Query gi|254781076|ref|YP_003065489.1| ribonuclease HII [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 209
No_of_seqs 132 out of 2742
Neff 6.2
Searched_HMMs 23785
Date Wed Jun 1 00:37:32 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254781076.hhm -d /home/congqian_1/database/pdb/pdb70.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2etj_A Ribonuclease HII, RNAse 100.0 0 0 433.5 13.1 187 17-207 17-203 (250)
2 1uax_A Ribonuclease HII, ribon 100.0 0 0 373.3 11.8 183 25-207 2-204 (220)
3 3kio_A Ribonuclease H2 subunit 100.0 0 0 364.2 14.9 185 23-207 27-245 (301)
4 1io2_A Ribonuclease HII; endon 100.0 0 0 357.0 14.6 179 25-207 2-204 (213)
5 1i39_A Ribonuclease HII, RNAse 100.0 0 0 356.1 10.2 196 13-208 9-218 (225)
6 2d0b_A RNAse HIII, ribonucleas 100.0 0 0 320.9 15.8 193 9-207 79-302 (310)
7 1eke_A Ribonuclease HII; endon 100.0 0 0 315.6 15.0 183 25-207 2-218 (230)
8 1jr5_A 10 kDa anti-sigma facto 44.3 13 0.00056 17.0 2.8 55 144-199 10-83 (90)
9 2w36_A Endonuclease V; hypoxan 43.1 6.4 0.00027 19.0 1.0 24 102-125 91-114 (225)
10 3goc_A Endonuclease V; alpha-b 42.8 7.4 0.00031 18.6 1.3 24 102-125 95-118 (237)
11 3ga2_A Endonuclease V; alpha-b 38.9 8.6 0.00036 18.2 1.1 23 103-125 98-120 (246)
12 1b25_A Protein (formaldehyde f 28.5 14 0.00058 16.9 0.7 37 154-194 570-606 (619)
13 3h5j_A 3-isopropylmalate dehyd 22.6 34 0.0014 14.5 1.9 14 188-201 87-100 (171)
14 2q2k_A Hypothetical protein; p 20.5 17 0.00073 16.3 0.0 25 167-191 35-62 (70)
No 1
>2etj_A Ribonuclease HII, RNAse HII; TM0915, ribonuclease HII (EC 3.1.26.4) (RNAse HII), structural genomics, joint center for structural genomics; 1.74A {Thermotoga maritima} SCOP: c.55.3.1
Probab=100.00 E-value=0 Score=433.48 Aligned_cols=187 Identities=47% Similarity=0.671 Sum_probs=178.2
Q ss_pred HHHHCCCCEEEEEECCCCCCCCCCEEEEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCCHHHHHHHCH
Q ss_conf 99977994899984278777522255999998701082331152028999998755211012307885156799852047
Q gi|254781076|r 17 MVREKNMWPVAGIDEVGRGALAGPVVVAAIILDPNNIPFGINDSKKISHKKREELYEKITSSAIISISSASHQYIDKHNI 96 (209)
Q Consensus 17 ~l~~~~~~~IiGvDEaGRG~~~GPlvvaav~~~~~~~~~~i~DSK~Ls~~~R~~l~~~i~~~~~~~i~~~~~~eID~~ni 96 (209)
.|++.|+..|+|||||||||++||||+|||+++.+. .|++|||+||+++|++|+..|++.+.|++++++++|||++||
T Consensus 17 ~l~~~~~~~V~GVDEAGRGpv~GPmVvaaV~l~~~~--~gv~DSKkLs~~kR~~l~~~i~~~~~~~i~~~s~~eId~~ni 94 (250)
T 2etj_A 17 ELYKKEFGIVAGVDEAGRGCLAGPVVAAAVVLEKEI--EGINDSKQLSPAKRERLLDEIMEKAAVGIGIASPEEIDLYNI 94 (250)
T ss_dssp GGGTTTSSSEEEEEEECTTCSBSCEEEEEEEECSCC--C----------CHHHHHHHHHHHHEEEEEEEECHHHHHHHCH
T ss_pred HHHHCCCCEEEEECCCCCCCCCCEEEEEEEEECCCC--CCCCCCCCCCHHHHHHHHHHCCCCCCEEEEEEECHHHHHCCH
T ss_conf 999869978997748786774100379999978998--877703589999999998753234635999985117652497
Q ss_pred HHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 99988654321002575321101265322466212268711478652002366665477589999999887779881028
Q gi|254781076|r 97 HKATLDAIYHAVENLQVIPRSALIDGRSIPEDLPCQAFAVIKGDSISLSIAAASIIAKVTRDRLMRIAHKKYPDYGFDSH 176 (209)
Q Consensus 97 ~~A~~~a~~~ai~~l~~~~~~ilIDg~~~~~~~~~~~~~i~KgD~~~~~VaaASIiAKv~RD~~m~~l~~~~p~Ygf~~n 176 (209)
++|+..||.+|+.+|...++.+++||+.++ .+.+..+++|||++|++||||||||||+||++|.+|+++||+|||+.|
T Consensus 95 ~~a~~~am~rai~~L~~~~~~~~~D~~~~~--~~~~~~~i~KaD~k~~~VaAASIiAKV~RD~~m~~l~~~yp~yg~~~~ 172 (250)
T 2etj_A 95 FNATKLAMNRALENLSVKPSFVLVDGKGIE--LSVPGTCLVKGDQKSKLIGAASIVAKVFRDRLMSEFHRMYPQFSFHKH 172 (250)
T ss_dssp HHHHHHHHHHHHHHSSSCCSEEEEESSSCC--CSSCEEEETTHHHHCHHHHHHHHHHHHHHHHHHHHHHHHCTTSCHHHH
T ss_pred HHHHHHHHHHHHHHCCCCCCEEEECCCCCC--CCCCCEEEECCCCCCCCEEECHHHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf 899999999999965877550310476677--887744667676665511110034687999999999987889998468
Q ss_pred CCCCCHHHHHHHHHCCCCCCCCCCHHHHHHH
Q ss_conf 9999989999999828583010784888640
Q gi|254781076|r 177 VGYPTAKHQQVIKEKGPSCIHRLTFRPLRNL 207 (209)
Q Consensus 177 kGYgT~~H~~ai~~~G~~~~HR~Sf~~vk~l 207 (209)
+||||++|+++|+++|++|+||+||+|+++|
T Consensus 173 sGY~Tk~hl~ai~~~G~~~~hR~Sw~tik~l 203 (250)
T 2etj_A 173 KGYATKEHLNEIRKNGVLPIHRLSFEPVLEL 203 (250)
T ss_dssp TTCCCHHHHHHHHHHCCCTTBCTTSHHHHTT
T ss_pred CCCCCHHHHHHHHHHCCCCCCCCCCHHHHHH
T ss_conf 8879599999999878092123883889999
No 2
>1uax_A Ribonuclease HII, ribonuclease H2; RNA*DNA hybrid ribonucleotidohydrolase; 2.00A {Pyrococcus horikoshii OT3} SCOP: c.55.3.1
Probab=100.00 E-value=0 Score=373.34 Aligned_cols=183 Identities=30% Similarity=0.446 Sum_probs=159.3
Q ss_pred EEEEEECCCCCCCCCCEEEEEEEECCCCC----CCCCCCCCCCCHHHHHHHHHHHCCCC-EEEEECCCHHHHHHHCHHHH
Q ss_conf 89998427877752225599999870108----23311520289999987552110123-07885156799852047999
Q gi|254781076|r 25 PVAGIDEVGRGALAGPVVVAAIILDPNNI----PFGINDSKKISHKKREELYEKITSSA-IISISSASHQYIDKHNIHKA 99 (209)
Q Consensus 25 ~IiGvDEaGRG~~~GPlvvaav~~~~~~~----~~~i~DSK~Ls~~~R~~l~~~i~~~~-~~~i~~~~~~eID~~ni~~A 99 (209)
.|||||||||||+|||||+|||+++++.. ..||+|||+||+++|++|++.|++++ .|++++++|+|||+.|++.+
T Consensus 2 ~I~GvDEaGRG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~kR~~l~~~i~~~~~~~~v~~~~~~eId~~~~~~n 81 (220)
T 1uax_A 2 KVAGVDEAGRGPVIGPLVIGVAVIDEKNIERLRDIGVKDSKQLTPGQREKLFSKLIDILDDYYVLLVTPKEIDERHHSMN 81 (220)
T ss_dssp EEEEEEEECSSCSBSCEEEEEEEEEGGGHHHHHHHTGGGSTTSCHHHHHHHHHHHHHHSSEEEEEEECHHHHHTCSSCHH
T ss_pred EEEEECCCCCCCCCCCCEEEEEEECHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHCCCCCEEEEEECCHHHHHHHCCHHH
T ss_conf 29805387866620331789999875651356535998645299999999976530234227999578999987232377
Q ss_pred HHHHHHH--HCCCCCCCCCCCCCCCCCCCC-----------CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 8865432--100257532110126532246-----------621226871147865200236666547758999999988
Q gi|254781076|r 100 TLDAIYH--AVENLQVIPRSALIDGRSIPE-----------DLPCQAFAVIKGDSISLSIAAASIIAKVTRDRLMRIAHK 166 (209)
Q Consensus 100 ~~~a~~~--ai~~l~~~~~~ilIDg~~~~~-----------~~~~~~~~i~KgD~~~~~VaaASIiAKv~RD~~m~~l~~ 166 (209)
++++|.+ ++..+...++.+++|+..+.. ..+.++.+++|||++|++||||||||||+||++|.+|++
T Consensus 82 ~l~a~~~~~~~~~l~~~~~~i~i~~~~~~~~~~~~~~~~~~~~~~~v~~~~KaD~~~~~VAAASIiAKv~RD~~m~~l~~ 161 (220)
T 1uax_A 82 ELEAEKFVVALNSLRIKPQKIYVDSADVDPKRFASLIKAGLKYEATVIAEHKADAKYEIVSAASIIAKVTRDREIEKLKQ 161 (220)
T ss_dssp HHHHHHHHHHHHTCSSCCSEEEEECTTSCHHHHHHHHHHHCSSCCEEEEETTHHHHCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCCCCEEECCCCCCCCHHHHHHHCCCCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 77888998888752789764412431348221002320268878517877515533441168999999999999999998
Q ss_pred HCCCCCCCCCCCCCCHHHHHH-HHHCC-CCCCCCCCHHHHHHH
Q ss_conf 777988102899999899999-99828-583010784888640
Q gi|254781076|r 167 KYPDYGFDSHVGYPTAKHQQV-IKEKG-PSCIHRLTFRPLRNL 207 (209)
Q Consensus 167 ~~p~Ygf~~nkGYgT~~H~~a-i~~~G-~~~~HR~Sf~~vk~l 207 (209)
+||+|||..|+||+|++|+++ ++++| ++++||+||+|+++|
T Consensus 162 ~~p~yg~g~~~gy~Tk~~l~~~~~~~g~~~~~hR~sf~t~k~~ 204 (220)
T 1uax_A 162 KYGEFGSGYPSDPRTKEWLEEYYKQYGDFPPIVRRTWETARKI 204 (220)
T ss_dssp HHCCCTTSCTTCHHHHHHHHHHHHHHSSCCTTBCTTSHHHHHH
T ss_pred HCCCCCCCCCCCHHHHHHHHHHHHHHCCCCHHHCCCCHHHHHH
T ss_conf 7877898688878799999999897487984042893999999
No 3
>3kio_A Ribonuclease H2 subunit A; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus}
Probab=100.00 E-value=0 Score=364.16 Aligned_cols=185 Identities=25% Similarity=0.362 Sum_probs=154.7
Q ss_pred CCEEEEEECCCCCCCCCCEEEEEEEECCCCC----CCCCCCCCCCCHHHHHHHHHHHCCCC---EEEEECCCHHHHHHH-
Q ss_conf 9489998427877752225599999870108----23311520289999987552110123---078851567998520-
Q gi|254781076|r 23 MWPVAGIDEVGRGALAGPVVVAAIILDPNNI----PFGINDSKKISHKKREELYEKITSSA---IISISSASHQYIDKH- 94 (209)
Q Consensus 23 ~~~IiGvDEaGRG~~~GPlvvaav~~~~~~~----~~~i~DSK~Ls~~~R~~l~~~i~~~~---~~~i~~~~~~eID~~- 94 (209)
...|+|||||||||+|||||+|||+++.+.. ..|++|||+||+++|++|++.|++.+ .|++++++|++||..
T Consensus 27 ~p~ViGvDEaGRGpv~GPvVvaav~~~~~~~~~l~~~gv~DSK~Ls~kkRe~L~~~I~~~~~~~~~~v~~~s~~~Id~~~ 106 (301)
T 3kio_A 27 EPCVLGVDEAGRGPVLGPMVYAICYCPLSRLADLEALKVADSKTLTENERERLFAKMEEDGDFVGWALDVLSPNLISTSM 106 (301)
T ss_dssp SCEEEEEEEECSSCSBSCEEEEEEEEEGGGGGGCCCCCSCC--CCCHHHHHHHHHHHHHTTTTCEEEEEEECHHHHHHHH
T ss_pred CCEEEEECCCCCCCCCCCCEEEEEEEEHHHCCCHHHCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHEEECCHHHHHHHH
T ss_conf 97399871758666202307899998103212020078874561899999999999987505555521455799964999
Q ss_pred ------CHHHHHHHH---HHHHCCCCCCCCCCCCCCCCCCCCC---------CCEEEEEECCCCCCCHHHHHHHHHHHHH
Q ss_conf ------479998865---4321002575321101265322466---------2122687114786520023666654775
Q gi|254781076|r 95 ------NIHKATLDA---IYHAVENLQVIPRSALIDGRSIPED---------LPCQAFAVIKGDSISLSIAAASIIAKVT 156 (209)
Q Consensus 95 ------ni~~A~~~a---~~~ai~~l~~~~~~ilIDg~~~~~~---------~~~~~~~i~KgD~~~~~VaaASIiAKv~ 156 (209)
|++.....+ +.+.+......++.++|||+..+.. .+.++.+++|||++|++||||||||||+
T Consensus 107 l~~~~~nln~l~~~~~~~li~~~l~~~~~~~~v~vD~~~~~~~~~~~l~~~~p~i~i~~~~KaDs~~~~VAAASIlAKVt 186 (301)
T 3kio_A 107 LGRVKYNLNSLSHDTAAGLIQYALDQNVNVTQVFVDTVGMPETYQARLQQHFPGIEVTVKAKADSLFPVVSAASIFAKVA 186 (301)
T ss_dssp TSSSCCCHHHHHHHHHHHHHHHHHHTTCCEEEEEEECSSCCHHHHHHHHHSSTTSEEEEETTGGGTSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCHHHHHHHHHCCCCCCCEEEEECCCCCCCCHHHHHHHHHHH
T ss_conf 98889999999999999999999837999775776377871555555410125530488704653230057999999999
Q ss_pred HHHHHHHHHHHCCCCCCCCC--CCCCC-HHHHHHHHHC-----CCCCCCCCCHHHHHHH
Q ss_conf 89999999887779881028--99999-8999999982-----8583010784888640
Q gi|254781076|r 157 RDRLMRIAHKKYPDYGFDSH--VGYPT-AKHQQVIKEK-----GPSCIHRLTFRPLRNL 207 (209)
Q Consensus 157 RD~~m~~l~~~~p~Ygf~~n--kGYgT-~~H~~ai~~~-----G~~~~HR~Sf~~vk~l 207 (209)
||++|..|+..||.|+|+.| +|||| +.|++||+++ |++++||+||+|+++|
T Consensus 187 RD~~m~~l~~~~~~y~~~~~~GsGYPsd~~Tk~~L~~~~~~~~G~~~~hR~Sw~t~k~~ 245 (301)
T 3kio_A 187 RDKAVKNWQFVENLQDLDSDYGSGYPNDPKTKAWLRKHVDPVFGFPQFVRFSWSTAQAI 245 (301)
T ss_dssp HHHHHHHHHHHHHHTTCCCCCCSSSTTSHHHHHHHHTTCBTTTBSCTTBCTTSHHHHHH
T ss_pred HHHHHHHHHHHCCCCCHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCHHHCCCCHHHHHH
T ss_conf 99999998866866670126984079768999999972232379795240883999999
No 4
>1io2_A Ribonuclease HII; endonuclease, hydrolase; 2.00A {Thermococcus kodakarensis KOD1} SCOP: c.55.3.1 PDB: 2dfh_A 2dff_A 2dfe_A 1x1p_A
Probab=100.00 E-value=0 Score=356.97 Aligned_cols=179 Identities=31% Similarity=0.534 Sum_probs=158.4
Q ss_pred EEEEEECCCCCCCCCCEEEEEEEECCCCC----CCCCCCCCCCCHHHHHHHHHHHCCCC-EEEEECCCHHHHH--HHCHH
Q ss_conf 89998427877752225599999870108----23311520289999987552110123-0788515679985--20479
Q gi|254781076|r 25 PVAGIDEVGRGALAGPVVVAAIILDPNNI----PFGINDSKKISHKKREELYEKITSSA-IISISSASHQYID--KHNIH 97 (209)
Q Consensus 25 ~IiGvDEaGRG~~~GPlvvaav~~~~~~~----~~~i~DSK~Ls~~~R~~l~~~i~~~~-~~~i~~~~~~eID--~~ni~ 97 (209)
.|||||||||||+|||||+|||+++.+.. ..||+|||+||+++|++|++.|++++ .|.+..+++++++ ..|++
T Consensus 2 ~I~GvDEaGRG~l~GPvvvaav~~~~~~~~~l~~~gv~DSK~Ls~~kR~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~n 81 (213)
T 1io2_A 2 KIAGIDEAGRGPVIGPMVIAAVVVDENSLPKLEELKVRDSKKLTPKRREKLFNEILGVLDDYVILELPPDVIGSREGTLN 81 (213)
T ss_dssp EEEEEEEECSSCSBSCEEEEEEEEEGGGHHHHHHTTGGGCTTCCHHHHHHHHHHHHTTCSEEEEEEECHHHHHTCSSCHH
T ss_pred EEEEECCCCCCCCCCCEEEEEEEEEHHHCCHHHHCCCCCCHHCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
T ss_conf 29935477877731100689999801423033303775201099989999999999776652010157999854678898
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCCCCC-----------CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 998865432100257532110126532246-----------621226871147865200236666547758999999988
Q gi|254781076|r 98 KATLDAIYHAVENLQVIPRSALIDGRSIPE-----------DLPCQAFAVIKGDSISLSIAAASIIAKVTRDRLMRIAHK 166 (209)
Q Consensus 98 ~A~~~a~~~ai~~l~~~~~~ilIDg~~~~~-----------~~~~~~~~i~KgD~~~~~VaaASIiAKv~RD~~m~~l~~ 166 (209)
+++..+|.+++++|...++.+++||+.... ....+..+++|||++|++||||||||||+||++|.+|++
T Consensus 82 ~~~~~~~~~ai~~l~~~~~~i~iD~~~~~~~~~~~~~~~~~~~~~~~~~~~KgD~~~~~VAAASIlAKv~RD~~m~~l~~ 161 (213)
T 1io2_A 82 EFEVENFAKALNSLKVKPDVIYADAADVDEERFARELGERLNFEAEVVAKHKADDIFPVVSAASILAKVTRDRAVEKLKE 161 (213)
T ss_dssp HHHHHHHHHHHHHCSSCCSEEEEECCSSCHHHHHHHHHHTCSSCCEEEEETTHHHHCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCCCCEEEECCCCCCCCHHHHHCCCCCCCCCEEEEEECCCCCCCEEEHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999999826899999998876776102222035444554127996456433620108889989999999999999
Q ss_pred HCCCCCCCCCCCCCCHHHHHHH-----HHC-CCCCCCCCCHHHHHHH
Q ss_conf 7779881028999998999999-----982-8583010784888640
Q gi|254781076|r 167 KYPDYGFDSHVGYPTAKHQQVI-----KEK-GPSCIHRLTFRPLRNL 207 (209)
Q Consensus 167 ~~p~Ygf~~nkGYgT~~H~~ai-----~~~-G~~~~HR~Sf~~vk~l 207 (209)
.||+|| +||||+.|.+++ +++ |++++||+||+|+|++
T Consensus 162 ~yp~~g----~GY~s~~h~~a~l~~~~~~~g~~~~~hR~sf~~~k~~ 204 (213)
T 1io2_A 162 EYGEIG----SGYPSDPRTRAFLENYYREHGEFPPIVRKGWKTLKKI 204 (213)
T ss_dssp HHSCCC----SSCTTSHHHHHHHHHHHHHHSSCCTTBCTTCHHHHHH
T ss_pred HCCCCC----CCCCCHHHHHHHHHHCCHHCCCCCCCCCCCCHHHHHH
T ss_conf 777779----9999889999999855400389995201984999999
No 5
>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
Probab=100.00 E-value=0 Score=356.13 Aligned_cols=196 Identities=27% Similarity=0.342 Sum_probs=156.5
Q ss_pred HHHHHHHHCCCCEEEEEECCCCCCCCCCEEEEEEEECCCCC--CCCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCCHHH
Q ss_conf 89999997799489998427877752225599999870108--2331152028999998755211012307885156799
Q gi|254781076|r 13 ELEAMVREKNMWPVAGIDEVGRGALAGPVVVAAIILDPNNI--PFGINDSKKISHKKREELYEKITSSAIISISSASHQY 90 (209)
Q Consensus 13 ~~E~~l~~~~~~~IiGvDEaGRG~~~GPlvvaav~~~~~~~--~~~i~DSK~Ls~~~R~~l~~~i~~~~~~~i~~~~~~e 90 (209)
..-..|+.+|+..|+|+|||||||+|||||+|||+++++.. ..||+|||+||+++|+++++.|++.+.|++..++|++
T Consensus 9 ~~~~~l~~~g~~~viGiDEaGrG~~~GPvvv~av~~~~~~~~~~~gv~DSK~Ls~~kr~~l~~~I~~~~~~~i~~is~~~ 88 (225)
T 1i39_A 9 HHSSGLVPRGSHMKAGIDEAGKGCVIGPLVVAGVACSDEDRLRKLGVKDSKKLSQGRREELAEEIRKICRTEVLKVSPEN 88 (225)
T ss_dssp ------------CEEEEEEECTTCSBSCEEEEEEEESCHHHHHHTTCTTCTTCCHHHHHHHHHHHHHHEEEEEEEECHHH
T ss_pred HHHHHHHHCCCEEEEEECCCCCCCCCCCEEEEEEEECCHHHHHHCCCCHHHHCCHHHHHHHHHHHHHCCCCEEEEECCCC
T ss_conf 01556987799689814287867740213799999883430102377414339999999997665405311289965543
Q ss_pred HHHHCHHHHHHHHHHHHCCC--CCCCCCCCCCCCCCCCC---------CCCEEEEEECCCCCCCHHHHHHHHHHHHHHHH
Q ss_conf 85204799988654321002--57532110126532246---------62122687114786520023666654775899
Q gi|254781076|r 91 IDKHNIHKATLDAIYHAVEN--LQVIPRSALIDGRSIPE---------DLPCQAFAVIKGDSISLSIAAASIIAKVTRDR 159 (209)
Q Consensus 91 ID~~ni~~A~~~a~~~ai~~--l~~~~~~ilIDg~~~~~---------~~~~~~~~i~KgD~~~~~VaaASIiAKv~RD~ 159 (209)
||+.|+.+++..+|.++..+ +...++.+++|+....+ ..++++.+++|||++|++||||||||||+||+
T Consensus 89 id~~~~~~~~n~~~~~a~~~~~~~l~~~~~~id~~~~~~~~~~~~~~~~~~~~~~~~~KgD~k~~~VAAASIiAKv~RD~ 168 (225)
T 1i39_A 89 LDERMAAKTINEILKECYAEIILRLKPEIAYVDSPDVIPERLSRELEEITGLRVVAEHKADEKYPLVAAASIIAKVERER 168 (225)
T ss_dssp HHHHTTTSCHHHHHHHHHHHHHHHHCCSEEEEEESSSCCHHHHHHHHHHHCSEEEEEETGGGTCHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHCCCCCCCCCCEEEEEECCCCCCCCEEHHHHHHHHHHHH
T ss_conf 34777799999999999999861479854786577656555323445466300699865765565310699999999999
Q ss_pred HHHHHHHHCCCCCCCCCCCCCCHHHHHHH-HHCCCCCCCCCCHHHHHHHC
Q ss_conf 99999887779881028999998999999-98285830107848886403
Q gi|254781076|r 160 LMRIAHKKYPDYGFDSHVGYPTAKHQQVI-KEKGPSCIHRLTFRPLRNLS 208 (209)
Q Consensus 160 ~m~~l~~~~p~Ygf~~nkGYgT~~H~~ai-~~~G~~~~HR~Sf~~vk~l~ 208 (209)
+|.+|++.||+|||..++||+|++|++.+ ..+|++.+||+||+|++++-
T Consensus 169 ~m~~l~~~yp~yg~Gy~s~~~t~~~l~~~~~~~~~~~~hR~sfk~~~~~~ 218 (225)
T 1i39_A 169 EIERLKEKFGDFGSGYASDPRTREVLKEWIASGRIPSCVRMRWKTVSNLR 218 (225)
T ss_dssp HHHHHHHHHCCCCSSSTTSHHHHHHHHHHHHHTCCCTTBCTTSHHHHHHH
T ss_pred HHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHH
T ss_conf 99999998799898778739999999998750999840049978799998
No 6
>2d0b_A RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hydrolase; 2.10A {Geobacillus stearothermophilus} PDB: 2d0a_A 2d0c_A
Probab=100.00 E-value=0 Score=320.94 Aligned_cols=193 Identities=21% Similarity=0.300 Sum_probs=151.5
Q ss_pred CCCHHHHHHHHHCCCCEEEEEECCCCCCCCCCEEEEEEEECCCCC----CCCCCCCCCCCHHHHHHHHHHHCCCCEEEEE
Q ss_conf 868889999997799489998427877752225599999870108----2331152028999998755211012307885
Q gi|254781076|r 9 RPHFELEAMVREKNMWPVAGIDEVGRGALAGPVVVAAIILDPNNI----PFGINDSKKISHKKREELYEKITSSAIISIS 84 (209)
Q Consensus 9 ~p~~~~E~~l~~~~~~~IiGvDEaGRG~~~GPlvvaav~~~~~~~----~~~i~DSK~Ls~~~R~~l~~~i~~~~~~~i~ 84 (209)
.|.......+ +..+|||||||||||+|||||+|||+++++.. ..||+|||+||+++|++|++.|++++.|.+.
T Consensus 79 ~~~~~~~~~~---~~~~vIGiDEaGRG~l~GPvvvaav~~~~~~~~~l~~lgV~DSK~Ls~~kr~~L~~~I~~~~~~~~~ 155 (310)
T 2d0b_A 79 QPSALAAHQL---GSLSAIGSDEVGTGDYFGPIVVAAAYVDRPHIAKIAALGVKDSKQLNDEAIKRIAPAIMETVPHAVT 155 (310)
T ss_dssp CGGGHHHHHH---TTSCEEEEEEECTTCSBSCEEEEEEEECGGGHHHHHHTCCTTGGGCCHHHHHHHHHHHHHHSCEEEE
T ss_pred CCCCCCCCCC---CCCCEEEECCCCCCCCCCCEEEEEEEECHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCEEE
T ss_conf 8655575546---8973897707787673002079999985565145665489732208999999999999974042199
Q ss_pred CCCHHHHHHHCH---HHHHHH--HHHHHCCCC-----CCCCCCCCCCCCCCC-----------CCCCEEEEEECCCCCCC
Q ss_conf 156799852047---999886--543210025-----753211012653224-----------66212268711478652
Q gi|254781076|r 85 SASHQYIDKHNI---HKATLD--AIYHAVENL-----QVIPRSALIDGRSIP-----------EDLPCQAFAVIKGDSIS 143 (209)
Q Consensus 85 ~~~~~eID~~ni---~~A~~~--a~~~ai~~l-----~~~~~~ilIDg~~~~-----------~~~~~~~~~i~KgD~~~ 143 (209)
.+++.+||++++ +.+.++ ++.+++.++ ...|+.++||++..+ ...+.++.+++|||+++
T Consensus 156 ~~~~~~~n~~~~~~~n~~~l~a~~~~~ai~~l~~~~~~~~~~~iliD~f~~~~~~~~~l~~~~~~~~~~v~~~~KaD~~~ 235 (310)
T 2d0b_A 156 VLDNPQYNRWQRSGMPQTKMKALLHNRTLVKLVDAIAPAEPEAIIIDEFLKRDSYFRYLSDEDRIIRERVHCLPKAESVH 235 (310)
T ss_dssp EECHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHTTCCCSEEEEECSSCHHHHHHHTTTCSSCCCTTEEEETTGGGTC
T ss_pred EECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEECCCCCHHHHHHHHHCCCCCCCCCEEEEECCCCCH
T ss_conf 95416301652867669999999999999999986077887779855766606777764013668887648996564104
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHH---HHHHHHCCCCC---CCCCCHHHHHHH
Q ss_conf 00236666547758999999988777988102899999899---99999828583---010784888640
Q gi|254781076|r 144 LSIAAASIIAKVTRDRLMRIAHKKYPDYGFDSHVGYPTAKH---QQVIKEKGPSC---IHRLTFRPLRNL 207 (209)
Q Consensus 144 ~~VaaASIiAKv~RD~~m~~l~~~~p~Ygf~~nkGYgT~~H---~~ai~~~G~~~---~HR~Sf~~vk~l 207 (209)
++||||||||||+||++|.+|+++ |||..|||||++.| +++|++||... ++|++|+|++++
T Consensus 236 ~~VAAASIlAKv~rd~~m~~l~~~---yg~~~~kGaG~~~~~~a~~~ik~~G~~~L~~~~K~hfkt~~k~ 302 (310)
T 2d0b_A 236 VSVAAASIIARYVFLEEMEQLSRA---VGLLLPKGAGAIVDEAAARIIRARGEEMLETCAKLHFANTKKA 302 (310)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH---HTSCCCSSSSHHHHHHHHHHHHHHCGGGHHHHBCTTSTHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH---HCCCCCCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHH
T ss_conf 889999999999999999999997---0987678989178999999999839621354122358029999
No 7
>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=0 Score=315.62 Aligned_cols=183 Identities=27% Similarity=0.351 Sum_probs=146.2
Q ss_pred EEEEEECCCCCCCCCCEEEEEEEECCCCC----CCCCCCCCCCCHHHHHHHHHHHCCCCEEEEECCCHHHHHH----HCH
Q ss_conf 89998427877752225599999870108----2331152028999998755211012307885156799852----047
Q gi|254781076|r 25 PVAGIDEVGRGALAGPVVVAAIILDPNNI----PFGINDSKKISHKKREELYEKITSSAIISISSASHQYIDK----HNI 96 (209)
Q Consensus 25 ~IiGvDEaGRG~~~GPlvvaav~~~~~~~----~~~i~DSK~Ls~~~R~~l~~~i~~~~~~~i~~~~~~eID~----~ni 96 (209)
.|||+|||||||+|||||+|||+++++.. ..||+|||+||+++|++|++.|++.+.+.+....+.+++. .++
T Consensus 2 ~viGvDEaGrG~~~GPlvvaav~~~~~~~~~l~~~gv~DSK~Ls~~kr~~l~~~I~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (230)
T 1eke_A 2 IIIGIDEAGRGPVLGPMVVCAFAIEKEREEELKKLGVKDSKELTKNKRAYLKKLLENLGYVEKRILEAEEINQLMNSINL 81 (230)
T ss_dssp EEEEEEEECSSCSBSCEEEEEEEEEGGGHHHHHTTTCC---CCCHHHHHHHHHHHHHHSEEEEEEECHHHHHHHTTTSCH
T ss_pred EEEEECCCCCCCCCCCEEEEEEEEECCCCHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCHHEEEEEEEEEHHHHHHHHH
T ss_conf 79986588877720421699999810113455434686331189889999999999842011431000220233206888
Q ss_pred HHHHHHHHHHHC----CCC--CCCCCCCCCCCCCCC------------------CCCCEEEEEECCCCCCCHHHHHHHHH
Q ss_conf 999886543210----025--753211012653224------------------66212268711478652002366665
Q gi|254781076|r 97 HKATLDAIYHAV----ENL--QVIPRSALIDGRSIP------------------EDLPCQAFAVIKGDSISLSIAAASII 152 (209)
Q Consensus 97 ~~A~~~a~~~ai----~~l--~~~~~~ilIDg~~~~------------------~~~~~~~~~i~KgD~~~~~VaaASIi 152 (209)
..+...++.+++ ..+ ......+++|++... ...+.++.+++|||+++++||||||+
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~id~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kgD~~~~~VAaASIl 161 (230)
T 1eke_A 82 NDIEINAFSKVAKNLIEKLNIRDDEIEIYIDACSTNTKKFEDSFKDKIEDIIKERNLNIKIIAEHKADAKYPVVSAASII 161 (230)
T ss_dssp HHHHHHHHHHHHHHHHHHTTCCSSEEEEEEECCSSCHHHHHHHHHHHHHHHHTTTTCEEEEEEETTGGGTCHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHCCCCCCCCCHHHEECCCCCCCCCHHHHHHHHCCCCCCCCCCCCEEEEECCCCCHHHHHHHHHH
T ss_conf 89899875432323220012466420220201102454724666543202356778887779985266410355999999
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHH--CCCCCCCCCCHHHHHHH
Q ss_conf 47758999999988777988102899999899999998--28583010784888640
Q gi|254781076|r 153 AKVTRDRLMRIAHKKYPDYGFDSHVGYPTAKHQQVIKE--KGPSCIHRLTFRPLRNL 207 (209)
Q Consensus 153 AKv~RD~~m~~l~~~~p~Ygf~~nkGYgT~~H~~ai~~--~G~~~~HR~Sf~~vk~l 207 (209)
|||+||++|.+|+++||+|||..++||+|.+|.+++.+ +|++++||+||+|++++
T Consensus 162 AKv~Rd~~m~~l~~~~~~~g~g~~~~~~t~~~~~~~~~~~~g~~~~~R~sfkt~k~~ 218 (230)
T 1eke_A 162 AKAERDEIIDYYKKIYGDIGSGYPSDPKTIKFLEDYFKKHKKLPDIARTHWKTCKRI 218 (230)
T ss_dssp HHHHHHHHHHHHHHHTSCCTTSSTTSHHHHHHHHHHHHHHSSCCTTBCTTSHHHHHH
T ss_pred HHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHH
T ss_conf 999999999998986667898789878999999998762169993010983769999
No 8
>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=44.27 E-value=13 Score=17.03 Aligned_cols=55 Identities=25% Similarity=0.373 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH---HCCCCCCCCCCCCC-------------CHHHH-HHHHH--CCCCCCCCC
Q ss_conf 00236666547758999999988---77798810289999-------------98999-99998--285830107
Q gi|254781076|r 144 LSIAAASIIAKVTRDRLMRIAHK---KYPDYGFDSHVGYP-------------TAKHQ-QVIKE--KGPSCIHRL 199 (209)
Q Consensus 144 ~~VaaASIiAKv~RD~~m~~l~~---~~p~Ygf~~nkGYg-------------T~~H~-~ai~~--~G~~~~HR~ 199 (209)
-.||-|||+-|..||.++..-.. ...+-|| +|.|-. |...+ +-|.+ .|.-++||.
T Consensus 10 eIiaiaSiLIKf~~edIl~~q~~FI~FLNElG~-~~~G~e~t~~sfrqm~~~Lt~~er~elieeFn~G~e~i~r~ 83 (90)
T 1jr5_A 10 EIITVASILIKFSREDIVENRANFIAFLNEIGV-THEGRKLNQNSFRKIVSELTQEDKKTLIDEFNEGFEGVYRY 83 (90)
T ss_dssp HHHHHHHHHHHTTCHHHHTCHHHHHHHHHHHTC-CSSSSCCCSHHHHHHHHTCCHHHHHHHHTTSSSSSTTTTTH
T ss_pred HHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999982799998729999999998378-87764878876999998679988999999985010889999
No 9
>2w36_A Endonuclease V; hypoxanthine, endonuclease, endonucleasev, hydrolase, inosine, DNA damage, DNA repair; HET: BRU; 2.10A {Thermotoga maritima} PDB: 2w35_A 3hd0_A
Probab=43.08 E-value=6.4 Score=19.02 Aligned_cols=24 Identities=25% Similarity=0.452 Sum_probs=18.9
Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCC
Q ss_conf 654321002575321101265322
Q gi|254781076|r 102 DAIYHAVENLQVIPRSALIDGRSI 125 (209)
Q Consensus 102 ~a~~~ai~~l~~~~~~ilIDg~~~ 125 (209)
-++.+++++|...||.++|||+..
T Consensus 91 P~ll~al~~L~~~PdvilvDG~G~ 114 (225)
T 2w36_A 91 PLFLKAWEKLRTKPDVVVFDGQGL 114 (225)
T ss_dssp HHHHHHHTTCCSCCSEEEEESCSS
T ss_pred HHHHHHHHHCCCCCCEEEECCCEE
T ss_conf 899999996578999999848533
No 10
>3goc_A Endonuclease V; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; HET: YES; 1.60A {Streptomyces avermitilis ma-4680}
Probab=42.78 E-value=7.4 Score=18.63 Aligned_cols=24 Identities=21% Similarity=0.382 Sum_probs=18.6
Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCC
Q ss_conf 654321002575321101265322
Q gi|254781076|r 102 DAIYHAVENLQVIPRSALIDGRSI 125 (209)
Q Consensus 102 ~a~~~ai~~l~~~~~~ilIDg~~~ 125 (209)
-.|..++++|+..||.++|||+..
T Consensus 95 p~~l~al~~l~~~PdlllvDG~Gi 118 (237)
T 3goc_A 95 PTVLAALDALPCPPGLIVCDGYGV 118 (237)
T ss_dssp HHHHHHHHTSSSCCSEEEEESCSS
T ss_pred HHHHHHHHHCCCCCCEEEECCCEE
T ss_conf 899999985678999999828602
No 11
>3ga2_A Endonuclease V; alpha-beta protein, structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Bacillus subtilis}
Probab=38.90 E-value=8.6 Score=18.24 Aligned_cols=23 Identities=30% Similarity=0.440 Sum_probs=16.8
Q ss_pred HHHHHCCCCCCCCCCCCCCCCCC
Q ss_conf 54321002575321101265322
Q gi|254781076|r 103 AIYHAVENLQVIPRSALIDGRSI 125 (209)
Q Consensus 103 a~~~ai~~l~~~~~~ilIDg~~~ 125 (209)
.+.+++++|...||.++|||+..
T Consensus 98 ~ll~al~~L~~~PDvllvDG~Gi 120 (246)
T 3ga2_A 98 LIIEAAKKLETEPDVFLFDGNGY 120 (246)
T ss_dssp HHHHHHHHCSSCCSCEEEEBCSS
T ss_pred HHHHHHHHCCCCCCEEEECCCCC
T ss_conf 99999985678999999928621
No 12
>1b25_A Protein (formaldehyde ferredoxin oxidoreductase); MOCO, tungstoenzyme, tungsten containing protein, hyperthermophIle; HET: PTT; 1.85A {Pyrococcus furiosus} SCOP: a.110.1.1 d.152.1.1 PDB: 1b4n_A*
Probab=28.45 E-value=14 Score=16.95 Aligned_cols=37 Identities=19% Similarity=0.329 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHCCCC
Q ss_conf 77589999999887779881028999998999999982858
Q gi|254781076|r 154 KVTRDRLMRIAHKKYPDYGFDSHVGYPTAKHQQVIKEKGPS 194 (209)
Q Consensus 154 Kv~RD~~m~~l~~~~p~Ygf~~nkGYgT~~H~~ai~~~G~~ 194 (209)
+..|+.+-+.+...|..-||+.+ |-||+++. +++|+.
T Consensus 570 ~~d~~~~~~~l~~YY~~rGWde~-G~Pt~e~L---~~LgL~ 606 (619)
T 1b25_A 570 HLDEKKYDELLSEYYRIRGWDER-GIPKKETL---KELDLD 606 (619)
T ss_dssp CCCHHHHHHHHHHHHHHHTBCTT-SCBCHHHH---HHTTCT
T ss_pred CCCHHHHHHHHHHHHHHCCCCCC-CCCCHHHH---HHCCCH
T ss_conf 68999999999999997398989-94798999---987997
No 13
>3h5j_A 3-isopropylmalate dehydratase small subunit; leucine biosynthesis, isopropylmalate isomerase, LEUD, amino-acid biosynthesis; 1.20A {Mycobacterium tuberculosis} PDB: 3h5h_A 3h5e_A
Probab=22.65 E-value=34 Score=14.51 Aligned_cols=14 Identities=14% Similarity=0.240 Sum_probs=4.5
Q ss_pred HHHCCCCCCCCCCH
Q ss_conf 99828583010784
Q gi|254781076|r 188 IKEKGPSCIHRLTF 201 (209)
Q Consensus 188 i~~~G~~~~HR~Sf 201 (209)
++.+|+-.+.=+||
T Consensus 87 l~~~Gi~aVIA~SF 100 (171)
T 3h5j_A 87 LMDYGFRVVISSRF 100 (171)
T ss_dssp HHHHTCCEEEESSB
T ss_pred HHHCCCCEEEEHHH
T ss_conf 99869789983579
No 14
>2q2k_A Hypothetical protein; protein-DNA, partition, segregation, PARB, DNA binding protein/DNA complex; HET: DNA 5IU EPE; 3.00A {Staphylococcus aureus}
Probab=20.48 E-value=17 Score=16.31 Aligned_cols=25 Identities=24% Similarity=0.529 Sum_probs=15.2
Q ss_pred HCCC-CCCCCCCCCCCH-HH-HHHHHHC
Q ss_conf 7779-881028999998-99-9999982
Q gi|254781076|r 167 KYPD-YGFDSHVGYPTA-KH-QQVIKEK 191 (209)
Q Consensus 167 ~~p~-Ygf~~nkGYgT~-~H-~~ai~~~ 191 (209)
.||+ |+|-.|.--||+ +| ++++++|
T Consensus 35 dypqifdflenvprgtktahirealrry 62 (70)
T 2q2k_A 35 DYPQIFDFLENVPRGTKTAHIREALRRY 62 (70)
T ss_dssp TSHHHHHHHTTSCTTCHHHHHHHHHHHH
T ss_pred HCHHHHHHHHCCCCCCCHHHHHHHHHHH
T ss_conf 0469999997388776308999999999
Done!