domain, protein-PR interaction, PRP8P, pseudoenzyme, spliceosome activation; 2.00A {Saccharomyces cerevisiae}
Probab=99.97 E-value=3.1e-31 Score=234.02 Aligned_cols=139 Identities=19% Similarity=0.270 Sum_probs=127.0
Q ss_pred ceeEEEECHHHHHHHHHHHhccCCCCcceEEEeeeeec---CCEEEEEEEEecCCCCCCCceeccChHHHHHHhhhCCCc
Q 041233 62 VLQDVHISAQLMEDFLELAKENTDKDLETCGVLGAFLE---NGTFYVTTLIIPKQDSTSSSCQALNEEDVFAIQNERSLF 138 (240)
Q Consensus 62 ~~~~V~I~~~ll~k~l~hA~~~~~~p~EvcGlL~G~~~---~~~~~Vt~l~~ppq~~ts~~~~~~de~e~~~~~~~~gl~ 138 (240)
..+.+.||++++++|+.+|+.++ |+||+|+|+.. ++..+|++++++||.++.++|.+.++...+++++..+|+
T Consensus 36 ~~~t~vlPknLlkkFi~IAD~~T----q~cG~LyG~~~~d~~~v~eI~~ivippQ~gt~~s~~~~~~~p~~~~~~l~dLe 111 (254)
T 2og4_A 36 EQNVYVLPKNLLKKFIEISDVKI----QVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQISNIPDIGDLPDTEGLE 111 (254)
T ss_dssp TSCEEEEEHHHHHHHHHTSCSSS----CCEEEEEEEECSSCTTEEEEEEEECCCEEEETTEEEECCCCCCTTSTTCTTCE
T ss_pred CCcEEEcCHHHHHHHHHHhhccc----eEEEEEEccCCCCCCCeEEEEEEEECCccCCCceEECCCcCccccchhhcCCE
Confidence 44789999999999999999965 89999999983 357899999999999999999998877777777789999
Q ss_pred ceEEEecCCCCCCCCCHHHHHHHHhhhhcC-CCEEEEEEccCCCCceeEEEEeeCCCCcchhhcccCC
Q 041233 139 PMGWIHTHPSQSCFMSSVDLHTHYSYQMMV-PEAFAIVLAPTDSSRSYGIFQLTEPSGMSVLKECQET 205 (240)
Q Consensus 139 iVGWYHSHP~~~~fpSs~Dl~tq~syQ~~~-pe~vaIVisP~~~~~~l~aFrLt~p~gm~~~~~c~~~ 205 (240)
++||+||||++++|||+.||+||++||.++ +++|+|||+|+.++.+++|||||+ +|++|++++++.
T Consensus 112 ~LGWIHTqptq~~fLSs~Dl~tH~~~~~~~~~eaIaIvcsftpgs~sl~af~LT~-~G~~Wg~~n~d~ 178 (254)
T 2og4_A 112 LLGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISIFSTPGSVSLSAYNLTD-EGYQWGEENKDI 178 (254)
T ss_dssp EEEEEEEESSCCSSCCHHHHHHHHHHHTTTCTTCEEEEEEEETTEEEEEEEEECH-HHHHHHHTCCSC
T ss_pred ecceEeeCCCCCcccCHHHHHHHHHHHHhcCCCeEEEEEecCCCCceeEEEEcCh-hhhhhhhhcccc
Confidence 999999999999999999999999999954 999999999998888899999995 899999998764
No 4
>2p8r_A PRP8, PRE-mRNA-splicing factor PRP8; alpha-beta, translation; 2.10A {Caenorhabditis elegans} PDB: 2p87_A
Probab=99.96 E-value=5.8e-30 Score=227.96 Aligned_cols=142 Identities=18% Similarity=0.278 Sum_probs=124.6
Q ss_pred ceeEEEECHHHHHHHHHHHhccCCCCcceEEEeeeeec---CCEEEEEEEEecCCCCCCCceeccChHHHHHHhhhCCCc
Q 041233 62 VLQDVHISAQLMEDFLELAKENTDKDLETCGVLGAFLE---NGTFYVTTLIIPKQDSTSSSCQALNEEDVFAIQNERSLF 138 (240)
Q Consensus 62 ~~~~V~I~~~ll~k~l~hA~~~~~~p~EvcGlL~G~~~---~~~~~Vt~l~~ppq~~ts~~~~~~de~e~~~~~~~~gl~ 138 (240)
..+.+.||++++++|+..|+.++ |+||+|+|+.. .+..+|++++++||.++.++|.+.++....++. .+|+
T Consensus 37 ~~~t~vlPknllkkFi~IADlrT----q~~G~LyG~s~~d~~~vkeI~~ivipPQ~gt~~sv~~~~~~p~~~~l--~dLe 110 (273)
T 2p8r_A 37 TGYTYILPKNILKKFITISDLRT----QIAGFMYGVSPPDNPQVKEIRCIVLVPQTGSHQQVNLPTQLPDHELL--RDFE 110 (273)
T ss_dssp SSCEEEEEHHHHHHHHHTSCSSS----CCEEEEEEECCTTCTTEEEEEEEECCSBEECSSCEECCSSCCCCTTT--TTSE
T ss_pred CccEEEecHHHHHHHHHHhhccc----eEEEEEeccCCCCCCCeEEEEEEEECCccCCCceEECCCcCcchhhh--cccc
Confidence 34789999999999999999965 99999999983 367899999999999999999988753333333 8999
Q ss_pred ceEEEecCCCCCCCCCHHHHHHHHhhhhc---C--CCEEEEEEccCCCCceeEEEEeeCCCCcchhhcccC-----CCcc
Q 041233 139 PMGWIHTHPSQSCFMSSVDLHTHYSYQMM---V--PEAFAIVLAPTDSSRSYGIFQLTEPSGMSVLKECQE-----TGFH 208 (240)
Q Consensus 139 iVGWYHSHP~~~~fpSs~Dl~tq~syQ~~---~--pe~vaIVisP~~~~~~l~aFrLt~p~gm~~~~~c~~-----~~fh 208 (240)
++||+||||++++|||+.||+||++||.+ + +++|+|+|+|+.++.+++|||||+ +|++|++++++ .|||
T Consensus 111 ~LGWIHTqp~e~~~LSs~Dl~tH~~~~~~~~~~~~~e~I~Ivcsftpgs~sl~af~LT~-~G~~Wg~~n~d~~~~~~Gf~ 189 (273)
T 2p8r_A 111 PLGWMHTQPNELPQLSPQDVTTHAKLLTDNISWDGEKTVMITCSFTPGSVSLTAYKLTP-SGYEWGKANTDKGNNPKGYM 189 (273)
T ss_dssp EEEEEEEESSCCSSCCHHHHHHHHHHHHHCTTCCTTTCEEEEEEEETTEEEEEEEEECH-HHHHHHHHCCCCSSCCTTCC
T ss_pred ccceEeeCCCCCCCcCHHHHHHHHHHHhcccccCCCceEEEEEecCCCCceeEEEEcCh-HHhhhhhhccccccCCCCCC
Confidence 99999999999999999999999999985 4 499999999998888899999996 89999998875 4788
Q ss_pred cC
Q 041233 209 PH 210 (240)
Q Consensus 209 ph 210 (240)
|+
T Consensus 190 p~ 191 (273)
T 2p8r_A 190 PT 191 (273)
T ss_dssp GG
T ss_pred cc
Confidence 76
No 5
>4b4t_V 26S proteasome regulatory subunit RPN11; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=99.96 E-value=5.3e-29 Score=226.44 Aligned_cols=141 Identities=23% Similarity=0.417 Sum_probs=119.8
Q ss_pred CCCCCCCceeEEEECHHHHHHHHHHHhccCCCCcceEEEeeeee-cCCEEEEEEEEecCCCCCCCceeccChHHHHHH--
Q 041233 55 TEPSVSNVLQDVHISAQLMEDFLELAKENTDKDLETCGVLGAFL-ENGTFYVTTLIIPKQDSTSSSCQALNEEDVFAI-- 131 (240)
Q Consensus 55 ~~~~~~~~~~~V~I~~~ll~k~l~hA~~~~~~p~EvcGlL~G~~-~~~~~~Vt~l~~ppq~~ts~~~~~~de~e~~~~-- 131 (240)
.+....+....|+|+..++.+|++||+++. +.|+||+|+|.. ++++++|+++|+.|+.++++++++.+++...++
T Consensus 16 ~~~~~~~~~~~V~is~lallkm~~Ha~~~~--~~eV~GlLlG~~~~~~~v~Vt~~f~~P~~~~~~~v~~~d~~y~~~m~~ 93 (306)
T 4b4t_V 16 ADTGRDDTKETVYISSIALLKMLKHGRAGV--PMEVMGLMLGEFVDDYTVNVVDVFAMPQSGTGVSVEAVDDVFQAKMMD 93 (306)
T ss_dssp -CCCCCSSCCEEEECHHHHHHHHHHTCSCS--SSCCEEEEEEEEETTTEEEEEEEECCCCEESSSCEECCCHHHHHHHHH
T ss_pred CCCCCCCCCCEEEEeHHHHHHHHHHhcCCC--CceEEEEEeeEEcCCeEEEEEEEEeCCcCCCCCchhcCCHHHHHHHHH
Confidence 344555677999999999999999999977 999999999986 566899999999999999999888887533332
Q ss_pred -h--hhCCCcceEEEecCCCCCCCCCHHHHHHHHhhhhcCCCEEEEEEccCCCCc---eeEEEEeeCCCCcch
Q 041233 132 -Q--NERSLFPMGWIHTHPSQSCFMSSVDLHTHYSYQMMVPEAFAIVLAPTDSSR---SYGIFQLTEPSGMSV 198 (240)
Q Consensus 132 -~--~~~gl~iVGWYHSHP~~~~fpSs~Dl~tq~syQ~~~pe~vaIVisP~~~~~---~l~aFrLt~p~gm~~ 198 (240)
. ..+++.+||||||||.++||||..|++||+.||.+.+++|+||+||..+.. .++|||+++ .|+..
T Consensus 94 ~~~~v~~~~~vVGWYhShP~~~~~~S~~Di~tq~~yQ~~~~~~V~lV~Dp~~t~~G~~~i~Afr~~~-~~~~~ 165 (306)
T 4b4t_V 94 MLKQTGRDQMVVGWYHSHPGFGCWLSSVDVNTQKSFEQLNSRAVAVVVDPIQSVKGKVVIDAFRLID-TGALI 165 (306)
T ss_dssp HHHHHSCCCCCSEEEEECCSSSCCCCHHHHHHHHHHHHHCSSCEEEEECSSSSSSCSSCEEEEECCH-HHHHH
T ss_pred HHHHhCCCcceeeEEecCCCCCCcCCHHHHHHHHHHHhcCCCcEEEEECCCcCCCCceeeeEEEecC-ccccc
Confidence 2 247799999999999999999999999999999999999999999987644 599999996 55443
No 6
>2kks_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; NMR {Desulfitobacterium hafniense}
Probab=99.93 E-value=2.6e-25 Score=181.54 Aligned_cols=121 Identities=16% Similarity=0.274 Sum_probs=106.6
Q ss_pred EEEECHHHHHHHHHHHhccCCCCcceEEEeeeeecCCEEEEEEEEecCCCCCCCceeccChHHHHHHh---hhCCCcceE
Q 041233 65 DVHISAQLMEDFLELAKENTDKDLETCGVLGAFLENGTFYVTTLIIPKQDSTSSSCQALNEEDVFAIQ---NERSLFPMG 141 (240)
Q Consensus 65 ~V~I~~~ll~k~l~hA~~~~~~p~EvcGlL~G~~~~~~~~Vt~l~~ppq~~ts~~~~~~de~e~~~~~---~~~gl~iVG 141 (240)
+|.|++.++++|++||+.+. |.|+||+|+|+.+.+...|+.+++.+|...+...+..|++++++++ +.+|+.+||
T Consensus 1 ml~i~~~~l~~i~~ha~~~~--p~E~cGlL~G~~~~~~~~v~~~~p~~n~~~~~~~f~~dp~~~~~~~~~~~~~g~~ivG 78 (146)
T 2kks_A 1 MITLTKKQMEEMLAHARQAL--PNEACGLLGGRRDGDDRWVERVYPLNNLDQSPEHFSMDPREQLTAVKDMRKNGWVMLG 78 (146)
T ss_dssp CEEEEHHHHHHHHHHHHHHT--TSCEEEEEEEEEETTEEEEEEEECCCCCSCCSSSCCCCHHHHHHHHHHHHHHTCEEEE
T ss_pred CEEECHHHHHHHHHHHHhcC--CcceEEEEEEEEcCCCcEEEEEEECCCcCCCCceEEECHHHHHHHHHHHHHCCCEEEE
Confidence 37899999999999999987 9999999999988778899999999988777677889998888774 678999999
Q ss_pred EEecCCCCCCCCCHHHHHHHHhhhhcCCCEEEEEEccCCC-CceeEEEEeeC
Q 041233 142 WIHTHPSQSCFMSSVDLHTHYSYQMMVPEAFAIVLAPTDS-SRSYGIFQLTE 192 (240)
Q Consensus 142 WYHSHP~~~~fpSs~Dl~tq~syQ~~~pe~vaIVisP~~~-~~~l~aFrLt~ 192 (240)
||||||+.+++||.+|+.++ ..++.++||+++..+ ...+++|++.+
T Consensus 79 ~~HSHP~~~~~PS~~D~~~~-----~~~~~~~lIvs~~~~~~~~~~af~~~~ 125 (146)
T 2kks_A 79 NFHSHPATPARPSAEDKRLA-----FDPSLSYLIISLAEPQKPVCKSFLIKK 125 (146)
T ss_dssp EEEEESSSCSSCCHHHHTTC-----CSSSCEEEEEECSCSSSCEEEEEEECS
T ss_pred EEeCCCcCCCCCCHHHHHhh-----hcCCCeEEEEEccCCCceEEEEEEEeC
Confidence 99999999999999999852 468999999999873 35799999964
No 7
>2kcq_A MOV34/MPN/PAD-1 family; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Salinibacter ruber dsm 13855}
Probab=99.93 E-value=1.4e-25 Score=184.39 Aligned_cols=120 Identities=18% Similarity=0.281 Sum_probs=103.7
Q ss_pred EEECHHHHHHHHHHHhccCCCCcceEEEeeeeec-CCEEEEEEEEecCCC--CCCCceeccChHHHHHHh---hhCCCcc
Q 041233 66 VHISAQLMEDFLELAKENTDKDLETCGVLGAFLE-NGTFYVTTLIIPKQD--STSSSCQALNEEDVFAIQ---NERSLFP 139 (240)
Q Consensus 66 V~I~~~ll~k~l~hA~~~~~~p~EvcGlL~G~~~-~~~~~Vt~l~~ppq~--~ts~~~~~~de~e~~~~~---~~~gl~i 139 (240)
+.|+++++++|++||+.++ |.|+||+|+|+.+ ++.+.|+.+++.+|. .++..++.++++++++++ +++|+.+
T Consensus 1 l~i~~~~l~~i~~ha~~~~--p~E~cGlL~G~~~~~~~~~v~~~~p~~n~~~~~~~~~f~~dp~~~~~~~~~~~~~g~~i 78 (153)
T 2kcq_A 1 MKTTPDILDQIRVHGADAY--PEEGCGFLLGTVTDDGDNRVAALHRATNRRSEQRTRRYELTADDYRAADAAAQEQGLDV 78 (153)
T ss_dssp CBCCHHHHHHHHHHHHHHT--TSCCCEEEEEEECTTSCEEEEEEEESSCCCCCCCSCCSSCCCCSHHHHHHHHHHHTCEE
T ss_pred CEeCHHHHHHHHHHHHhcC--CcceEEEEEEeeccCCCeEEEEEEECCCCCCCCCCcEEEECHHHHHHHHHHHHHCCCeE
Confidence 3589999999999999987 9999999999987 678899999999987 566677888888887774 4689999
Q ss_pred eEEEecCCCCCCCCCHHHHHHHHhhhhcCCCEEEEEEccCCCC-ceeEEEEeeC
Q 041233 140 MGWIHTHPSQSCFMSSVDLHTHYSYQMMVPEAFAIVLAPTDSS-RSYGIFQLTE 192 (240)
Q Consensus 140 VGWYHSHP~~~~fpSs~Dl~tq~syQ~~~pe~vaIVisP~~~~-~~l~aFrLt~ 192 (240)
||||||||+.+++||.+|+.+ +..+++++||+++..+. ..+++|++++
T Consensus 79 vG~yHSHP~~~~~PS~~D~~~-----~~~~~~~~lIvs~~~~~~~~~~af~~~~ 127 (153)
T 2kcq_A 79 VGVYHSHPDHPARPSATDLEE-----ATFPGFTYVIVSVRDGAPEALTAWALAP 127 (153)
T ss_dssp EEEEEECSSSSSSCCHHHHHT-----CCCTTSEEEEEEEETTEEEEEEEEEECT
T ss_pred EEEEeCCCCCCCCCCHHHHHh-----hhcCCCeEEEEECCCCCccEEEEEEEeC
Confidence 999999999999999999974 24689999999986654 4699999964
No 8
>3sbg_A PRE-mRNA-splicing factor 8; PRP8P, rnaseh domain, JAB1/MPN domain; 3.28A {Saccharomyces cerevisiae}
Probab=99.84 E-value=3.1e-21 Score=183.17 Aligned_cols=139 Identities=18% Similarity=0.255 Sum_probs=118.4
Q ss_pred CceeEEEECHHHHHHHHHHHhccCCCCcceEEEeeeeec-C--CEEEEEEEEecCCCCCCCceecc--ChHHHHHHhhhC
Q 041233 61 NVLQDVHISAQLMEDFLELAKENTDKDLETCGVLGAFLE-N--GTFYVTTLIIPKQDSTSSSCQAL--NEEDVFAIQNER 135 (240)
Q Consensus 61 ~~~~~V~I~~~ll~k~l~hA~~~~~~p~EvcGlL~G~~~-~--~~~~Vt~l~~ppq~~ts~~~~~~--de~e~~~~~~~~ 135 (240)
.....+.+|++++.+|+..|+.++ |+||+|+|+.. + +..+|++++.|||.++.++|.+. .+.++|. ...
T Consensus 346 e~~~tyVlPkNLLkKFI~IADlrT----QicGyLyG~sp~dn~nVkEI~cIVipPQ~Gt~~sv~lp~lp~he~~~--~l~ 419 (565)
T 3sbg_A 346 EEQNVYVLPKNLLKKFIEISDVKI----QVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQISNIPDIGDLP--DTE 419 (565)
T ss_dssp TTSCEEEEEHHHHHHHHHHSCSSS----CCEEEEEEEEETTEEEEEEEEEEECCCEEECSSCEEECCCCCCTTST--TCT
T ss_pred CCCcEEEccHHHHHHHHHHhhccc----eeEEEEecCCCCCCCCeEEEEEEEECCccCCCceEECCCCCcccccc--ccc
Confidence 335789999999999999999965 99999999974 2 56899999999999999999875 1111111 358
Q ss_pred CCcceEEEecCCCCCCCCCHHHHHHHHhhhhcC-CCEEEEEEccCCCCceeEEEEeeCCCCcchhhcccCCC
Q 041233 136 SLFPMGWIHTHPSQSCFMSSVDLHTHYSYQMMV-PEAFAIVLAPTDSSRSYGIFQLTEPSGMSVLKECQETG 206 (240)
Q Consensus 136 gl~iVGWYHSHP~~~~fpSs~Dl~tq~syQ~~~-pe~vaIVisP~~~~~~l~aFrLt~p~gm~~~~~c~~~~ 206 (240)
+|+++||+||||++.+|||+.|+++|+++.... ...|.|+|+.+.++.++.||+|++ +|.+|++++++.+
T Consensus 420 dLe~LGWIHTqp~et~fLSs~Dl~THakl~~~n~~~~I~itvsftPGS~SLsAy~LT~-eGyeWG~~N~d~~ 490 (565)
T 3sbg_A 420 GLELLGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISIFSTPGSVSLSAYNLTD-EGYQWGEENKDIM 490 (565)
T ss_dssp TCEEEEEEEEESSCCSSCCHHHHHHHHHHHSSSCTTCEEEEEEEETTEEEEEEEEECH-HHHHHHHTTTTCC
T ss_pred cCEecceeeecCCcccccCHHHHHHHHHHHHhCCCCeEEEEEEecCCceEEEEEecCH-hHHHHHhhccccc
Confidence 999999999999999999999999999886543 478999999999989999999995 9999999998764
No 9
>1oi0_A AF2198, hypothetical protein AF2198; proteasome, deubiquitination, archaea, hydrolase; 1.5A {Archaeoglobus fulgidus} SCOP: c.97.3.1 PDB: 1r5x_A
Probab=99.81 E-value=4.9e-20 Score=146.36 Aligned_cols=109 Identities=25% Similarity=0.244 Sum_probs=82.9
Q ss_pred EEEECHHHHHHHHHHHhccCCCCcceEEEeeeeecCCEEEEEEEEecCCCCCCCceeccChHHHHH-HhhhCCCcceEEE
Q 041233 65 DVHISAQLMEDFLELAKENTDKDLETCGVLGAFLENGTFYVTTLIIPKQDSTSSSCQALNEEDVFA-IQNERSLFPMGWI 143 (240)
Q Consensus 65 ~V~I~~~ll~k~l~hA~~~~~~p~EvcGlL~G~~~~~~~~Vt~l~~ppq~~ts~~~~~~de~e~~~-~~~~~gl~iVGWY 143 (240)
+|.|++.++++|++||+..+ |+|+||+|+|+.. .|+.+++.++.+++.+ ..|+ .+..+|+.+||||
T Consensus 3 ~v~i~~~~l~~i~~ha~~~~--P~E~cGlL~g~~~----~v~~~~~~p~~~~~~~-------~~f~~~~~~~~~~ivG~~ 69 (124)
T 1oi0_A 3 SMKISRGLLKTILEAAKSAH--PDEFIALLSGSKD----VMDELIFLPFVSGSVS-------AVIHLDMLPIGMKVFGTV 69 (124)
T ss_dssp SCEECHHHHHHHHHHHHHHT--TSCCEEEEEESTT----EECEEEECCCCC--------------------CCCEEEEEE
T ss_pred EEEEcHHHHHHHHHHHHhcC--CCeeEEEEecccC----EEEEEEECCCCCCCcC-------ceeeeeeccCCCEEEEEE
Confidence 47899999999999999988 9999999999874 7888998875443221 1121 2456899999999
Q ss_pred ecCCCCCCCCCHHHHHHHHhhhhcCCCEEEEEEccCCCCceeEEEEee
Q 041233 144 HTHPSQSCFMSSVDLHTHYSYQMMVPEAFAIVLAPTDSSRSYGIFQLT 191 (240)
Q Consensus 144 HSHP~~~~fpSs~Dl~tq~syQ~~~pe~vaIVisP~~~~~~l~aFrLt 191 (240)
||||+.+++||.+|+.++. .++.++||+++..+...+++|+..
T Consensus 70 HSHP~~~~~PS~~D~~~~~-----~~~~~~lIvs~~~~~~~~~~f~~~ 112 (124)
T 1oi0_A 70 HSHPSPSCRPSEEDLSLFT-----RFGKYHIIVCYPYDENSWKCYNRK 112 (124)
T ss_dssp EEESSSCCSCCHHHHHHHH-----HSCSEEEEEETTCCTTCEEEEETT
T ss_pred EECcCCCCccCHHHHHhhh-----cCCCEEEEEEccCCCceEEEEecC
Confidence 9999999999999998642 578899999987654457777653
No 10
>2o95_A 26S proteasome non-ATPase regulatory subunit 7; PSMD7, MOV34, JAB1/MPN, metal-free dimer, UN function; HET: SO4 12P ETE PG4 PGE; 1.95A {Homo sapiens} PDB: 2o96_A
Probab=99.81 E-value=4.4e-19 Score=149.77 Aligned_cols=131 Identities=13% Similarity=0.142 Sum_probs=102.3
Q ss_pred CceeEEEECHHHHHHHHHHHhccC--CCCcceEEEeeeeecCCEEEEEEEEecCCCCCCC--ceeccChHHHHHH---hh
Q 041233 61 NVLQDVHISAQLMEDFLELAKENT--DKDLETCGVLGAFLENGTFYVTTLIIPKQDSTSS--SCQALNEEDVFAI---QN 133 (240)
Q Consensus 61 ~~~~~V~I~~~ll~k~l~hA~~~~--~~p~EvcGlL~G~~~~~~~~Vt~l~~ppq~~ts~--~~~~~de~e~~~~---~~ 133 (240)
.+...|.|...++.+|+.||.+.. ..+.|+||+|+|+..++.++|+++|+.|+..++. .....|++.+.+. ..
T Consensus 5 ~~~~~V~i~plvllkI~~H~~r~~~~~~~~~V~G~LLG~~~~~~v~V~~~f~lp~~~~~~~~~~~~~d~ey~~~m~~~~~ 84 (187)
T 2o95_A 5 LAVQKVVVHPLVLLSVVDHFNRIGKVGNQKRVVGVLLGSWQKKVLDVSNSFAVPFDEDDKDDSVWFLDHDYLENMYGMFK 84 (187)
T ss_dssp CSCSEEEECHHHHHHHHHHHHHHHHTTCCSCCEEEEEEEESSSEEEEEEEEEECEEECSSCTTSEEECHHHHHHHHHHHH
T ss_pred CCCCEEEEchHHHHHHHHHHhhhcccCCCcEEEEEEEEEEcCCEEEEEEEEEeCCcccCCCcchhhcCHHHHHHHHHHHH
Confidence 345789999999999999987640 1289999999999988899999999999865443 2445665422221 12
Q ss_pred --hCCCcceEEEecCCCCCCCCCHHHHHHHHhhhhcCCCEEEEEEccCCCC--ceeEEEEeeCCCCc
Q 041233 134 --ERSLFPMGWIHTHPSQSCFMSSVDLHTHYSYQMMVPEAFAIVLAPTDSS--RSYGIFQLTEPSGM 196 (240)
Q Consensus 134 --~~gl~iVGWYHSHP~~~~fpSs~Dl~tq~syQ~~~pe~vaIVisP~~~~--~~l~aFrLt~p~gm 196 (240)
..++.+||||||||.. |..|+..|..||...|.+++||+||..+. ..++||++.+ .+.
T Consensus 85 ~v~~~~~iVGWY~s~~~~----s~~d~~i~~~~~~~~~~~v~Livd~~~~~~~l~i~ay~~~~-~~~ 146 (187)
T 2o95_A 85 KVNARERIVGWYHTGPKL----HKNDIAINELMKRYCPNSVLVIIDVKPKDLGLPTEAYISVE-EVH 146 (187)
T ss_dssp TTSSSCEEEEEEECCSSC----CTTHHHHHHHHTTTCTTCEEEEECCCTTC-CCSEEEEEEEE-ECC
T ss_pred HhCCCCCEEEEEcCCCcC----CcccHHHHHHHHhcCCCCEEEEECCCCCCCCcCeEEEEEec-hhc
Confidence 3689999999999974 77888888889999999999999997753 4699999984 444
No 11
>4e0q_A COP9 signalosome complex subunit 6; MPN (MPR1P and PAD1P N-terminal) domain, unknown function; 2.50A {Drosophila melanogaster}
Probab=99.66 E-value=2.5e-16 Score=128.39 Aligned_cols=116 Identities=12% Similarity=0.081 Sum_probs=85.5
Q ss_pred ceeEEEECHHHHHHHHHHHhccC---CCCcceEEEeeeeecCCEEEEEEEEecCCCCCCCceeccChHH---HHHHh--h
Q 041233 62 VLQDVHISAQLMEDFLELAKENT---DKDLETCGVLGAFLENGTFYVTTLIIPKQDSTSSSCQALNEED---VFAIQ--N 133 (240)
Q Consensus 62 ~~~~V~I~~~ll~k~l~hA~~~~---~~p~EvcGlL~G~~~~~~~~Vt~l~~ppq~~ts~~~~~~de~e---~~~~~--~ 133 (240)
+...|.|...++.+|++|+.+.. ..+.+++|+|+|..+++.++|+++|+.|...+++.. ..|.+- +++.. -
T Consensus 4 ~~~~V~ihplvll~I~dH~~R~~~~~g~~~~V~G~LLG~~~~~~veV~nsF~~p~~~~~~~~-~~d~~y~~~m~~~~k~v 82 (141)
T 4e0q_A 4 MSVTISLHPLVIMNISEHWTRFRAQHGEPRQVYGALIGKQKGRNIEIMNSFELKTDVIGDET-VINKDYYNKKEQQYKQV 82 (141)
T ss_dssp -CEEEEECHHHHHHHHHHHHCC------CCEEEEEEEEEEETTEEEEEEEEECCEEEETTEE-EECHHHHHHHHHHHHHH
T ss_pred CcEEEEEecHHHHHHHHHHhhhcccCCCCcEEEEEEEEEEeCCEEEEEEEEEecccCCCCce-eecHHHHHHHHHHHHHh
Confidence 44789999999999999996631 136899999999998899999999999987655543 445421 22221 2
Q ss_pred hCCCcceEEEecCCCCCCCCCHHHHHHHHhhhhcCCCEEEEEEccCCCC
Q 041233 134 ERSLFPMGWIHTHPSQSCFMSSVDLHTHYSYQMMVPEAFAIVLAPTDSS 182 (240)
Q Consensus 134 ~~gl~iVGWYHSHP~~~~fpSs~Dl~tq~syQ~~~pe~vaIVisP~~~~ 182 (240)
..++.+|||||||| .++..|+..|..|+...+..|+|+++|..+.
T Consensus 83 ~~~e~iVGWY~s~~----~~~~~d~~i~~~~~~~~~~pV~L~~Dp~~~~ 127 (141)
T 4e0q_A 83 FSDLDFIGWYTTGD----NPTADDIKIQRQIAAINECPIMLQLNPLSRS 127 (141)
T ss_dssp STTCEEEEEEEEEC-----------CHHHHHHHTTCCCEEEEESCSCCC
T ss_pred CCCccEEEEEeCCC----CCCcchHHHHHHHHHHCCCCEEEEECCCccC
Confidence 36799999999997 3889999999999999999999999998764
No 12
>4b4t_U RPN8, 26S proteasome regulatory subunit RPN8; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}
Probab=99.07 E-value=2.8e-09 Score=97.71 Aligned_cols=126 Identities=14% Similarity=0.223 Sum_probs=89.5
Q ss_pred eeEEEECHHHHHHHHHHHhc-cCCCCcceEEEeeeeecCCEEEEEEEEecCCCCC--CCceeccChH---HHHHHhh--h
Q 041233 63 LQDVHISAQLMEDFLELAKE-NTDKDLETCGVLGAFLENGTFYVTTLIIPKQDST--SSSCQALNEE---DVFAIQN--E 134 (240)
Q Consensus 63 ~~~V~I~~~ll~k~l~hA~~-~~~~p~EvcGlL~G~~~~~~~~Vt~l~~ppq~~t--s~~~~~~de~---e~~~~~~--~ 134 (240)
...|.|-+.++.+|+.|+.+ ....+..+.|.|+|..+++.++|+++|+.|-..+ .......|.+ .+++... .
T Consensus 5 ~~~V~vhPlVll~I~dH~~R~~~~~~~rViG~LLG~~~~~~veV~nsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~kkV~ 84 (338)
T 4b4t_U 5 HEKVTIAPLVLLSALDHYERTQTKENKRCVGVILGDANSSTIRVTNSFALPFEEDEKNSDVWFLDHNYIENMNEMCKKIN 84 (338)
T ss_dssp CSEEEECHHHHHHHHHHHHHHTTTCCSCCEEEEEEEECSSEEEEEEEEECCEEECSSSTTCEEECHHHHHHHHHHHHHHC
T ss_pred CCEEEEecHHHHHHHHHHHHhhcCCCCeEEEEEEeEEcCCEEEEEEEEEeccccCCCCCccccccHHHHHHHHHHHhhcC
Confidence 46799999999999999765 2223567999999999999999999999885332 2233344532 2222211 3
Q ss_pred CCCcceEEEecCCCCCCCCCHHHHHHHHhhhhcC-CCEEEEEEccCCCC--ceeEEEEeeC
Q 041233 135 RSLFPMGWIHTHPSQSCFMSSVDLHTHYSYQMMV-PEAFAIVLAPTDSS--RSYGIFQLTE 192 (240)
Q Consensus 135 ~gl~iVGWYHSHP~~~~fpSs~Dl~tq~syQ~~~-pe~vaIVisP~~~~--~~l~aFrLt~ 192 (240)
..+.+||||||+|. ++..|+..|..|+... +..+.+++++.... ..++||....
T Consensus 85 ~~e~iVGWY~tg~~----~~~~d~~Ih~~~~~~~~~~pi~l~~d~~~~~~~lpi~aY~s~~ 141 (338)
T 4b4t_U 85 AKEKLIGWYHSGPK----LRASDLKINELFKKYTQNNPLLLIVDVKQQGVGLPTDAYVAIE 141 (338)
T ss_dssp CSCEEEEEEECCSS----CCSTHHHHHHHHGGGCCSCCCEEEECSCCCSSSCSEEEEEEEE
T ss_pred ccCCEEEEEecCCC----CCccHHHHHHHHHhccCCCcEEEEecCCCCCCCcceEEEEeeh
Confidence 67899999999864 6677877777777765 45677788776553 2499998663
No 13
>2qlc_A DNA repair protein RADC homolog; MCSG, structural genomics, PSI-2, structure initiative; HET: DNA; 2.30A {Chlorobium tepidum tls}
Probab=94.50 E-value=0.31 Score=38.30 Aligned_cols=74 Identities=20% Similarity=0.183 Sum_probs=50.1
Q ss_pred CcceEEEeeeeecCCEEEEEEEEecCCCCCCCceeccChHHHHHHhhhCCCcceEEEecCCCCCCCCCHHHHHHHHhhh
Q 041233 87 DLETCGVLGAFLENGTFYVTTLIIPKQDSTSSSCQALNEEDVFAIQNERSLFPMGWIHTHPSQSCFMSSVDLHTHYSYQ 165 (240)
Q Consensus 87 p~EvcGlL~G~~~~~~~~Vt~l~~ppq~~ts~~~~~~de~e~~~~~~~~gl~iVGWYHSHP~~~~fpSs~Dl~tq~syQ 165 (240)
+.|...+|+=...++.+....++. ++-+. ...++.|+|+.+...+-.-+...|-||+..+.||..|+..-...+
T Consensus 23 ~~E~f~vl~Ld~~n~li~~~~l~~----Gt~~~-~~v~pRei~~~Al~~~A~~vIl~HNHPSG~~~PS~~D~~~T~~l~ 96 (126)
T 2qlc_A 23 TKEHLFVLFLSTKNQILRHETITI----GTLTA-SLIHPREIFKAAIRESAHSIILVHNHPSGDVQPSNADKQVTSILK 96 (126)
T ss_dssp TSCEEEEEEECTTCBEEEEEEEEE----SSCCG-GGCCHHHHHHHHHHTTCSEEEEEEECSSSCCSCCHHHHHHHHHHH
T ss_pred CCeEEEEEEEcCCCCEEEEEEecC----CCCCc-EeecHHHHHHHHHHcCCcEEEEEecCCCCCCCCCHHHHHHHHHHH
Confidence 678765554222233344444442 22222 355789999988888889999999999999999999987544333
Done!