Query 026552
Match_columns 237
No_of_seqs 248 out of 1283
Neff 5.7
Searched_HMMs 29240
Date Mon Mar 25 16:18:29 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026552.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/026552hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3kio_A Ribonuclease H2 subunit 100.0 1.1E-60 3.7E-65 433.7 18.1 222 4-237 77-301 (301)
2 1eke_A Ribonuclease HII; endon 100.0 3.5E-43 1.2E-47 308.4 14.8 158 4-171 50-219 (230)
3 1io2_A Ribonuclease HII; endon 100.0 1.9E-42 6.6E-47 300.8 14.3 155 4-172 50-206 (213)
4 1i39_A Ribonuclease HII, RNAse 100.0 2.7E-42 9.3E-47 302.1 14.3 152 4-172 67-219 (225)
5 1uax_A Ribonuclease HII, ribon 100.0 1.5E-41 5.1E-46 296.5 12.9 155 4-172 50-206 (220)
6 2etj_A Ribonuclease HII, RNAse 100.0 1.6E-36 5.4E-41 268.6 10.3 148 4-185 67-218 (250)
7 2d0b_A RNAse HIII, ribonucleas 100.0 6.8E-29 2.3E-33 226.2 9.7 155 4-172 140-304 (310)
8 3vn5_A RNAse HIII, ribonucleas 99.9 4.2E-26 1.4E-30 203.1 13.0 137 4-165 120-256 (257)
9 1d3y_A DNA topoisomerase VI A 52.6 4.5 0.00016 35.9 1.3 17 132-149 152-168 (301)
10 2q2e_A Type II DNA topoisomera 42.3 11 0.00038 34.3 2.2 17 132-149 225-241 (369)
11 1jr5_A 10 kDa anti-sigma facto 38.5 9.9 0.00034 28.2 1.0 20 99-118 10-29 (90)
12 2kih_A Matrix protein 2; S31N, 37.4 13 0.00046 23.6 1.3 15 94-108 3-17 (43)
13 2zbk_A Type II DNA topoisomera 34.3 12 0.00041 34.5 1.1 18 132-150 232-249 (389)
14 2ljb_A M2 protein, BM2 protein 30.4 21 0.00073 21.8 1.4 15 94-108 3-17 (35)
15 3lbw_A M2 protein; proton chan 28.4 25 0.00086 19.6 1.3 10 99-108 1-10 (23)
16 3bkd_A Transmembrane domain of 26.5 26 0.00089 20.0 1.2 10 99-108 4-13 (26)
No 1
>3kio_A Ribonuclease H2 subunit A; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_A 3puf_A 3p56_A
Probab=100.00 E-value=1.1e-60 Score=433.65 Aligned_cols=222 Identities=42% Similarity=0.791 Sum_probs=170.5
Q ss_pred cchhHHHhc--CCceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChhHHHHHhhc
Q 026552 4 EAALPKWAS--NPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQ 81 (237)
Q Consensus 4 ~~~~~~i~~--~a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~~~~~~~V~VD~~g~~~~y~~~L~~ 81 (237)
|+|++.|.+ .+++|+|.+++|++||+.|+++.++|||.+++.++..+|+.++..+++|+.||||+++.+++|+++|+.
T Consensus 77 e~L~~~I~~~~~a~~~~v~~~s~~eId~~m~~~~~~nlN~l~~~~~~~~i~~~~~l~~~p~~vlVD~~~~p~~y~~~L~~ 156 (301)
T 3kio_A 77 ERLFAKMEEDGDFVGWALDVLSPNLISTSMLGRVKYNLNSLSHDTAAGLIQYALDQNVNVTQVFVDTVGMPETYQARLQQ 156 (301)
T ss_dssp HHHHHHHHHTTTTCEEEEEEECHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHHHHTTCCEEEEEEECSSCCHHHHHHHHH
T ss_pred HHHHHHHHhhcccceEEEEecCHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHhcCCCCCEEEECCCCChHHHHHHHhh
Confidence 678999988 689999999999999999998889999999999999999988877899999999999999999999998
Q ss_pred cCCCceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCCccCCCCHHHHHHHHhccccccCCCcccc
Q 026552 82 RFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVR 161 (237)
Q Consensus 82 ~~p~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yGsGYPsDp~Tk~~L~~~~~~~fG~p~~~R 161 (237)
.+|++++++++|||++||+||||||||||+||++|++|.|.|.+.+.+++|||||||||+|++||+++++++||+|++||
T Consensus 157 ~~p~~~~~~~~KgDs~~~sVAAASIlAKV~RD~~M~~~~f~e~l~~~~~~~GsGYPSDp~T~~~L~~~~~~~~G~p~~vR 236 (301)
T 3kio_A 157 HFPGIEVTVKAKADSLFPVVSAASIFAKVARDKAVKNWQFVENLQDLDSDYGSGYPNDPKTKAWLRKHVDPVFGFPQFVR 236 (301)
T ss_dssp SSTTSEEEEETTGGGTSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCCCSSSTTSHHHHHHHHTTCBTTTBSCTTBC
T ss_pred cCCCCceEEEeccchhhhHHHHHHHHHHHHHHHHHHHhhhhhhHHhhCCCCCCcCCCCHHHHHHHHHcccccCCCCcccc
Confidence 89999999999999999999999999999999999999998888889999999999999999999999999999999999
Q ss_pred ccchhhHhhc-cccceeeeccCcccccccccccccccccccccccCcccCchhhhhccCccccchhhhcccccccCC
Q 026552 162 FSWGTCTSHF-KDIVEVLWESDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF 237 (237)
Q Consensus 162 ~Sw~t~~~~l-~~~~~v~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~r~l~~~~~~ 237 (237)
+||+|+++++ +++++|+|++|+++++.+ + .+ +|++| |..... ...+++||+||++|+|++|+++
T Consensus 237 ~SW~tvk~~l~~~~~~v~w~~~~~~~~~~---~-~~--~~~~~-f~~~~~-----~~~~~~~~~~f~~~~l~~~~~~ 301 (301)
T 3kio_A 237 FSWSTAQAILEKEAEDVIWEDSEAEEDPE---R-PG--KITSY-FSQGPQ-----TCRPQAPHRYFQERGLEAASSL 301 (301)
T ss_dssp TTSHHHHHHHHHHSCCEECSCC-------------------------------------------------------
T ss_pred CCcHHHHHHHhcCCceeeecccccccccc---c-ch--hHHHH-hcCCCc-----cccccccchhhHhhcccccccC
Confidence 9999999999 589999999887543221 1 12 88886 221111 1114789999999999999875
No 2
>1eke_A Ribonuclease HII; endonuclease, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: MES; 2.00A {Methanocaldococcus jannaschii} SCOP: c.55.3.1
Probab=100.00 E-value=3.5e-43 Score=308.42 Aligned_cols=158 Identities=28% Similarity=0.452 Sum_probs=142.1
Q ss_pred cchhHHHhcCCceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhc---CCCccEEEEcCCC-ChhHHHHHh
Q 026552 4 EAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNI---GILLTEVYLDTVG-DAEKYQAKL 79 (237)
Q Consensus 4 ~~~~~~i~~~a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~---~~~~~~V~VD~~g-~~~~y~~~L 79 (237)
|.|++.|.+.+ +|+|.+++|++||++|+ .+|||++++++|.++|++|... |++|+.|+||+++ ++++|+++|
T Consensus 50 e~L~~~I~~~~-~~~v~~~~~~eId~~~~---~~Ni~~a~~~a~~~ai~~l~~~~~~~~~~~~vliD~~~~~~~~~~~~l 125 (230)
T 1eke_A 50 AYLKKLLENLG-YVEKRILEAEEINQLMN---SINLNDIEINAFSKVAKNLIEKLNIRDDEIEIYIDACSTNTKKFEDSF 125 (230)
T ss_dssp HHHHHHHHHHS-EEEEEEECHHHHHHHTT---TSCHHHHHHHHHHHHHHHHHHHTTCCSSEEEEEEECCSSCHHHHHHHH
T ss_pred HHHHHHHHHhC-CEEEEEeCHHHHhcccc---ccCHHHHHHHHHHHHHHHHhhhhccCCCCCEEEECCCCCChHHHHHHH
Confidence 67999999988 99999999999999984 6799999999999999999765 6778999999998 788998888
Q ss_pred hccC--------CCceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCCccCCCCHHHHHHHHhccc
Q 026552 80 SQRF--------PSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKH 151 (237)
Q Consensus 80 ~~~~--------p~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yGsGYPsDp~Tk~~L~~~~~ 151 (237)
...+ |.+++++++|||++||+||||||||||+||++|++| ++.||+||+|||+||.|++||+++++
T Consensus 126 ~~~~~~~~~~~~~~~~~~~~~KgD~~~~~VAAASIlAKv~RD~~m~~l------~~~yp~~gkGY~td~~t~~~l~~~~~ 199 (230)
T 1eke_A 126 KDKIEDIIKERNLNIKIIAEHKADAKYPVVSAASIIAKAERDEIIDYY------KKIYGDIGSGYPSDPKTIKFLEDYFK 199 (230)
T ss_dssp HHHHHHHHTTTTCEEEEEEETTGGGTCHHHHHHHHHHHHHHHHHHHHH------HHHTSCCTTSSTTSHHHHHHHHHHHH
T ss_pred hhhhcccccccCCCCceEEEECcccccHHHHHHHHHHHHHHHHHHHHH------HHHcCCCCCcCCchHHHHHHHHHHHH
Confidence 6544 447889999999999999999999999999999995 56788999999999999999997777
Q ss_pred cccCCCccccccchhhHhhc
Q 026552 152 IIFGFPSLVRFSWGTCTSHF 171 (237)
Q Consensus 152 ~~fG~p~~~R~Sw~t~~~~l 171 (237)
+.+++|++||+||+|+++++
T Consensus 200 ~~G~~~~~hR~Sf~~~~~~l 219 (230)
T 1eke_A 200 KHKKLPDIARTHWKTCKRIL 219 (230)
T ss_dssp HHSSCCTTBCTTSHHHHHHH
T ss_pred HhCCCCHHHcCCCHhHHHHH
Confidence 65449999999999999987
No 3
>1io2_A Ribonuclease HII; endonuclease, hydrolase; 2.00A {Thermococcus kodakarensis} SCOP: c.55.3.1 PDB: 2dfh_A 2dff_A 2dfe_A 1x1p_A
Probab=100.00 E-value=1.9e-42 Score=300.78 Aligned_cols=155 Identities=29% Similarity=0.462 Sum_probs=139.4
Q ss_pred cchhHHHhcCCceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCC-ChhHHHHHhhcc
Q 026552 4 EAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQR 82 (237)
Q Consensus 4 ~~~~~~i~~~a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~~~~~~~V~VD~~g-~~~~y~~~L~~~ 82 (237)
|.|+++|.+.+++|+|.+++|++||+. .+|||++++++|.++|++|. ..|+.|+||+++ ++++|+++|+..
T Consensus 50 e~L~~~I~~~a~~~~v~~~~~~eId~~-----~~Ni~~a~~~a~~~ai~~l~---~~p~~vlvD~~~~~~~~~~~~l~~~ 121 (213)
T 1io2_A 50 EKLFNEILGVLDDYVILELPPDVIGSR-----EGTLNEFEVENFAKALNSLK---VKPDVIYADAADVDEERFARELGER 121 (213)
T ss_dssp HHHHHHHHTTCSEEEEEEECHHHHHTC-----SSCHHHHHHHHHHHHHHHCS---SCCSEEEEECCSSCHHHHHHHHHHT
T ss_pred HHHHHHHHHhCceEEEEEECHHHHcch-----hhHHHHHHHHHHHHHHHhcc---ccCCEEEECCCCCCHHHHHHHHhhc
Confidence 679999999999999999999999996 35999999999999999984 347899999999 788999999876
Q ss_pred CC-CceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCCccCCCCHHHHHHHHhccccccCCCcccc
Q 026552 83 FP-SIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVR 161 (237)
Q Consensus 83 ~p-~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yGsGYPsDp~Tk~~L~~~~~~~fG~p~~~R 161 (237)
++ .+++++++|||++||+||||||||||+||++|++| ++.||+||+||||||.|++||++++++.+++|++||
T Consensus 122 ~~~~~~~~~~~KgD~~~~~VAAASIlAKv~RD~~m~~l------~~~y~~~g~GY~td~~t~~~l~~~~~~~G~~~~~hR 195 (213)
T 1io2_A 122 LNFEAEVVAKHKADDIFPVVSAASILAKVTRDRAVEKL------KEEYGEIGSGYPSDPRTRAFLENYYREHGEFPPIVR 195 (213)
T ss_dssp CSSCCEEEEETTHHHHCHHHHHHHHHHHHHHHHHHHHH------HHHHSCCCSSCTTSHHHHHHHHHHHHHHSSCCTTBC
T ss_pred cCCCCceEEEeCcccccHHHHHHHHHHHHHHHHHHHHH------HHHcCCCCCcCCchHHHHHHHHHHHHHhCCCChhhh
Confidence 64 57899999999999999999999999999999995 566789999999999999999977776544999999
Q ss_pred ccchhhHhhcc
Q 026552 162 FSWGTCTSHFK 172 (237)
Q Consensus 162 ~Sw~t~~~~l~ 172 (237)
+||+|++++++
T Consensus 196 ~Sf~~~~~~l~ 206 (213)
T 1io2_A 196 KGWKTLKKIAE 206 (213)
T ss_dssp TTCHHHHHHHH
T ss_pred CCCHhHHHHHH
Confidence 99999998874
No 4
>1i39_A Ribonuclease HII, RNAse HII; mixed beta sheet, helix-loop-helix, hydrolase; 1.95A {Archaeoglobus fulgidus} SCOP: c.55.3.1 PDB: 1i3a_A 3p83_D*
Probab=100.00 E-value=2.7e-42 Score=302.14 Aligned_cols=152 Identities=29% Similarity=0.420 Sum_probs=138.7
Q ss_pred cchhHHHhcCCceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCC-ChhHHHHHhhcc
Q 026552 4 EAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQR 82 (237)
Q Consensus 4 ~~~~~~i~~~a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~~~~~~~V~VD~~g-~~~~y~~~L~~~ 82 (237)
|+|+++|.+.+. |+|.+++|++||+.| .++|||++++++|.++|++|. ++.|+||+++ ++++|+++|+..
T Consensus 67 e~L~~~I~~~a~-~~v~~~s~~eID~~~---~~~Ni~~a~~~am~~ai~~l~-----~~~vlvD~~~~~~~~~~~~l~~~ 137 (225)
T 1i39_A 67 EELAEEIRKICR-TEVLKVSPENLDERM---AAKTINEILKECYAEIILRLK-----PEIAYVDSPDVIPERLSRELEEI 137 (225)
T ss_dssp HHHHHHHHHHEE-EEEEEECHHHHHHHT---TTSCHHHHHHHHHHHHHHHHC-----CSEEEEEESSSCCHHHHHHHHHH
T ss_pred HHHHHHHHHhCC-EEEEEECHHHHhhhc---ccccHHHHHHHHHHHHHHhCC-----CCEEEECCCCCChHHHHHHhhhc
Confidence 679999999888 999999999999997 478999999999999999973 4789999998 788999888765
Q ss_pred CCCceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCCccCCCCHHHHHHHHhccccccCCCccccc
Q 026552 83 FPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRF 162 (237)
Q Consensus 83 ~p~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yGsGYPsDp~Tk~~L~~~~~~~fG~p~~~R~ 162 (237)
++ +++++++|||++||+||||||||||+||++|++| .+.||+||+|||+||+|++||++++++ +|+|++||+
T Consensus 138 ~~-~~~~~~~KgD~~~~~VAAASIlAKv~RD~~m~~l------~~~yp~~gkGY~tD~~t~~hl~~~i~~-~g~~~~hR~ 209 (225)
T 1i39_A 138 TG-LRVVAEHKADEKYPLVAAASIIAKVEREREIERL------KEKFGDFGSGYASDPRTREVLKEWIAS-GRIPSCVRM 209 (225)
T ss_dssp HC-SEEEEEETGGGTCHHHHHHHHHHHHHHHHHHHHH------HHHHCCCCSSSTTSHHHHHHHHHHHHH-TCCCTTBCT
T ss_pred CC-CceEEEecccccchHHHHHHHHHHHHHHHHHHHH------HHHCCCCCCcCCChHHHHHHHHHhhhh-cCCCHHHcC
Confidence 54 7789999999999999999999999999999995 566789999999999999999987877 899999999
Q ss_pred cchhhHhhcc
Q 026552 163 SWGTCTSHFK 172 (237)
Q Consensus 163 Sw~t~~~~l~ 172 (237)
||+|++++++
T Consensus 210 Sf~~~~~~l~ 219 (225)
T 1i39_A 210 RWKTVSNLRQ 219 (225)
T ss_dssp TSHHHHHHHC
T ss_pred CCHHHHHHHh
Confidence 9999999886
No 5
>1uax_A Ribonuclease HII, ribonuclease H2; RNA*DNA hybrid ribonucleotidohydrolase, hydrolase; 2.00A {Pyrococcus horikoshii} SCOP: c.55.3.1
Probab=100.00 E-value=1.5e-41 Score=296.50 Aligned_cols=155 Identities=29% Similarity=0.520 Sum_probs=138.9
Q ss_pred cchhHHHhcCCceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCC-ChhHHHHHhhcc
Q 026552 4 EAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQR 82 (237)
Q Consensus 4 ~~~~~~i~~~a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~~~~~~~V~VD~~g-~~~~y~~~L~~~ 82 (237)
|+|+++|.+.+++|+|.+++|++||+. .+|||++++++|.++|++|. ..++.|+||+++ ++++|+++|+..
T Consensus 50 e~L~~~I~~~a~~~~v~~~~~~eId~~-----~~Ni~~a~~~am~~ai~~l~---~~~~~vlvD~~~~~~~~~~~~l~~~ 121 (220)
T 1uax_A 50 EKLFSKLIDILDDYYVLLVTPKEIDER-----HHSMNELEAEKFVVALNSLR---IKPQKIYVDSADVDPKRFASLIKAG 121 (220)
T ss_dssp HHHHHHHHHHSSEEEEEEECHHHHHTC-----SSCHHHHHHHHHHHHHHTCS---SCCSEEEEECTTSCHHHHHHHHHHH
T ss_pred HHHHHHHHHhCceEEEEEECHHHHcCh-----hhHHHHHHHHHHHHHHHhcC---CCCCEEEECCCCCChHHHHHHhhhc
Confidence 679999999999999999999999996 25999999999999999873 356889999998 788999998776
Q ss_pred CC-CceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCCccCCCCHHHHHHHHhccccccCCCcccc
Q 026552 83 FP-SIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVR 161 (237)
Q Consensus 83 ~p-~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yGsGYPsDp~Tk~~L~~~~~~~fG~p~~~R 161 (237)
++ .+++++++|||++|++||||||||||+||++|.+| ++.||+||+|||+||.|++||++++++.+++|++||
T Consensus 122 ~~~~~~~~~~~KgD~~~~~VAAASIlAKv~RD~~m~~l------~~~yp~~gkGY~td~~t~~~l~~~~~~~G~~~~~hR 195 (220)
T 1uax_A 122 LKYEATVIAEHKADAKYEIVSAASIIAKVTRDREIEKL------KQKYGEFGSGYPSDPRTKEWLEEYYKQYGDFPPIVR 195 (220)
T ss_dssp CSSCCEEEEETTHHHHCHHHHHHHHHHHHHHHHHHHHH------HHHHCCCTTSCTTCHHHHHHHHHHHHHHSSCCTTBC
T ss_pred cCCCCceEEEeccchhhHHHHHHHHHHHHHHHHHHHHH------HHHcCCCCCcCCchHHHHHHHHHHHHHhCCCChhhc
Confidence 64 57889999999999999999999999999999994 567789999999999999999976776544889999
Q ss_pred ccchhhHhhcc
Q 026552 162 FSWGTCTSHFK 172 (237)
Q Consensus 162 ~Sw~t~~~~l~ 172 (237)
+||+|++++++
T Consensus 196 ~Sf~~~~~~l~ 206 (220)
T 1uax_A 196 RTWETARKIEE 206 (220)
T ss_dssp TTSHHHHHHHH
T ss_pred CCChhHHHHHH
Confidence 99999999885
No 6
>2etj_A Ribonuclease HII, RNAse HII; TM0915, ribonuclease HII (EC 3.1.26.4) (RNAse HII), structur genomics, joint center for structural genomics; 1.74A {Thermotoga maritima} SCOP: c.55.3.1 PDB: 3o3g_A* 3o3f_A* 3o3h_A*
Probab=100.00 E-value=1.6e-36 Score=268.60 Aligned_cols=148 Identities=22% Similarity=0.235 Sum_probs=129.6
Q ss_pred cchhHHHhcCCceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChhHHHHHhhccC
Q 026552 4 EAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRF 83 (237)
Q Consensus 4 ~~~~~~i~~~a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~~~~~~~V~VD~~g~~~~y~~~L~~~~ 83 (237)
|.|++.|.+.+++ +|.+++|++||++ |||+++..||.++|..| +++|+.||||+++.+ +
T Consensus 67 e~L~~~I~~~a~~-~v~~~sp~eID~~-------NI~~at~~Am~rAi~~L---~~~p~~vlVDg~~~~------l---- 125 (250)
T 2etj_A 67 ERLLDEIMEKAAV-GIGIASPEEIDLY-------NIFNATKLAMNRALENL---SVKPSFVLVDGKGIE------L---- 125 (250)
T ss_dssp HHHHHHHHHHEEE-EEEEECHHHHHHH-------CHHHHHHHHHHHHHHHS---SSCCSEEEEESSSCC------C----
T ss_pred HHHHHHHHHhhCC-eEEEECHHHHCHH-------hHHHHHHHHHHHHHHhc---CCCCCEEEECCCCCC------C----
Confidence 6799999999888 9999999999995 99999999999999886 467899999998754 1
Q ss_pred CCceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCC----ccCCCCHHHHHHHHhccccccCCCcc
Q 026552 84 PSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFG----SGYPGDPETKAWLTDHKHIIFGFPSL 159 (237)
Q Consensus 84 p~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yG----sGYPsDp~Tk~~L~~~~~~~fG~p~~ 159 (237)
++.+++++|||++||+||||||||||+||++|++| .+.||+|| ||||+ +.|++||++ ||++|+
T Consensus 126 -~~~~~~ivKgD~~~~sVAAASIlAKV~RD~~M~~l------~~~yp~Ygf~~~kGY~T-~~h~~al~~-----~G~~~~ 192 (250)
T 2etj_A 126 -SVPGTCLVKGDQKSKLIGAASIVAKVFRDRLMSEF------HRMYPQFSFHKHKGYAT-KEHLNEIRK-----NGVLPI 192 (250)
T ss_dssp -SSCEEEETTHHHHCHHHHHHHHHHHHHHHHHHHHH------HHHCTTSCHHHHTTCCC-HHHHHHHHH-----HCCCTT
T ss_pred -CCceEEEecccccchhHHHHHHHHHHHHHHHHHHH------HHHCcccCCcCCCcCCc-HHHHHHHHH-----cCcCCe
Confidence 13456779999999999999999999999999994 67789998 99998 678888886 599999
Q ss_pred ccccchhhHhhccccceeeeccCccc
Q 026552 160 VRFSWGTCTSHFKDIVEVLWESDEMD 185 (237)
Q Consensus 160 ~R~Sw~t~~~~l~~~~~v~w~~~~~~ 185 (237)
||+||+|+++++...+.+.|.++++.
T Consensus 193 HR~Sf~~v~~~l~~~~~~~w~~~~~~ 218 (250)
T 2etj_A 193 HRLSFEPVLELLTDDLLREFFEKGLI 218 (250)
T ss_dssp BCTTSHHHHTTCCHHHHHHHHHTTSS
T ss_pred EECCcHHHHHHHhhccccccCCCccc
Confidence 99999999999965588999876543
No 7
>2d0b_A RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hydrolase; 2.10A {Geobacillus stearothermophilus} PDB: 2d0a_A 2d0c_A 3asm_A
Probab=99.95 E-value=6.8e-29 Score=226.21 Aligned_cols=155 Identities=17% Similarity=0.207 Sum_probs=122.0
Q ss_pred cchhHHHhcCCceEEEEEEChhhHhhhcc-cCChhhHHHHHHHHHH-HHHHHHHhcCCCccEEEEcCCCChhHHHHHhhc
Q 026552 4 EAALPKWASNPFGWAVDIIDPRELSAKML-NKNKINLNEISHDSAI-GLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQ 81 (237)
Q Consensus 4 ~~~~~~i~~~a~~~~v~~isp~eId~~ml-~~~~~nLN~ls~~a~~-~~I~~ll~~~~~~~~V~VD~~g~~~~y~~~L~~ 81 (237)
|+|++.|.+.+ +|+|.+++|++||+++- +....||+.+++..++ ++++.| . ++.|+.|+||+++.++.|+++|+.
T Consensus 140 e~L~~~I~~~~-~~~v~~~s~~eId~l~a~~i~~~~l~~~~~~~ai~~~i~~L-~-~~~p~~vliD~~~~~~~~~~~L~~ 216 (310)
T 2d0b_A 140 KRIAPAIMETV-PHAVTVLDNPQYNRWQRSGMPQTKMKALLHNRTLVKLVDAI-A-PAEPEAIIIDEFLKRDSYFRYLSD 216 (310)
T ss_dssp HHHHHHHHHHS-CEEEEEECHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHH-T-TCCCSEEEEECSSCHHHHHHHTTT
T ss_pred HHHHHHHHHhc-CeEEEEECHHHHhHHHhccccHHHHHHHHHHHHHHHHHHhc-c-cCCCCEEEECCCCChHHHHHHHhh
Confidence 67899999875 89999999999999731 1123356666664443 556665 2 578999999999999999999964
Q ss_pred --cCCCceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCC------CccCCCCHHHHHHHHhccccc
Q 026552 82 --RFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNF------GSGYPGDPETKAWLTDHKHII 153 (237)
Q Consensus 82 --~~p~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~y------GsGYPsDp~Tk~~L~~~~~~~ 153 (237)
.++.+++++++|||++||+|||||||| ||++|+.| +..+|+| |+|||+|+.|++||++++..
T Consensus 217 ~~~~~~~~~~~~~KgD~~~~~VAAASIlA---RD~~m~~l------~~~~p~Yg~~~~kGygt~~h~~a~~~L~~~G~~- 286 (310)
T 2d0b_A 217 EDRIIRERVHCLPKAESVHVSVAAASIIA---RYVFLEEM------EQLSRAVGLLLPKGAGAIVDEAAARIIRARGEE- 286 (310)
T ss_dssp CSSCCCTTEEEETTGGGTCHHHHHHHHHH---HHHHHHHH------HHHHHHHTSCCCSSSSHHHHHHHHHHHHHHCGG-
T ss_pred ccccCCCceEEEeccccccHHHHHHHHHH---HHHHHHHH------HHhCcccCCCCCcCCCCHHHHHHHHHHHHhCCC-
Confidence 456678999999999999999999999 99999995 3344433 46667888888899998643
Q ss_pred cCCCccccccchhhHhhcc
Q 026552 154 FGFPSLVRFSWGTCTSHFK 172 (237)
Q Consensus 154 fG~p~~~R~Sw~t~~~~l~ 172 (237)
++|+++|+||+|++++++
T Consensus 287 -~l~~~~R~sf~t~~~~~~ 304 (310)
T 2d0b_A 287 -MLETCAKLHFANTKKALA 304 (310)
T ss_dssp -GHHHHBCTTSTHHHHHHH
T ss_pred -ccchhheecCHhHHHHHH
Confidence 567788899999999875
No 8
>3vn5_A RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {Aquifex aeolicus}
Probab=99.93 E-value=4.2e-26 Score=203.07 Aligned_cols=137 Identities=18% Similarity=0.123 Sum_probs=107.9
Q ss_pred cchhHHHhcCCceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChhHHHHHhhccC
Q 026552 4 EAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRF 83 (237)
Q Consensus 4 ~~~~~~i~~~a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~~~~~~~V~VD~~g~~~~y~~~L~~~~ 83 (237)
|+|+++|.+. ++|+|.+++|++||++|. ..+|||.++..+|.++|..|... ..|+.|+||+++.+. .|
T Consensus 120 e~L~~~I~~~-~~~~v~~~s~~eID~~~~--~~~Nin~~~~~am~~Ai~~L~~~-~~~~~vlvD~~~~~~----~l---- 187 (257)
T 3vn5_A 120 ERLYLALKPL-VKAYCYEIKPEEYNKLYR--KFRNLNKMMTHFYKLLIERVKEE-CGVSEVVVDKYQPSN----PF---- 187 (257)
T ss_dssp HHHHHHHGGG-SEEEEEEECHHHHHHHHH--HHSSHHHHHHHHHHHHHHHHHHH-HTCSCEEECCCSSSC----CS----
T ss_pred HHHHHHHHHh-cCEEEEEECHHHHhhhcc--ccccHHHHHHHHHHHHHHHhhcc-CCCCEEEECCCCCcc----cC----
Confidence 6899999988 899999999999999862 45699999999999999998543 226789999987432 12
Q ss_pred CCceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCCccCCCCHHHHHHHHhccccccCCCcccccc
Q 026552 84 PSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFS 163 (237)
Q Consensus 84 p~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yGsGYPsDp~Tk~~L~~~~~~~fG~p~~~R~S 163 (237)
+ +++++++|||+ ||+|||||||| ||++|+.++ ++...++.+.++||| |+.|++... .+|++++||.|
T Consensus 188 ~-~~~~~~~KgD~-~~sVAAASIlA---Rd~~m~~l~--~~~p~Ygf~~~kGYg----T~~H~~Al~--~~G~~~~~rl~ 254 (257)
T 3vn5_A 188 G-EDVIFETEAER-NLAVAVASIFA---RYKFLQSLK--EVERELGIKIPKGTS----KEVKELAKS--LKNPERFIKLN 254 (257)
T ss_dssp C-TTEEECBTTBC-CHHHHHHHHHH---HHHHHHHHH--HHHHHHCSCCCCSCC----HHHHHHHHT--CSSGGGTBCGG
T ss_pred C-CCeEEEEccch-hHHHHHHHHHH---HHHHHHHHH--HhCccCCCcCCCCCC----cHHHHHHHH--HHCCCHHHHhc
Confidence 1 46888999999 99999999999 555555521 123333345669999 999998843 47999999999
Q ss_pred ch
Q 026552 164 WG 165 (237)
Q Consensus 164 w~ 165 (237)
|-
T Consensus 255 f~ 256 (257)
T 3vn5_A 255 FN 256 (257)
T ss_dssp GC
T ss_pred cC
Confidence 94
No 9
>1d3y_A DNA topoisomerase VI A subunit; DNA binding protein, SPO11 homolog; HET: DNA; 2.00A {Methanocaldococcus jannaschii} SCOP: e.12.1.1
Probab=52.61 E-value=4.5 Score=35.93 Aligned_cols=17 Identities=18% Similarity=0.270 Sum_probs=15.0
Q ss_pred CCccCCCCHHHHHHHHhc
Q 026552 132 FGSGYPGDPETKAWLTDH 149 (237)
Q Consensus 132 yGsGYPsDp~Tk~~L~~~ 149 (237)
+|+||| |..|+.+|+..
T Consensus 152 t~kGyP-d~aTR~fl~~L 168 (301)
T 1d3y_A 152 SLKGVP-ARATRRFIKRL 168 (301)
T ss_dssp ECCSSC-CHHHHHHHHHH
T ss_pred ECCCCC-CHHHHHHHHHH
Confidence 589999 88899999985
No 10
>2q2e_A Type II DNA topoisomerase VI subunit A; DNA-binding, SPO11, ATPase; 4.00A {Methanosarcina mazei}
Probab=42.29 E-value=11 Score=34.30 Aligned_cols=17 Identities=18% Similarity=0.221 Sum_probs=14.6
Q ss_pred CCccCCCCHHHHHHHHhc
Q 026552 132 FGSGYPGDPETKAWLTDH 149 (237)
Q Consensus 132 yGsGYPsDp~Tk~~L~~~ 149 (237)
+|+||| |..|+.||+..
T Consensus 225 t~kG~P-d~atR~~L~~L 241 (369)
T 2q2e_A 225 HLKGQP-ARSTRRIIKRM 241 (369)
T ss_dssp ECCSSC-CHHHHHHHHHH
T ss_pred ECCCCC-CHHHHHHHHHH
Confidence 589999 77799999974
No 11
>1jr5_A 10 kDa anti-sigma factor; all-alpha, helix-turn-helix, coiled-coil, transcription; NMR {Enterobacteria phage T4} SCOP: a.150.1.1 PDB: 1tkv_A 1tl6_A 1tlh_A
Probab=38.47 E-value=9.9 Score=28.24 Aligned_cols=20 Identities=25% Similarity=0.458 Sum_probs=18.5
Q ss_pred hhHHHHHHHHHHHHHHHHhh
Q 026552 99 PVVSGASIVAKVTRDRTLRG 118 (237)
Q Consensus 99 p~VsAASIvAKV~RD~~m~~ 118 (237)
-+||-|||+-|.-||.+++.
T Consensus 10 eIia~aSiLIKfg~ddIle~ 29 (90)
T 1jr5_A 10 EIITVASILIKFSREDIVEN 29 (90)
T ss_dssp HHHHHHHHHHHTTCHHHHTC
T ss_pred HHHHHHHHHHHcChHHHHHh
Confidence 57999999999999999987
No 12
>2kih_A Matrix protein 2; S31N, proton channel, cell membrane, disulfide bond, hydrogen ION transport, ION transport, ionic channel, membrane; NMR {Influenza a virus} PDB: 2rlf_A* 2l0j_A 2kwx_A
Probab=37.41 E-value=13 Score=23.56 Aligned_cols=15 Identities=40% Similarity=0.554 Sum_probs=10.9
Q ss_pred CCccchhHHHHHHHH
Q 026552 94 ADSLYPVVSGASIVA 108 (237)
Q Consensus 94 ADs~~p~VsAASIvA 108 (237)
.||.-|.|.||||+-
T Consensus 3 ~dssdplv~aa~iiG 17 (43)
T 2kih_A 3 NDSSDPLVVAANIIG 17 (43)
T ss_dssp ---CCHHHHHHHHHH
T ss_pred CCCCCcHHHHHHHHH
Confidence 366779999999997
No 13
>2zbk_A Type II DNA topoisomerase VI subunit A; DNA binding protein, decatenation, ATPase, drug design, DNA-binding, magnesium, metal-binding; HET: RDC; 3.56A {Sulfolobus shibatae}
Probab=34.29 E-value=12 Score=34.46 Aligned_cols=18 Identities=22% Similarity=0.445 Sum_probs=15.2
Q ss_pred CCccCCCCHHHHHHHHhcc
Q 026552 132 FGSGYPGDPETKAWLTDHK 150 (237)
Q Consensus 132 yGsGYPsDp~Tk~~L~~~~ 150 (237)
+|+||| |..|+.+|+...
T Consensus 232 t~kG~P-d~aTR~fL~~L~ 249 (389)
T 2zbk_A 232 TSAGQP-DRATRRFVRRLN 249 (389)
T ss_dssp ECCSSC-CTTHHHHHHHHH
T ss_pred ECCCCC-CHHHHHHHHHHH
Confidence 589999 777999999853
No 14
>2ljb_A M2 protein, BM2 protein chimera; M2 channel, transport protein; NMR {Influenza a virus} PDB: 2ljc_A*
Probab=30.45 E-value=21 Score=21.82 Aligned_cols=15 Identities=47% Similarity=0.583 Sum_probs=10.8
Q ss_pred CCccchhHHHHHHHH
Q 026552 94 ADSLYPVVSGASIVA 108 (237)
Q Consensus 94 ADs~~p~VsAASIvA 108 (237)
.||--|.|.||||+-
T Consensus 3 ~dSsDplviaA~Iig 17 (35)
T 2ljb_A 3 NDSSDPLVVAASIIG 17 (35)
T ss_dssp ---CCTHHHHHHHHH
T ss_pred CCCCCcHHHHHHHHH
Confidence 366679999999997
No 15
>3lbw_A M2 protein; proton channel, M2TM, HOST CEL membrane, hydrogen ION transport, ionic channel, transmembr virion, transport protein; HET: XYL; 1.65A {Influenza a virus}
Probab=28.39 E-value=25 Score=19.56 Aligned_cols=10 Identities=60% Similarity=0.880 Sum_probs=8.5
Q ss_pred hhHHHHHHHH
Q 026552 99 PVVSGASIVA 108 (237)
Q Consensus 99 p~VsAASIvA 108 (237)
|.|.||||+.
T Consensus 1 plv~aa~iig 10 (23)
T 3lbw_A 1 PLVVAASIIA 10 (26)
T ss_dssp CHHHHHHHHH
T ss_pred CeehhHHHHH
Confidence 5788999987
No 16
>3bkd_A Transmembrane domain of matrix protein M2; proton channel, M2TM, influenza A virus M2 protein, viral PR membrane protein; HET: MSE BOG; 2.05A {Synthetic} SCOP: j.35.1.1 PDB: 1mp6_A 1nyj_A 2kqt_A* 2kad_A* 3c9j_A*
Probab=26.54 E-value=26 Score=20.00 Aligned_cols=10 Identities=50% Similarity=0.767 Sum_probs=9.0
Q ss_pred hhHHHHHHHH
Q 026552 99 PVVSGASIVA 108 (237)
Q Consensus 99 p~VsAASIvA 108 (237)
|.|.||||+-
T Consensus 4 plv~aa~iiG 13 (26)
T 3bkd_A 4 PLVVAASIMG 13 (26)
T ss_dssp HHHHHHHHHH
T ss_pred cchhHHHHHH
Confidence 8899999987
Done!