Query 013857
Match_columns 435
No_of_seqs 131 out of 1268
Neff 3.0
Searched_HMMs 29240
Date Mon Mar 25 18:24:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013857.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/013857hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1sgv_A TRNA pseudouridine synt 100.0 7.6E-45 2.6E-49 355.2 13.4 127 307-434 5-131 (316)
2 1k8w_A TRNA pseudouridine synt 100.0 1.5E-44 5.2E-49 354.3 14.0 135 298-434 15-149 (327)
3 1r3e_A TRNA pseudouridine synt 100.0 5.4E-44 1.8E-48 348.2 14.3 126 307-434 2-127 (309)
4 3u28_A H/ACA ribonucleoprotein 100.0 1.5E-34 5.2E-39 289.9 11.0 107 308-432 59-165 (400)
5 2aus_C Pseudouridine synthase; 100.0 6.3E-34 2.1E-38 278.4 12.0 104 308-430 46-149 (334)
6 2apo_A Probable tRNA pseudouri 100.0 5.4E-34 1.8E-38 282.1 9.2 104 308-430 66-169 (357)
7 1v9k_A Ribosomal large subunit 97.6 3.4E-05 1.2E-09 70.6 4.0 72 310-382 10-93 (228)
8 3dh3_A Ribosomal large subunit 97.3 9.8E-05 3.3E-09 71.0 3.7 66 310-378 68-142 (290)
9 1vio_A Ribosomal small subunit 97.1 9.8E-05 3.3E-09 68.0 0.9 67 311-378 64-139 (243)
10 1ksk_A Ribosomal small subunit 97.0 0.00011 3.8E-09 67.0 0.6 69 309-378 63-140 (234)
11 2i82_A Ribosomal large subunit 97.0 0.00041 1.4E-08 63.0 3.5 71 309-382 19-102 (217)
12 2oml_A Ribosomal large subunit 96.8 0.00024 8.3E-09 63.1 0.7 69 310-378 12-86 (189)
13 1v9f_A Ribosomal large subunit 96.8 0.00071 2.4E-08 64.9 3.8 74 309-383 90-179 (325)
14 2olw_A Ribosomal large subunit 96.8 0.00027 9.2E-09 64.7 0.7 70 309-378 39-114 (217)
15 2gml_A Ribosomal large subunit 96.1 0.0013 4.4E-08 62.2 0.7 68 311-378 16-89 (237)
16 2v9k_A Uncharacterized protein 66.6 4.3 0.00015 42.7 4.2 44 368-430 410-454 (530)
17 1szw_A TRNA pseudouridine synt 57.4 92 0.0032 31.2 11.6 98 311-414 67-174 (379)
No 1
>1sgv_A TRNA pseudouridine synthase B; hinged motion, tRNA modification, structural genomics, PSI, structure initiative; 1.90A {Mycobacterium tuberculosis} SCOP: b.122.1.1 d.265.1.2
Probab=100.00 E-value=7.6e-45 Score=355.17 Aligned_cols=127 Identities=45% Similarity=0.666 Sum_probs=108.3
Q ss_pred CCceEEEEeCCCCCCHHHHHHHHHHhhccceeeccCCCCCCCCeEEEEEecCcccccchhcCCCcEEEEEEEECcccccC
Q 013857 307 PFGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTW 386 (435)
Q Consensus 307 LnGgII~VyKPkGmTS~dVV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGkATKLL~~Ll~~~KeYiatgqLG~aTDT~ 386 (435)
.+| |++||||.|||||+||++||++|+.+||||+|||||+|||||+||+|+|||++++++..+|+|+++++||.+|||+
T Consensus 5 ~~G-il~vdKP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~i~iG~aTKl~~~l~~~~K~Y~~~~~lG~~TdT~ 83 (316)
T 1sgv_A 5 GPG-IVVIDKPAGMTSHDVVGRCRRIFATRRVGHAGTLDPMATGVLVIGIERATKILGLLTAAPKSYAATIRLGQTTSTE 83 (316)
T ss_dssp CSE-EEEEEECTTCCHHHHHHHHHHHTTCSCEEESSCCCTTCEEEEEEEEGGGGGGGGGTTTSCEEEEEEEEETEEETTS
T ss_pred CCe-EEEEECCCCCCHHHHHHHHHHHhccccccccccCCCCCeEEEEEEECHHHhHHHHhCcCCcEEEEEEEECCccCCC
Confidence 456 9999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCeEeeccCCCCCHHHHHHHHHcCccceeeccccccccccCCeec
Q 013857 387 DADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVRVFHF 434 (435)
Q Consensus 387 D~eGkVieksp~~hIT~EkLekaLssFqG~I~QiPP~YSAVKVnGkRL 434 (435)
|.+|+|++++++.|+|.++|+++|++|+|.|+|+||||||+|+||+|+
T Consensus 84 D~eG~v~~~~~~~~~t~~~i~~~l~~f~G~i~Q~PP~ySAvKv~Gkrl 131 (316)
T 1sgv_A 84 DAEGQVLQSVPAKHLTIEAIDAAMERLRGEIRQVPSSVSAIKVGGRRA 131 (316)
T ss_dssp BTTSCEEEECCCTTCCHHHHHHHHHHTCEEC-----------------
T ss_pred CCCCCEEEecCCCCCCHHHHHHHHHhccccEEEeCCHHHhcccCChhH
Confidence 999999999999999999999999999999999999999999999997
No 2
>1k8w_A TRNA pseudouridine synthase B; protein-RNA complex, T stem-loop, lyase/RNA complex; HET: FHU; 1.85A {Escherichia coli} SCOP: b.122.1.1 d.265.1.2 PDB: 1zl3_A* 1r3f_A
Probab=100.00 E-value=1.5e-44 Score=354.28 Aligned_cols=135 Identities=34% Similarity=0.583 Sum_probs=126.4
Q ss_pred CCCCCCcCCCCceEEEEeCCCCCCHHHHHHHHHHhhccceeeccCCCCCCCCeEEEEEecCcccccchhcCCCcEEEEEE
Q 013857 298 TELPPTWDGPFGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVF 377 (435)
Q Consensus 298 ~~~p~~wd~LnGgII~VyKPkGmTS~dVV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGkATKLL~~Ll~~~KeYiatg 377 (435)
.+.+..|+.++| ||+||||.|||||+||++||++++.+||||+|||||+|||||+||+|+|||++++++..+|+|++++
T Consensus 15 ~~~~~~~~~~~G-il~vdKP~G~TS~dvv~~vr~~l~~kKvGH~GTLDP~AtGvL~i~~G~aTKl~~~l~~~~K~Y~a~~ 93 (327)
T 1k8w_A 15 GHIEGRHMDING-VLLLDKPQGMSSNDALQKVKRIYNANRAGHTGALDPLATGMLPICLGEATKFSQYLLDSDKRYRVIA 93 (327)
T ss_dssp -------CCCCE-EEEEEECTTCCHHHHHHHHHHHTTCSCEEESSCCCTTCEEEEEEEEGGGGGGTHHHHTSCEEEEEEE
T ss_pred cccccccCCCCe-EEEEECCCCCCHHHHHHHHHHhhccceeccCCCCCCCCeeEEEEEECHHHhHHHHhccCCcEEEEEE
Confidence 456778888999 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EECcccccCCCCCCeEeeccCCCCCHHHHHHHHHcCccceeeccccccccccCCeec
Q 013857 378 RLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVRVFHF 434 (435)
Q Consensus 378 qLG~aTDT~D~eGkVieksp~~hIT~EkLekaLssFqG~I~QiPP~YSAVKVnGkRL 434 (435)
+||.+|||+|++|+|++++++ ++|.++|+++|++|+|.|+|+||||||+|+||+|+
T Consensus 94 ~lG~~TdT~D~eG~v~~~~~~-~~t~e~i~~~l~~f~G~i~Q~PP~~SAvKv~Gkra 149 (327)
T 1k8w_A 94 RLGQRTDTSDADGQIVEERPV-TFSAEQLAAALDTFRGDIEQIPSMYSALKYQGKKL 149 (327)
T ss_dssp EETEEESSSBTTSCEEEECCC-CCCHHHHHHHHHTTSEEEEECCCSSSCCEETTEEH
T ss_pred EECCcccCCCCCCCEEeecCC-CCCHHHHHHHHHhccceEEEeCChhheeccCCccH
Confidence 999999999999999999999 89999999999999999999999999999999996
No 3
>1r3e_A TRNA pseudouridine synthase B; RNA modification, pseudouridylation, lyase-RNA complex; HET: FHU; 2.10A {Thermotoga maritima} SCOP: b.122.1.1 d.265.1.2 PDB: 1ze2_A* 2ab4_A* 1ze1_A
Probab=100.00 E-value=5.4e-44 Score=348.23 Aligned_cols=126 Identities=40% Similarity=0.627 Sum_probs=123.4
Q ss_pred CCceEEEEeCCCCCCHHHHHHHHHHhhccceeeccCCCCCCCCeEEEEEecCcccccchhcCCCcEEEEEEEECcccccC
Q 013857 307 PFGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTW 386 (435)
Q Consensus 307 LnGgII~VyKPkGmTS~dVV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGkATKLL~~Ll~~~KeYiatgqLG~aTDT~ 386 (435)
++| ||+||||.|||||+||++||++|+.+||||+|||||+|||||+||+|+|||++++++..+|+|+++++||.+|||+
T Consensus 2 ~~G-il~vdKP~G~TS~~vv~~vrr~l~~kKvGH~GTLDP~AtGvL~i~iG~aTKl~~~l~~~~K~Y~a~~~lG~~TdT~ 80 (309)
T 1r3e_A 2 KHG-ILVAYKPKGPTSHDVVDEVRKKLKTRKVGHGGTLDPFACGVLIIGVNQGTRILEFYKDLKKVYWVKMRLGLITETF 80 (309)
T ss_dssp CCE-EEEEEECSSSCHHHHHHHHHHHTTCSCEEESSCCCTTCEEEEEEEEGGGGGGGGGGTTSCEEEEEEEEETEEESSS
T ss_pred CCe-EEEEECCCCCCHHHHHHHHHHHhccceecccccCCCCcceeEEEEECHHHhHHHHhCccCcEEEEEEEECCcccCC
Confidence 467 9999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCeEeeccCCCCCHHHHHHHHHcCccceeeccccccccccCCeec
Q 013857 387 DADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVRVFHF 434 (435)
Q Consensus 387 D~eGkVieksp~~hIT~EkLekaLssFqG~I~QiPP~YSAVKVnGkRL 434 (435)
|.+|+|++++++. +|.++|+++|++|+|.|+|+||||||+|+||+|+
T Consensus 81 D~eG~v~~~~~~~-~t~~~i~~~l~~f~G~i~Q~PP~~SAvKv~Gkra 127 (309)
T 1r3e_A 81 DITGEVVEERECN-VTEEEIREAIFSFVGEYDQVPPAYSAKKYKGERL 127 (309)
T ss_dssp BTTSCEEEECCCC-CCHHHHHHHHHSSSEEEEECCCSSSSCEETTEEH
T ss_pred CCCCCEEEEecCC-CCHHHHHHHHHhccceEEEeCChHHhcccCCccH
Confidence 9999999999997 9999999999999999999999999999999996
No 4
>3u28_A H/ACA ribonucleoprotein complex subunit 4; pseudouridine synthase, pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces cerevisiae} PDB: 3uai_A
Probab=100.00 E-value=1.5e-34 Score=289.93 Aligned_cols=107 Identities=36% Similarity=0.664 Sum_probs=97.1
Q ss_pred CceEEEEeCCCCCCHHHHHHHHHHhhccceeeccCCCCCCCCeEEEEEecCcccccchhcCCCcEEEEEEEECcccccCC
Q 013857 308 FGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWD 387 (435)
Q Consensus 308 nGgII~VyKPkGmTS~dVV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGkATKLL~~Ll~~~KeYiatgqLG~aTDT~D 387 (435)
+| ||+||||.|||||+||++||++|+.+||||+|||||+|||||+||+|+|||++++++..+|+|+|+++||..|+
T Consensus 59 ~G-il~ldKP~G~TS~dvv~~vrr~l~~kKvGH~GTLDP~AtGvL~v~iG~aTKl~~~l~~~~K~Y~a~~~lG~~~~--- 134 (400)
T 3u28_A 59 SG-VINLDKPSNPSSHEVVAWIKRILRCEKTGHSGTLDPKVTGCLIVCIDRATRLVKSQQGAGKEYVCIVRLHDALK--- 134 (400)
T ss_dssp TE-EEEEEECSSSCHHHHHHHHHHHHTCSCEEESSCCCTTCEEEEEEEEGGGGGGHHHHHHSCEEEEEEEEESSCCS---
T ss_pred Cc-EEEEECCCCCCHHHHHHHHHHHhCcCcccccCCCCCCCeEEEEEEEChHHhHhHHhcCCCcEEEEEEEeCCCCC---
Confidence 55 99999999999999999999999999999999999999999999999999999999999999999999998764
Q ss_pred CCCCeEeeccCCCCCHHHHHHHHHcCccceeeccccccccccCCe
Q 013857 388 ADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVRVF 432 (435)
Q Consensus 388 ~eGkVieksp~~hIT~EkLekaLssFqG~I~QiPP~YSAVKVnGk 432 (435)
+.++|+++|++|+|.|+|+||||||+|++.+
T Consensus 135 --------------~~~~i~~~l~~f~G~i~Q~PP~ySAvK~~~R 165 (400)
T 3u28_A 135 --------------DEKDLGRSLENLTGALFQRPPLISAVKRQLR 165 (400)
T ss_dssp --------------STTHHHHHHHHTCEEEEECCC-----CCCCE
T ss_pred --------------CHHHHHHHHHhCcCceEEECCceecccCCce
Confidence 4689999999999999999999999999854
No 5
>2aus_C Pseudouridine synthase; isomerase, structural protein, isomerase-structural protein; 2.10A {Pyrococcus abyssi} PDB: 3lwr_A 3lwo_A* 3lwq_A* 3lwp_A 3lwv_A 3hax_A* 2hvy_A* 3hay_A* 2ey4_A 2rfk_A 3mqk_A 3hjw_A* 3hjy_A
Probab=100.00 E-value=6.3e-34 Score=278.41 Aligned_cols=104 Identities=37% Similarity=0.633 Sum_probs=91.3
Q ss_pred CceEEEEeCCCCCCHHHHHHHHHHhhccceeeccCCCCCCCCeEEEEEecCcccccchhcCCCcEEEEEEEECcccccCC
Q 013857 308 FGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWD 387 (435)
Q Consensus 308 nGgII~VyKPkGmTS~dVV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGkATKLL~~Ll~~~KeYiatgqLG~aTDT~D 387 (435)
+| ||+||||.|||||+||++||++++.+|+||+|||||+|||||+||+|+|||++++++..+|+|+++++||.
T Consensus 46 ~G-il~vdKP~g~tS~~vv~~vr~~~~~~KvGH~GTLDP~atGvL~v~~g~aTk~~~~l~~~~K~Y~~~~~lg~------ 118 (334)
T 2aus_C 46 YG-VINLDKPPGPTSHEVVAWIKRILNLEKAGHGGTLDPKVSGVLPVALERATRVVQALLPAGKEYVALMHLHG------ 118 (334)
T ss_dssp TE-EEEEEECSSSCHHHHHHHHHHHTTCSCEEESSCCCTTCEEEEEEEEGGGGGGGGGGTTCCEEEEEEEEESS------
T ss_pred Cc-EEEEECCCCCCHHHHHHHHHHHhCcceeccccccCCccceeEEEEeChhhhhHHHhcccCcEEEEEEEECC------
Confidence 55 99999999999999999999999999999999999999999999999999999999999999999999994
Q ss_pred CCCCeEeeccCCCCCHHHHHHHHHcCccceeeccccccccccC
Q 013857 388 ADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVR 430 (435)
Q Consensus 388 ~eGkVieksp~~hIT~EkLekaLssFqG~I~QiPP~YSAVKVn 430 (435)
++|.++|+++|++|+|.|+|+||+|||+|+.
T Consensus 119 ------------~~~~~~i~~~l~~f~G~i~Q~pP~~SA~k~~ 149 (334)
T 2aus_C 119 ------------DVPEDKIRAVMKEFEGEIIQRPPLRSAVKRR 149 (334)
T ss_dssp ------------CCCHHHHHHHHHHTSEEEECC----------
T ss_pred ------------CCCHHHHHHHHHhCcCeEEEeCCccccCcCC
Confidence 5789999999999999999999999999964
No 6
>2apo_A Probable tRNA pseudouridine synthase B; protein-protein complex, box H/ACA, snoRNP, pseudouridine synthase, RNA modification; 1.95A {Methanocaldococcus jannaschii} SCOP: b.122.1.1 d.265.1.2
Probab=100.00 E-value=5.4e-34 Score=282.06 Aligned_cols=104 Identities=38% Similarity=0.635 Sum_probs=91.1
Q ss_pred CceEEEEeCCCCCCHHHHHHHHHHhhccceeeccCCCCCCCCeEEEEEecCcccccchhcCCCcEEEEEEEECcccccCC
Q 013857 308 FGTMVLVNKPKGWTSFTVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKATKLVDRYQGMIKGYSGVFRLGEATSTWD 387 (435)
Q Consensus 308 nGgII~VyKPkGmTS~dVV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGkATKLL~~Ll~~~KeYiatgqLG~aTDT~D 387 (435)
+| ||+||||.|||||+||++||++|+.+||||+|||||+|||||+||+|+|||++++++..+|+|+++++||.
T Consensus 66 ~G-il~vdKP~G~TS~~vv~~vr~~l~~~KvGH~GTLDP~AtGvL~v~~G~aTk~~~~l~~~~K~Y~~~~~lG~------ 138 (357)
T 2apo_A 66 YG-VVVVDKPRGPTSHEVSTWVKKILNLDKAGHGGTLDPKVTGVLPVALERATKTIPMWHIPPKEYVCLMHLHR------ 138 (357)
T ss_dssp TE-EEEEEECSSSCHHHHHHHHHHHTTCSCEEESSCCCTTCEEEEEEEEGGGGGGGGGTTSSCEEEEEEEEESS------
T ss_pred Cc-EEEEECCCCCCHHHHHHHHHHHhCccccccccccCCCceeEEEEEeCHHHhHHHHhccCCcEEEEEEEECC------
Confidence 45 99999999999999999999999999999999999999999999999999999999999999999999994
Q ss_pred CCCCeEeeccCCCCCHHHHHHHHHcCccceeeccccccccccC
Q 013857 388 ADSPVIQREPWEHIKDEDIRKAAASFRGEIWQVPPMFSAIKVR 430 (435)
Q Consensus 388 ~eGkVieksp~~hIT~EkLekaLssFqG~I~QiPP~YSAVKVn 430 (435)
++|.++|+++|++|+|.|+|+||+|||+|+.
T Consensus 139 ------------~~~~~~i~~~l~~f~G~i~Q~PP~~SAvK~~ 169 (357)
T 2apo_A 139 ------------DASEEDILRVFKEFTGRIYQRPPLKAAVKRR 169 (357)
T ss_dssp ------------CCCHHHHHHHHHHHSEEEECC----------
T ss_pred ------------CCCHHHHHHHHHhCcccEEEeCCchhhcccc
Confidence 4789999999999999999999999999964
No 7
>1v9k_A Ribosomal large subunit pseudouridine synthase C; pseudouridine syntase, RNA binding, lyase; 2.00A {Escherichia coli} SCOP: d.265.1.3 PDB: 1xpi_A
Probab=97.61 E-value=3.4e-05 Score=70.63 Aligned_cols=72 Identities=26% Similarity=0.403 Sum_probs=55.7
Q ss_pred eEEEEeCCCCCCHH-------HHHHHHHHhhc-cceeeccCCCCCCCCeEEEEEecCc-c-cccchhcC--CCcEEEEEE
Q 013857 310 TMVLVNKPKGWTSF-------TVCGKLRRLVK-VKKVGHAGTLDPMATGLLIVCVGKA-T-KLVDRYQG--MIKGYSGVF 377 (435)
Q Consensus 310 gII~VyKPkGmTS~-------dVV~kIKRiLk-~kKVGHaGTLDP~ASGVLVVgIGkA-T-KLL~~Ll~--~~KeYiatg 377 (435)
.+++||||.|+.++ .++..++..++ ..+++..|.||..+||||+++-+.. . +|...+.. ..|+|.|.+
T Consensus 10 ~~lvvnKP~G~~~~~~~~~~~~l~~~l~~~~~~~~~~~~VhRLD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K~Y~a~v 89 (228)
T 1v9k_A 10 HILVLNKPSGTAVHGGSGLSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALV 89 (228)
T ss_dssp SEEEEEECTTSCSSCCSSSBCCHHHHHHHHSTTCSCCEESSCCCTTCEEEEEEESSHHHHHHHHHHHHTTCSEEEEEEEE
T ss_pred CEEEEECCCCCeEecCCChHHHHHHHHHHHcCCCCccceEecCCCCCeEEEEEEeCHHHHHHHHHHHHhCCeeEEEEEEE
Confidence 38999999999887 47777776655 3578999999999999999998764 3 34454543 679999987
Q ss_pred EECcc
Q 013857 378 RLGEA 382 (435)
Q Consensus 378 qLG~a 382 (435)
. |.-
T Consensus 90 ~-G~~ 93 (228)
T 1v9k_A 90 R-GQW 93 (228)
T ss_dssp E-SCC
T ss_pred e-ccc
Confidence 6 543
No 8
>3dh3_A Ribosomal large subunit pseudouridine synthase F; protein-RNA complex, S4 domain, alpha/beta protein, isomerase, RNA-binding, rRNA processing; HET: FHU; 3.00A {Escherichia coli}
Probab=97.35 E-value=9.8e-05 Score=71.04 Aligned_cols=66 Identities=23% Similarity=0.289 Sum_probs=51.7
Q ss_pred eEEEEeCCCCCCHH-------HHHHHHHHhhccceeeccCCCCCCCCeEEEEEecC--cccccchhcCCCcEEEEEEE
Q 013857 310 TMVLVNKPKGWTSF-------TVCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGK--ATKLVDRYQGMIKGYSGVFR 378 (435)
Q Consensus 310 gII~VyKPkGmTS~-------dVV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGk--ATKLL~~Ll~~~KeYiatgq 378 (435)
.+++||||.|+.|+ .+++.+.. ..++.+.|.||-.+||||+++-+. +.+|..--....|+|.|.+.
T Consensus 68 ~~lvvnKP~G~~~~~~~~~~~tl~~~l~~---~~~~~~VhRLD~dTSGLllla~d~~~~~~L~~~~~~v~K~Y~a~V~ 142 (290)
T 3dh3_A 68 VLIALNKPVGIVSTTEDGERDNIVDFVNH---SKRVFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVD 142 (290)
T ss_dssp CEEEEEECTTCBCCCCSSCTTBHHHHHTC---SSCCEESSCCCTTCEEEEEEESCTTHHHHHHCGGGCCCEEEEEEES
T ss_pred eEEEEECCCccccCCCCCCCCcHHHHhhc---cCceeeeccCCCCCcceEEEcCCHHHHHHHHHhhCCcCEEEEEEEC
Confidence 38999999999876 35555543 457899999999999999999865 45555555568899999875
No 9
>1vio_A Ribosomal small subunit pseudouridine synthase A; structural genomics, lyase; 1.59A {Haemophilus influenzae} SCOP: d.265.1.3 d.66.1.5
Probab=97.11 E-value=9.8e-05 Score=68.04 Aligned_cols=67 Identities=21% Similarity=0.290 Sum_probs=49.3
Q ss_pred EEEEeCCCCCCHHH-------HHHHHHHhhccceeeccCCCCCCCCeEEEEEecC--cccccchhcCCCcEEEEEEE
Q 013857 311 MVLVNKPKGWTSFT-------VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGK--ATKLVDRYQGMIKGYSGVFR 378 (435)
Q Consensus 311 II~VyKPkGmTS~d-------VV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGk--ATKLL~~Ll~~~KeYiatgq 378 (435)
+++||||.|+.++. +++.+...+. .+++..|.||-.+||||+++-+. +.+++..-....|+|.|.+.
T Consensus 64 ~lvvnKP~G~~~~~~~~~~~tl~~~l~~~~~-~~~~~vhRLD~~TsGlll~ak~~~~a~~l~~~~~~v~K~Y~a~v~ 139 (243)
T 1vio_A 64 YFMLNKPQGCVCSNDDGDYPTIYQFFDYPLA-GKLHSAGRLDVDTTGLVLLTDDGQWSHRITSPKHHCEKTYLVTLA 139 (243)
T ss_dssp EEEEEECTTCBSSCCC--CCBGGGGSCTTGG-GGCEESSCCCTTCEEEEEEESCHHHHHHHHCTTSCCCEEEEEEES
T ss_pred EEEEECCCCCEeCCCCCCCCcHHHHHhHHhc-CCEeEccCCCCCCeEEEEEEECHHHHHHHhCCCCCCCEEEEEEEe
Confidence 89999999998762 3333322221 36889999999999999999875 45555544457899999875
No 10
>1ksk_A Ribosomal small subunit pseudouridine synthase A; RSUA, lyase; 2.00A {Escherichia coli} SCOP: d.265.1.3 d.66.1.5 PDB: 1ksl_A 1ksv_A*
Probab=97.04 E-value=0.00011 Score=67.02 Aligned_cols=69 Identities=26% Similarity=0.304 Sum_probs=50.0
Q ss_pred ceEEEEeCCCCCCHHH-------HHHHHHHhhccceeeccCCCCCCCCeEEEEEecC--cccccchhcCCCcEEEEEEE
Q 013857 309 GTMVLVNKPKGWTSFT-------VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGK--ATKLVDRYQGMIKGYSGVFR 378 (435)
Q Consensus 309 GgII~VyKPkGmTS~d-------VV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGk--ATKLL~~Ll~~~KeYiatgq 378 (435)
..+++||||.|+.++. +++.+...+. .+++..|.||-.+||||+++-+. +.+++..-....|+|.|.+.
T Consensus 63 ~~~lvvnKP~G~~~~~~~~~~~tl~~~l~~~~~-~~~~~vhRLD~~TsGlll~ak~~~~~~~l~~~~~~v~K~Y~a~v~ 140 (234)
T 1ksk_A 63 PRYFMLNKPQGYVCSTDDPDHPTVLYFLDEPVA-WKLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLE 140 (234)
T ss_dssp CCEEEEEECTTCBSSSSCSSSCBGGGGCCCTTG-GGCEESSCCCTTCEEEEEEESCHHHHHHHHCTTSCCCEEEEEEES
T ss_pred CEEEEEECCCCCEeCCCCCCCCcHHHHhhhhhc-CCeeEcCCCCCCCeeEEEEEcCHHHHHHHhCCCCCCCeEEEEEEc
Confidence 3489999999998763 3333322222 36889999999999999999875 34555534457899999875
No 11
>2i82_A Ribosomal large subunit pseudouridine synthase A; lyase/RNA complex; HET: FOU; 2.05A {Escherichia coli}
Probab=96.96 E-value=0.00041 Score=63.02 Aligned_cols=71 Identities=25% Similarity=0.417 Sum_probs=51.9
Q ss_pred ceEEEEeCCCCCCHHH---------HHHHHHHhhccceeeccCCCCCCCCeEEEEEecCc--ccccchhcC--CCcEEEE
Q 013857 309 GTMVLVNKPKGWTSFT---------VCGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGKA--TKLVDRYQG--MIKGYSG 375 (435)
Q Consensus 309 GgII~VyKPkGmTS~d---------VV~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGkA--TKLL~~Ll~--~~KeYia 375 (435)
..+++||||.|+-++. +++.++..+ .+++..|.||-.+||||+++-+.. .+|...+.. -.|+|.|
T Consensus 19 ~~~lvvnKP~G~~~~~~~~~~~~~tl~~~l~~~~--~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~f~~~~v~K~Y~a 96 (217)
T 2i82_A 19 DHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDY--PQAESVHRLDMATSGVIVVALTKAAERELKRQFREREPKKQYVA 96 (217)
T ss_dssp SSEEEEEECTTSBSSCCSSGGGCCBHHHHHHHHC--TTCEESSCCCTTCEEEEEEESSHHHHHHHHHHHHTTCSEEEEEE
T ss_pred CCEEEEECCCCCeEeCCCCCCchhHHHHHHHHHC--CCCceeecCCCCCeEEEEEEeCHHHHHHHHHHHHhCCeeEEEEE
Confidence 3489999999997652 555565544 357899999999999999998663 344454443 6799999
Q ss_pred EEEECcc
Q 013857 376 VFRLGEA 382 (435)
Q Consensus 376 tgqLG~a 382 (435)
.+. |.-
T Consensus 97 ~v~-G~~ 102 (217)
T 2i82_A 97 RVW-GHP 102 (217)
T ss_dssp EEE-SCC
T ss_pred EEe-ccc
Confidence 876 543
No 12
>2oml_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, thrombin-cleaved, isomerase; 1.20A {Escherichia coli}
Probab=96.81 E-value=0.00024 Score=63.12 Aligned_cols=69 Identities=25% Similarity=0.231 Sum_probs=48.3
Q ss_pred eEEEEeCCCCCCHHHHH----HHHHHhhccceeeccCCCCCCCCeEEEEEecC-ccc-ccchhcCCCcEEEEEEE
Q 013857 310 TMVLVNKPKGWTSFTVC----GKLRRLVKVKKVGHAGTLDPMATGLLIVCVGK-ATK-LVDRYQGMIKGYSGVFR 378 (435)
Q Consensus 310 gII~VyKPkGmTS~dVV----~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGk-ATK-LL~~Ll~~~KeYiatgq 378 (435)
.+++||||.|+.++.-- ..+...+...++...|.||-.+||||+++-+. +.+ |...-....|+|.|.+.
T Consensus 12 ~~lvvnKP~G~~~~~~~~~~~~tl~~~l~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~v~K~Y~a~v~ 86 (189)
T 2oml_A 12 RVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVE 86 (189)
T ss_dssp CEEEEEECTTBCSCSSCCTTCBCGGGTCCCSSCEESSCCCTTCEEEEEEESCHHHHHHHHSTTSCCCEEEEEEEE
T ss_pred eEEEEECCCCCEecCCCCCCCCCHHHHcCCCCceECCCCCCCCeeEEEEEcCHHHHHHHhCccCCCcEEEEEEEc
Confidence 38999999999776321 11222233346889999999999999999865 333 33333447899999886
No 13
>1v9f_A Ribosomal large subunit pseudouridine synthase D; RNA binding, lyase; 1.70A {Escherichia coli} SCOP: d.265.1.3 PDB: 2ist_A 1qyu_A 1prz_A
Probab=96.79 E-value=0.00071 Score=64.92 Aligned_cols=74 Identities=28% Similarity=0.433 Sum_probs=53.2
Q ss_pred ceEEEEeCCCCCCHH--------HHHHHHHHhhc----cceeeccCCCCCCCCeEEEEEecCc-cc-ccchhcC--CCcE
Q 013857 309 GTMVLVNKPKGWTSF--------TVCGKLRRLVK----VKKVGHAGTLDPMATGLLIVCVGKA-TK-LVDRYQG--MIKG 372 (435)
Q Consensus 309 GgII~VyKPkGmTS~--------dVV~kIKRiLk----~kKVGHaGTLDP~ASGVLVVgIGkA-TK-LL~~Ll~--~~Ke 372 (435)
..+++||||.|+.++ .+++.+...+. ..+++..|.||-.+||||+++-+.. .+ |...+.. ..|+
T Consensus 90 ~~~lvvnKP~G~~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K~ 169 (325)
T 1v9f_A 90 EDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITRE 169 (325)
T ss_dssp SSEEEEEECSSCCSSCBTTBSSSSHHHHHHHHCGGGGGSGGGGBCCCCCTTCEEEEEEESSHHHHHHHHHHHHTTCSEEE
T ss_pred CCEEEEECCCCCeEecCCCCCCccHHHHHHHHHHhcCCCCceeeecCCCCCCeeEEEEEcCHHHHHHHHHHHHcCCeeEE
Confidence 348999999999665 35666654432 3478899999999999999998663 33 3443433 6799
Q ss_pred EEEEEEECccc
Q 013857 373 YSGVFRLGEAT 383 (435)
Q Consensus 373 YiatgqLG~aT 383 (435)
|.|.+. |.-+
T Consensus 170 Y~a~v~-G~~~ 179 (325)
T 1v9f_A 170 YEAVAI-GHMT 179 (325)
T ss_dssp EEEEEE-SCCC
T ss_pred EEEEEe-CCCC
Confidence 999875 5433
No 14
>2olw_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, isomerase; 1.60A {Escherichia coli}
Probab=96.78 E-value=0.00027 Score=64.70 Aligned_cols=70 Identities=24% Similarity=0.227 Sum_probs=49.3
Q ss_pred ceEEEEeCCCCCCHHHH----HHHHHHhhccceeeccCCCCCCCCeEEEEEecC-ccc-ccchhcCCCcEEEEEEE
Q 013857 309 GTMVLVNKPKGWTSFTV----CGKLRRLVKVKKVGHAGTLDPMATGLLIVCVGK-ATK-LVDRYQGMIKGYSGVFR 378 (435)
Q Consensus 309 GgII~VyKPkGmTS~dV----V~kIKRiLk~kKVGHaGTLDP~ASGVLVVgIGk-ATK-LL~~Ll~~~KeYiatgq 378 (435)
..+++||||+|+-++.- ...+...+...++...|.||-.+||||+++-+. +.+ |........|+|.|.+.
T Consensus 39 ~~~lvvnKP~Gl~~~~~~~~~~~tl~~~l~~~~~~~VhRLDr~TSGllllAk~~~~~~~L~~~~~~v~K~Y~A~V~ 114 (217)
T 2olw_A 39 TRVILFNKPYDVLPQFTDEAGRKTLKEFIPVQGVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVE 114 (217)
T ss_dssp CCEEEEEECTTBCSCSSCCTTSBCGGGTCCCCSCEESSCCCTTCEEEEEEESCHHHHHHHHCTTCCCCEEEEEEEE
T ss_pred CcEEEEECCCCCEeccCCCCCCccHHHHhCcCCceECCCCCCCCeeEEEEEcCHHHHHHHHcccccCCEEEEEEEc
Confidence 44899999999987631 112222333347889999999999999999865 333 33333457899999886
No 15
>2gml_A Ribosomal large subunit pseudouridine synthase F; RLUF, ribosome, RNA modifying enzyme, isomerase; 2.60A {Escherichia coli}
Probab=96.07 E-value=0.0013 Score=62.17 Aligned_cols=68 Identities=25% Similarity=0.289 Sum_probs=46.2
Q ss_pred EEEEeCCCCCCHHHH---HHHHHHhhc-cceeeccCCCCCCCCeEEEEEecC-c-ccccchhcCCCcEEEEEEE
Q 013857 311 MVLVNKPKGWTSFTV---CGKLRRLVK-VKKVGHAGTLDPMATGLLIVCVGK-A-TKLVDRYQGMIKGYSGVFR 378 (435)
Q Consensus 311 II~VyKPkGmTS~dV---V~kIKRiLk-~kKVGHaGTLDP~ASGVLVVgIGk-A-TKLL~~Ll~~~KeYiatgq 378 (435)
+|+||||.|+-|+.- ...|...+. ..++...|.||-.+|||||++-.. . .+|..--....|+|.|.+.
T Consensus 16 ~lvlnKPaG~vs~~~~~~~~tv~dll~~~~rl~~VgRLD~dTSGLLLlT~dg~~a~~L~~p~~~v~K~Y~a~V~ 89 (237)
T 2gml_A 16 LIALNKPVGIVSTTEDGERDNIVDFVNHSKRVFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVD 89 (237)
T ss_dssp EEEEEECTTCBCCSSSSCSSBHHHHSCCSSCCEEESCCCTTCEEEEEEESCHHHHHHHHHHHHHSCEEEEEEES
T ss_pred EEEEECCCCCEeCCCCCCCCCHHHHhhccCCeeEecCCCCCCeeEEEEEcCHHHHHHHhCccCCCCEEEEEEEc
Confidence 899999999966521 011222222 247889999999999999987643 2 3344333348899999875
No 16
>2v9k_A Uncharacterized protein FLJ32312; pseudouridine synthase, PUS10, RNA modification, thump domai; HET: EPE; 2.0A {Homo sapiens}
Probab=66.63 E-value=4.3 Score=42.73 Aligned_cols=44 Identities=20% Similarity=0.223 Sum_probs=37.3
Q ss_pred CCCcEEEEEEEECcccccCCCCCCeEeeccCCCCCHHHHHHHHHcCcc-ceeeccccccccccC
Q 013857 368 GMIKGYSGVFRLGEATSTWDADSPVIQREPWEHIKDEDIRKAAASFRG-EIWQVPPMFSAIKVR 430 (435)
Q Consensus 368 ~~~KeYiatgqLG~aTDT~D~eGkVieksp~~hIT~EkLekaLssFqG-~I~QiPP~YSAVKVn 430 (435)
...|+|+|.+.+.. .|+.++|+.+.. |.| .|+|.||.-++.+..
T Consensus 410 ~~~K~Y~alv~~~~------------------~v~~e~l~~~~~-l~~l~I~QrtP~RV~hRR~ 454 (530)
T 2v9k_A 410 EKTKTYSALIWTNK------------------AIQKKDIEFLND-IKDLKIDQKTPLRVLHRRP 454 (530)
T ss_dssp HCCEEEEEEEEESS------------------CCCHHHHGGGGG-CCSEEEEEECCGGGTTTSC
T ss_pred cCCeEEEEEEEEcC------------------CCCHHHHHHHHh-cCCceeeccCCeEEEEecC
Confidence 36899999999874 567899998877 999 999999999887654
No 17
>1szw_A TRNA pseudouridine synthase D; novel fold, RNA modification, TRUD, structural proteomics in europe, spine, structural genomics; 2.00A {Escherichia coli} SCOP: d.265.1.4 PDB: 1si7_A 1sb7_A
Probab=57.40 E-value=92 Score=31.19 Aligned_cols=98 Identities=17% Similarity=0.243 Sum_probs=61.5
Q ss_pred EEEEeCCCCCCHHHHHHHHHHhhcc--ceeeccCCCCCCCCeEEEEEe---cCcccccchhcCCCcEEEEEEEECccc--
Q 013857 311 MVLVNKPKGWTSFTVCGKLRRLVKV--KKVGHAGTLDPMATGLLIVCV---GKATKLVDRYQGMIKGYSGVFRLGEAT-- 383 (435)
Q Consensus 311 II~VyKPkGmTS~dVV~kIKRiLk~--kKVGHaGTLDP~ASGVLVVgI---GkATKLL~~Ll~~~KeYiatgqLG~aT-- 383 (435)
++.|+| .|++..++++.|.+.+++ +.||.+|+-|-.|-=.=-|+| |....-+..+. .... -...++...
T Consensus 67 ~~~l~K-~n~~T~~a~~~Lak~lgi~~~~i~yAGlKDk~AvT~Q~~sv~~p~~~~~~l~~l~-~~~i--~i~~~~~~~~k 142 (379)
T 1szw_A 67 LVRILK-NGCNTRFVADALAKFLKIHAREVSFAGQKDKHAVTEQWLCARVPGKEMPDLSAFQ-LEGC--QVLEYARHKRK 142 (379)
T ss_dssp EEEEEE-SSSCHHHHHHHHHHHTTCCGGGEEESCCCCTTSEEEEEEEEECCSSCCCCGGGCC-CTTE--EEEEEEEESSC
T ss_pred EEEEEE-cCCCHHHHHHHHHHHhCcCHHhEeECccccCCEEEEEEEEEEeCCcChhhHHhcc-cCCe--EEEEEEeecCC
Confidence 566777 799999999999999875 799999999999977666775 34333233222 2222 233333333
Q ss_pred -ccCCCCCCeEe--eccCCCCCHHHHHHHHHcCc
Q 013857 384 -STWDADSPVIQ--REPWEHIKDEDIRKAAASFR 414 (435)
Q Consensus 384 -DT~D~eGkVie--ksp~~hIT~EkLekaLssFq 414 (435)
-..|..|.--. -..+. ..+.|++.|..+.
T Consensus 143 L~lG~L~GN~F~I~LR~v~--~~~~i~~~l~~l~ 174 (379)
T 1szw_A 143 LRLGALKGNAFTLVLREVS--NRDDVEQRLIDIC 174 (379)
T ss_dssp CCTTCCCEEEEEEEEBSCS--CHHHHHHHHHHHH
T ss_pred cCCccCCCCEEEEEEecCC--CHHHHHHHHHHHH
Confidence 34566663222 22332 4677777777653
Done!