Query 030402
Match_columns 178
No_of_seqs 107 out of 1045
Neff 6.9
Searched_HMMs 29240
Date Mon Mar 25 21:26:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030402.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/030402hhsearch_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 1.7E-50 6E-55 341.4 15.8 172 6-177 19-192 (301)
2 1eke_A Ribonuclease HII; endon 100.0 6.9E-50 2.4E-54 327.8 14.1 158 15-177 2-171 (230)
3 1io2_A Ribonuclease HII; endon 100.0 5.9E-49 2E-53 318.9 14.1 154 15-177 2-157 (213)
4 1i39_A Ribonuclease HII, RNAse 100.0 7.2E-49 2.5E-53 320.5 13.9 152 13-177 19-171 (225)
5 1uax_A Ribonuclease HII, ribon 100.0 1.2E-48 4E-53 318.5 12.7 154 15-177 2-157 (220)
6 2etj_A Ribonuclease HII, RNAse 100.0 3.6E-44 1.2E-48 295.2 10.8 136 13-177 23-158 (250)
7 2d0b_A RNAse HIII, ribonucleas 100.0 5E-43 1.7E-47 298.0 16.2 157 13-176 90-250 (310)
8 3vn5_A RNAse HIII, ribonucleas 100.0 3.8E-42 1.3E-46 285.4 13.1 145 18-177 75-219 (257)
9 2f8e_A VPG protein; RNA-depend 75.0 0.75 2.6E-05 24.0 0.4 7 25-31 1-7 (26)
10 2kih_A Matrix protein 2; S31N, 34.5 17 0.00057 21.1 1.3 15 155-169 4-18 (43)
11 2ljb_A M2 protein, BM2 protein 28.0 24 0.00083 19.6 1.2 15 155-169 4-18 (35)
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=1.7e-50 Score=341.38 Aligned_cols=172 Identities=51% Similarity=0.849 Sum_probs=154.5
Q ss_pred CCCCCCC-CCceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhc-CceeEEEEEEc
Q 030402 6 ALPKWAS-NPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVN-DSVGWAVDIID 83 (178)
Q Consensus 6 ~~~~~~~-~~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~-~~~~~~i~~i~ 83 (178)
..|.|-. .++++|||||||||+|||||+|||+++.+..+.|..+|++|||+||+++|++||++|++. .++.|.+.+++
T Consensus 19 ~~p~~~~~~~~v~GvDEaGRGplaGPvV~aavil~~~~~~~l~~~gl~DSKkLs~~kRe~L~~~I~~~~~a~~~~v~~~s 98 (301)
T 3kio_A 19 PVPAVCLKEPCVLGVDEAGRGPVLGPMVYAICYCPLSRLADLEALKVADSKTLTENERERLFAKMEEDGDFVGWALDVLS 98 (301)
T ss_dssp CCCTHHHHSCEEEEEEEECSSCSBSCEEEEEEEEEGGGGGGCCCCCSCC--CCCHHHHHHHHHHHHHTTTTCEEEEEEEC
T ss_pred CCchhhcCCceEEeeeCCCCCCccccceEEEEEEchhhhhhHhhcCCCccccCCHHHHHHHHHHHHhhcccceEEEEecC
Confidence 3566655 478999999999999999999999999987777888999999999999999999999873 36889999999
Q ss_pred hhchhHHhhhhccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHH
Q 030402 84 PRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSG 163 (178)
Q Consensus 84 ~~~id~~~~~~~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAA 163 (178)
|++||+.|+.....|||.++|.+++.++++++..+..++.++||+++.+++|+++|++.+|++++++++|||++|++|||
T Consensus 99 ~~eId~~m~~~~~~nlN~l~~~~~~~~i~~~~~l~~~p~~vlVD~~~~p~~y~~~L~~~~p~~~~~~~~KgDs~~~sVAA 178 (301)
T 3kio_A 99 PNLISTSMLGRVKYNLNSLSHDTAAGLIQYALDQNVNVTQVFVDTVGMPETYQARLQQHFPGIEVTVKAKADSLFPVVSA 178 (301)
T ss_dssp HHHHHHHHTSSSCCCHHHHHHHHHHHHHHHHHHTTCCEEEEEEECSSCCHHHHHHHHHSSTTSEEEEETTGGGTSHHHHH
T ss_pred HHHHHHHhhhcccccHHHHHHHHHHHHHHHHHhcCCCCCEEEECCCCChHHHHHHHhhcCCCCceEEEeccchhhhHHHH
Confidence 99999988766678999999988888889888777888999999999999999999888888899999999999999999
Q ss_pred HHHHHHHHhhcccc
Q 030402 164 ASIVAKRSNFERMD 177 (178)
Q Consensus 164 ASIiAKv~RD~~M~ 177 (178)
|||||||+||++|.
T Consensus 179 ASIlAKV~RD~~M~ 192 (301)
T 3kio_A 179 ASIFAKVARDKAVK 192 (301)
T ss_dssp HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999999985
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=6.9e-50 Score=327.75 Aligned_cols=158 Identities=35% Similarity=0.491 Sum_probs=138.4
Q ss_pred ceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhh
Q 030402 15 CIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNK 94 (178)
Q Consensus 15 ~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~ 94 (178)
+++|||||||||+|||||+|||+++.+..+.|..+|++|||+||+++|++||++|++. + .|.+.+++|++||+.|.
T Consensus 2 ~i~GvDEaGRGplaGPvv~aavil~~~~~~~l~~~gv~DSK~Ls~~~Re~L~~~I~~~-~-~~~v~~~~~~eId~~~~-- 77 (230)
T 1eke_A 2 IIIGIDEAGRGPVLGPMVVCAFAIEKEREEELKKLGVKDSKELTKNKRAYLKKLLENL-G-YVEKRILEAEEINQLMN-- 77 (230)
T ss_dssp EEEEEEEECSSCSBSCEEEEEEEEEGGGHHHHHTTTCC---CCCHHHHHHHHHHHHHH-S-EEEEEEECHHHHHHHTT--
T ss_pred CEecccCCCCCCchhhheEEEEEEchhhhhhhhhcCCCCcccCCHHHHHHHHHHHHHh-C-CEEEEEeCHHHHhcccc--
Confidence 4799999999999999999999999987777888999999999999999999999985 5 89999999999999874
Q ss_pred ccchHHHHHHHHHHHHHHHHHhc---CCCccEEEEcCCC-ChHHHHHHhhccC--------CCcceEEeecCcchhhHHH
Q 030402 95 NKINLNEISHDSAIGLITRVLNI---GILLTEVYLDTVG-DAEKYQAKLSQRF--------PSIKFVVSKKADSLYPVVS 162 (178)
Q Consensus 95 ~~~Nin~~~~~~~~~~i~~~~~~---~~~~~~i~iD~~~-~~~~~~~~L~~~~--------~~~~~~~~~KgD~~~~sVA 162 (178)
.+|||++++.+|.++++++... +..++.++||+++ ++++|.++|+..+ +..++++++|||++|++||
T Consensus 78 -~~Ni~~a~~~a~~~ai~~l~~~~~~~~~~~~vliD~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~KgD~~~~~VA 156 (230)
T 1eke_A 78 -SINLNDIEINAFSKVAKNLIEKLNIRDDEIEIYIDACSTNTKKFEDSFKDKIEDIIKERNLNIKIIAEHKADAKYPVVS 156 (230)
T ss_dssp -TSCHHHHHHHHHHHHHHHHHHHTTCCSSEEEEEEECCSSCHHHHHHHHHHHHHHHHTTTTCEEEEEEETTGGGTCHHHH
T ss_pred -ccCHHHHHHHHHHHHHHHHhhhhccCCCCCEEEECCCCCChHHHHHHHhhhhcccccccCCCCceEEEECcccccHHHH
Confidence 5799999999999999988764 4557899999998 6788887776533 3467889999999999999
Q ss_pred HHHHHHHHHhhcccc
Q 030402 163 GASIVAKRSNFERMD 177 (178)
Q Consensus 163 AASIiAKv~RD~~M~ 177 (178)
||||||||+||++|.
T Consensus 157 AASIlAKv~RD~~m~ 171 (230)
T 1eke_A 157 AASIIAKAERDEIID 171 (230)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999999995
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=5.9e-49 Score=318.90 Aligned_cols=154 Identities=31% Similarity=0.500 Sum_probs=138.1
Q ss_pred ceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhh
Q 030402 15 CIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNK 94 (178)
Q Consensus 15 ~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~ 94 (178)
.++|||||||||+|||||+|||+++.+....|..+|++|||+||+++|++||++|++. +..|.+.+++|++||+.
T Consensus 2 ~i~GvDEaGRGplaGPvv~aavil~~~~~~~l~~~gv~DSK~Ls~~~Re~L~~~I~~~-a~~~~v~~~~~~eId~~---- 76 (213)
T 1io2_A 2 KIAGIDEAGRGPVIGPMVIAAVVVDENSLPKLEELKVRDSKKLTPKRREKLFNEILGV-LDDYVILELPPDVIGSR---- 76 (213)
T ss_dssp EEEEEEEECSSCSBSCEEEEEEEEEGGGHHHHHHTTGGGCTTCCHHHHHHHHHHHHTT-CSEEEEEEECHHHHHTC----
T ss_pred CEeccCCCCCCCccchheEEEEEEChhhhhhhhhcCCCCcccCCHHHHHHHHHHHHHh-CceEEEEEECHHHHcch----
Confidence 3799999999999999999999999987777888999999999999999999999984 67899999999999863
Q ss_pred ccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCC-ChHHHHHHhhccCC-CcceEEeecCcchhhHHHHHHHHHHHHh
Q 030402 95 NKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQRFP-SIKFVVSKKADSLYPVVSGASIVAKRSN 172 (178)
Q Consensus 95 ~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~-~~~~~~~~L~~~~~-~~~~~~~~KgD~~~~sVAAASIiAKv~R 172 (178)
..|||++++.+|.++++++. ..++.++||+++ ++++|.++|+..++ .+++++++|||++|++||||||||||+|
T Consensus 77 -~~Ni~~a~~~a~~~ai~~l~---~~p~~vlvD~~~~~~~~~~~~l~~~~~~~~~~~~~~KgD~~~~~VAAASIlAKv~R 152 (213)
T 1io2_A 77 -EGTLNEFEVENFAKALNSLK---VKPDVIYADAADVDEERFARELGERLNFEAEVVAKHKADDIFPVVSAASILAKVTR 152 (213)
T ss_dssp -SSCHHHHHHHHHHHHHHHCS---SCCSEEEEECCSSCHHHHHHHHHHTCSSCCEEEEETTHHHHCHHHHHHHHHHHHHH
T ss_pred -hhHHHHHHHHHHHHHHHhcc---ccCCEEEECCCCCCHHHHHHHHhhccCCCCceEEEeCcccccHHHHHHHHHHHHHH
Confidence 25999999999988888764 346899999998 78889999987653 5778999999999999999999999999
Q ss_pred hcccc
Q 030402 173 FERMD 177 (178)
Q Consensus 173 D~~M~ 177 (178)
|++|.
T Consensus 153 D~~m~ 157 (213)
T 1io2_A 153 DRAVE 157 (213)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 99995
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=7.2e-49 Score=320.47 Aligned_cols=152 Identities=32% Similarity=0.466 Sum_probs=134.5
Q ss_pred CCceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhh
Q 030402 13 NPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKML 92 (178)
Q Consensus 13 ~~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~ 92 (178)
..+++|||||||||+|||||+|||+++++. .+..+|++|||+||+++|++||++|++. +. |.+.+++|++||+.|
T Consensus 19 ~~~i~GvDEaGRGplaGPvV~aavil~~~~--~l~~~gv~DSKkLs~~kRe~L~~~I~~~-a~-~~v~~~s~~eID~~~- 93 (225)
T 1i39_A 19 SHMKAGIDEAGKGCVIGPLVVAGVACSDED--RLRKLGVKDSKKLSQGRREELAEEIRKI-CR-TEVLKVSPENLDERM- 93 (225)
T ss_dssp --CEEEEEEECTTCSBSCEEEEEEEESCHH--HHHHTTCTTCTTCCHHHHHHHHHHHHHH-EE-EEEEEECHHHHHHHT-
T ss_pred CeEEEEecCCCCcCchhhhEEEEEEEcchh--hcccCCCCcCCcCCHHHHHHHHHHHHHh-CC-EEEEEECHHHHhhhc-
Confidence 467999999999999999999999999864 4567899999999999999999999984 55 999999999999986
Q ss_pred hhccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCC-ChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHH
Q 030402 93 NKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRS 171 (178)
Q Consensus 93 ~~~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~-~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~ 171 (178)
...|||++++.+|.++++++. ++.++||+++ ++++|.++|+..++ +++++++|||++|++||||||||||+
T Consensus 94 --~~~Ni~~a~~~am~~ai~~l~-----~~~vlvD~~~~~~~~~~~~l~~~~~-~~~~~~~KgD~~~~~VAAASIlAKv~ 165 (225)
T 1i39_A 94 --AAKTINEILKECYAEIILRLK-----PEIAYVDSPDVIPERLSRELEEITG-LRVVAEHKADEKYPLVAAASIIAKVE 165 (225)
T ss_dssp --TTSCHHHHHHHHHHHHHHHHC-----CSEEEEEESSSCCHHHHHHHHHHHC-SEEEEEETGGGTCHHHHHHHHHHHHH
T ss_pred --ccccHHHHHHHHHHHHHHhCC-----CCEEEECCCCCChHHHHHHhhhcCC-CceEEEecccccchHHHHHHHHHHHH
Confidence 357999999999999888773 4789999998 67889888876444 67889999999999999999999999
Q ss_pred hhcccc
Q 030402 172 NFERMD 177 (178)
Q Consensus 172 RD~~M~ 177 (178)
||++|.
T Consensus 166 RD~~m~ 171 (225)
T 1i39_A 166 REREIE 171 (225)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 999995
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=1.2e-48 Score=318.49 Aligned_cols=154 Identities=28% Similarity=0.492 Sum_probs=136.9
Q ss_pred ceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhh
Q 030402 15 CIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNK 94 (178)
Q Consensus 15 ~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~ 94 (178)
.++|||||||||+|||||+|||+++++..+.|..+|++|||+||+++|++||++|++. +..|.+.+++|++||+.
T Consensus 2 ~i~GvDEaGRGplaGPvv~aavil~~~~~~~l~~~gl~DSK~Ls~~~Re~L~~~I~~~-a~~~~v~~~~~~eId~~---- 76 (220)
T 1uax_A 2 KVAGVDEAGRGPVIGPLVIGVAVIDEKNIERLRDIGVKDSKQLTPGQREKLFSKLIDI-LDDYYVLLVTPKEIDER---- 76 (220)
T ss_dssp EEEEEEEECSSCSBSCEEEEEEEEEGGGHHHHHHHTGGGSTTSCHHHHHHHHHHHHHH-SSEEEEEEECHHHHHTC----
T ss_pred cEEeecCCCCCCchhhhEEEEEEEchhhhhhhhhcCCCCcccCCHHHHHHHHHHHHHh-CceEEEEEECHHHHcCh----
Confidence 3799999999999999999999999987777788899999999999999999999985 67899999999999863
Q ss_pred ccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCC-ChHHHHHHhhccCC-CcceEEeecCcchhhHHHHHHHHHHHHh
Q 030402 95 NKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQRFP-SIKFVVSKKADSLYPVVSGASIVAKRSN 172 (178)
Q Consensus 95 ~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~-~~~~~~~~L~~~~~-~~~~~~~~KgD~~~~sVAAASIiAKv~R 172 (178)
..|||++++.+|.++++++. ..++.++||+++ +++.|.++|+..++ ++++++++|||++|++||||||||||+|
T Consensus 77 -~~Ni~~a~~~am~~ai~~l~---~~~~~vlvD~~~~~~~~~~~~l~~~~~~~~~~~~~~KgD~~~~~VAAASIlAKv~R 152 (220)
T 1uax_A 77 -HHSMNELEAEKFVVALNSLR---IKPQKIYVDSADVDPKRFASLIKAGLKYEATVIAEHKADAKYEIVSAASIIAKVTR 152 (220)
T ss_dssp -SSCHHHHHHHHHHHHHHTCS---SCCSEEEEECTTSCHHHHHHHHHHHCSSCCEEEEETTHHHHCHHHHHHHHHHHHHH
T ss_pred -hhHHHHHHHHHHHHHHHhcC---CCCCEEEECCCCCChHHHHHHhhhccCCCCceEEEeccchhhHHHHHHHHHHHHHH
Confidence 25999999999988777653 356789999998 67889888876553 4678899999999999999999999999
Q ss_pred hcccc
Q 030402 173 FERMD 177 (178)
Q Consensus 173 D~~M~ 177 (178)
|++|.
T Consensus 153 D~~m~ 157 (220)
T 1uax_A 153 DREIE 157 (220)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 99995
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=3.6e-44 Score=295.25 Aligned_cols=136 Identities=26% Similarity=0.309 Sum_probs=108.9
Q ss_pred CCceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhh
Q 030402 13 NPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKML 92 (178)
Q Consensus 13 ~~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~ 92 (178)
..+++|||||||||+|||||+|||+++.+ ..|++|||+||+++|++||++|++. ++. .+.+++|++||+
T Consensus 23 ~~~i~GvDEAGRGplaGPvV~AAVil~~~------~~Gl~DSKkLs~~kRe~L~~~I~~~-a~~-~v~~~sp~eID~--- 91 (250)
T 2etj_A 23 FGIVAGVDEAGRGCLAGPVVAAAVVLEKE------IEGINDSKQLSPAKRERLLDEIMEK-AAV-GIGIASPEEIDL--- 91 (250)
T ss_dssp SSSEEEEEEECTTCSBSCEEEEEEEECSC------CC----------CHHHHHHHHHHHH-EEE-EEEEECHHHHHH---
T ss_pred CceEEEecCCCCCCchhhheEEEEEEcCC------ccCCCccccCCHHHHHHHHHHHHHh-hCC-eEEEECHHHHCH---
Confidence 36799999999999999999999999986 4799999999999999999999984 566 999999999975
Q ss_pred hhccchHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHh
Q 030402 93 NKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSN 172 (178)
Q Consensus 93 ~~~~~Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~R 172 (178)
.|||+++..+|.+.+.++ +..++.++||+++.+ + +++.++++|||++|++||||||||||+|
T Consensus 92 ----~NI~~at~~Am~rAi~~L---~~~p~~vlVDg~~~~--l---------~~~~~~ivKgD~~~~sVAAASIlAKV~R 153 (250)
T 2etj_A 92 ----YNIFNATKLAMNRALENL---SVKPSFVLVDGKGIE--L---------SVPGTCLVKGDQKSKLIGAASIVAKVFR 153 (250)
T ss_dssp ----HCHHHHHHHHHHHHHHHS---SSCCSEEEEESSSCC--C---------SSCEEEETTHHHHCHHHHHHHHHHHHHH
T ss_pred ----HhHHHHHHHHHHHHHHhc---CCCCCEEEECCCCCC--C---------CCceEEEecccccchhHHHHHHHHHHHH
Confidence 699999988887666554 566889999999764 1 2447788999999999999999999999
Q ss_pred hcccc
Q 030402 173 FERMD 177 (178)
Q Consensus 173 D~~M~ 177 (178)
|++|.
T Consensus 154 D~~M~ 158 (250)
T 2etj_A 154 DRLMS 158 (250)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 99985
No 7
>2d0b_A RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hydrolase; 2.10A {Geobacillus stearothermophilus} PDB: 2d0a_A 2d0c_A 3asm_A
Probab=100.00 E-value=5e-43 Score=298.00 Aligned_cols=157 Identities=22% Similarity=0.319 Sum_probs=129.8
Q ss_pred CCceeeeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhh
Q 030402 13 NPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKML 92 (178)
Q Consensus 13 ~~~~iG~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~ 92 (178)
..+++|||||||||+|||||+|||+++++..+.+..+|++|||+||+++|++||++|++. ..|++.+++|++||+++.
T Consensus 90 ~~~i~GvDEaGRGplaGPvV~aavil~~~~~~~l~~~gl~DSKkLs~~kRe~L~~~I~~~--~~~~v~~~s~~eId~l~a 167 (310)
T 2d0b_A 90 SLSAIGSDEVGTGDYFGPIVVAAAYVDRPHIAKIAALGVKDSKQLNDEAIKRIAPAIMET--VPHAVTVLDNPQYNRWQR 167 (310)
T ss_dssp TSCEEEEEEECTTCSBSCEEEEEEEECGGGHHHHHHTCCTTGGGCCHHHHHHHHHHHHHH--SCEEEEEECHHHHHHHHH
T ss_pred CceEEeecCCCCCCchhhhEEEEEEEchhhhhhhhhcCCCcCCcCCHHHHHHHHHHHHHh--cCeEEEEECHHHHhHHHh
Confidence 356899999999999999999999999987777778999999999999999999999984 489999999999998743
Q ss_pred h-hccchHHHHHHHHHH-HHHHHHHhcCCCccEEEEcCCCChHHHHHHhhc--cCCCcceEEeecCcchhhHHHHHHHHH
Q 030402 93 N-KNKINLNEISHDSAI-GLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQ--RFPSIKFVVSKKADSLYPVVSGASIVA 168 (178)
Q Consensus 93 ~-~~~~Nin~~~~~~~~-~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~--~~~~~~~~~~~KgD~~~~sVAAASIiA 168 (178)
. .+..|++.++|+.++ ++++++ . +..++.++||+++.++.|.++|+. .++.+++++++|||++|++||||||||
T Consensus 168 ~~i~~~~l~~~~~~~ai~~~i~~L-~-~~~p~~vliD~~~~~~~~~~~L~~~~~~~~~~~~~~~KgD~~~~~VAAASIlA 245 (310)
T 2d0b_A 168 SGMPQTKMKALLHNRTLVKLVDAI-A-PAEPEAIIIDEFLKRDSYFRYLSDEDRIIRERVHCLPKAESVHVSVAAASIIA 245 (310)
T ss_dssp TTCCHHHHHHHHHHHHHHHHHHHH-T-TCCCSEEEEECSSCHHHHHHHTTTCSSCCCTTEEEETTGGGTCHHHHHHHHHH
T ss_pred ccccHHHHHHHHHHHHHHHHHHhc-c-cCCCCEEEECCCCChHHHHHHHhhccccCCCceEEEeccccccHHHHHHHHHH
Confidence 1 233456666665554 333433 2 367899999999999999999974 345678899999999999999999999
Q ss_pred HHHhhccc
Q 030402 169 KRSNFERM 176 (178)
Q Consensus 169 Kv~RD~~M 176 (178)
||++|
T Consensus 246 ---RD~~m 250 (310)
T 2d0b_A 246 ---RYVFL 250 (310)
T ss_dssp ---HHHHH
T ss_pred ---HHHHH
Confidence 66666
No 8
>3vn5_A RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {Aquifex aeolicus}
Probab=100.00 E-value=3.8e-42 Score=285.44 Aligned_cols=145 Identities=26% Similarity=0.326 Sum_probs=125.5
Q ss_pred eeccCCCCCcccceeeEEEEecccCchhhhhcCcCCCCCCCHHHHHHHHHHhhhcCceeEEEEEEchhchhHHhhhhccc
Q 030402 18 GIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKI 97 (178)
Q Consensus 18 G~DEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~~r~~l~~~I~~~~~~~~~i~~i~~~~id~~~~~~~~~ 97 (178)
|||||||||+|||||+|||+++++....|+.+|++|||+||+++|++||++|++. +.|.+.+++|++||+++. +..
T Consensus 75 GvDEaGRGplaGPvv~aavil~~~~~~~L~~~gv~DSKkLs~~kRe~L~~~I~~~--~~~~v~~~s~~eID~~~~--~~~ 150 (257)
T 3vn5_A 75 GCDESGKGDIFGSLVLCCVCIPEENYLKVSSLNPRDTKRLSDKRVERLYLALKPL--VKAYCYEIKPEEYNKLYR--KFR 150 (257)
T ss_dssp EEEEESTTCSBSCEEEEEEECCGGGHHHHHHTCTTCCTTTCHHHHHHHHHHHGGG--SEEEEEEECHHHHHHHHH--HHS
T ss_pred CccCCCCCCcccccEEEEEEEchhhhhhHhhcCCCccccCCHHHHHHHHHHHHHh--cCEEEEEECHHHHhhhcc--ccc
Confidence 9999999999999999999999987777778999999999999999999999984 789999999999998763 346
Q ss_pred hHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChHHHHHHhhccCCCcceEEeecCcchhhHHHHHHHHHHHHhhcccc
Q 030402 98 NLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKRSNFERMD 177 (178)
Q Consensus 98 Nin~~~~~~~~~~i~~~~~~~~~~~~i~iD~~~~~~~~~~~L~~~~~~~~~~~~~KgD~~~~sVAAASIiAKv~RD~~M~ 177 (178)
|||+++..+|.+++.++... +.++.++||+++.+. +| ..++++++|||+ |++|||||||||+.|++.|+
T Consensus 151 Nin~~~~~am~~Ai~~L~~~-~~~~~vlvD~~~~~~----~l-----~~~~~~~~KgD~-~~sVAAASIlARd~~m~~l~ 219 (257)
T 3vn5_A 151 NLNKMMTHFYKLLIERVKEE-CGVSEVVVDKYQPSN----PF-----GEDVIFETEAER-NLAVAVASIFARYKFLQSLK 219 (257)
T ss_dssp SHHHHHHHHHHHHHHHHHHH-HTCSCEEECCCSSSC----CS-----CTTEEECBTTBC-CHHHHHHHHHHHHHHHHHHH
T ss_pred cHHHHHHHHHHHHHHHhhcc-CCCCEEEECCCCCcc----cC-----CCCeEEEEccch-hHHHHHHHHHHHHHHHHHHH
Confidence 99999999999998887642 225789999997543 12 145889999999 99999999999888887663
No 9
>2f8e_A VPG protein; RNA-dependent RNA polymerase , protein primer, transferase; HET: U5P; 2.90A {Foot-and-mouth disease virus - type C} PDB: 2d7s_B
Probab=75.00 E-value=0.75 Score=23.99 Aligned_cols=7 Identities=57% Similarity=1.374 Sum_probs=6.0
Q ss_pred CCcccce
Q 030402 25 GPVLGPM 31 (178)
Q Consensus 25 G~~~GPl 31 (178)
||++|||
T Consensus 1 gpyagpl 7 (26)
T 2f8e_A 1 GPYAGPL 7 (26)
T ss_pred CCcCCch
Confidence 7889987
No 10
>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=34.47 E-value=17 Score=21.06 Aligned_cols=15 Identities=40% Similarity=0.514 Sum_probs=10.7
Q ss_pred cchhhHHHHHHHHHH
Q 030402 155 DSLYPVVSGASIVAK 169 (178)
Q Consensus 155 D~~~~sVAAASIiAK 169 (178)
|+.-|-|.||||+-=
T Consensus 4 dssdplv~aa~iiGI 18 (43)
T 2kih_A 4 DSSDPLVVAANIIGI 18 (43)
T ss_dssp --CCHHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHH
Confidence 566789999999853
No 11
>2ljb_A M2 protein, BM2 protein chimera; M2 channel, transport protein; NMR {Influenza a virus} PDB: 2ljc_A*
Probab=28.04 E-value=24 Score=19.64 Aligned_cols=15 Identities=47% Similarity=0.543 Sum_probs=10.6
Q ss_pred cchhhHHHHHHHHHH
Q 030402 155 DSLYPVVSGASIVAK 169 (178)
Q Consensus 155 D~~~~sVAAASIiAK 169 (178)
|+.-|-|.|||||.=
T Consensus 4 dSsDplviaA~Iigi 18 (35)
T 2ljb_A 4 DSSDPLVVAASIIGI 18 (35)
T ss_dssp --CCTHHHHHHHHHH
T ss_pred CCCCcHHHHHHHHHH
Confidence 566688999999863
Done!