Query 026613
Match_columns 236
No_of_seqs 191 out of 1620
Neff 7.8
Searched_HMMs 29240
Date Mon Mar 25 17:46:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/026613.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/026613hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1v9k_A Ribosomal large subunit 100.0 1.4E-44 4.8E-49 305.7 17.8 177 7-235 45-225 (228)
2 1v9f_A Ribosomal large subunit 100.0 3.3E-43 1.1E-47 311.7 17.4 180 6-235 129-312 (325)
3 2i82_A Ribosomal large subunit 100.0 9.7E-43 3.3E-47 292.4 13.9 158 7-224 54-216 (217)
4 2oml_A Ribosomal large subunit 100.0 7.5E-32 2.6E-36 221.6 3.4 125 7-139 43-172 (189)
5 2olw_A Ribosomal large subunit 100.0 6.5E-30 2.2E-34 214.3 5.7 124 7-139 71-200 (217)
6 1ksk_A Ribosomal small subunit 99.9 7.2E-28 2.5E-32 203.9 5.1 111 7-139 97-209 (234)
7 1vio_A Ribosomal small subunit 99.9 5E-27 1.7E-31 199.9 5.9 110 7-138 96-209 (243)
8 2gml_A Ribosomal large subunit 99.9 1.9E-24 6.6E-29 182.5 3.1 107 7-137 46-154 (237)
9 3dh3_A Ribosomal large subunit 99.9 1.4E-22 5E-27 176.2 3.3 110 6-139 98-209 (290)
10 2aus_C Pseudouridine synthase; 53.8 14 0.00049 31.9 4.6 41 8-48 75-115 (334)
11 2apo_A Probable tRNA pseudouri 50.8 17 0.00057 31.9 4.6 41 8-48 95-135 (357)
12 1r3e_A TRNA pseudouridine synt 46.8 22 0.00076 30.4 4.6 41 8-48 32-72 (309)
13 1sgv_A TRNA pseudouridine synt 44.0 26 0.00091 30.0 4.7 40 9-48 36-75 (316)
14 1k8w_A TRNA pseudouridine synt 37.7 22 0.00075 30.7 3.2 39 8-48 54-94 (327)
15 3u28_A H/ACA ribonucleoprotein 30.8 30 0.001 30.7 3.0 43 9-51 89-132 (400)
16 2rod_B NOXA, noxaa; MCL-1, apo 23.6 45 0.0015 17.1 1.6 15 221-235 1-15 (27)
No 1
>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=100.00 E-value=1.4e-44 Score=305.73 Aligned_cols=177 Identities=24% Similarity=0.351 Sum_probs=143.0
Q ss_pred cccccccCCCCcceeeeeecccchh----hhhccCccccEEEEEEeCccCCCceEEEccceeeecCCCceeeEEEEeCCc
Q 026613 7 ASHVYEKCIAVSSGIITVERVMYKD----NDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQ 82 (236)
Q Consensus 7 ~~~~vhRLD~~TSGllLlak~~~~~----~~~~~~~v~K~Y~Alv~G~~~~~~g~i~~~l~~~~~~~~~~~~~~~~~~~~ 82 (236)
.+++|||||++||||||||||.... .+|+++.|+|+|+|+|.|.+++++++|+.||.+.....+. .++.+ .
T Consensus 45 ~~~~VhRLD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K~Y~a~v~G~~~~~~~~i~~~l~~~~~~~g~-~~~~~-~--- 119 (228)
T 1v9k_A 45 FLELVHRLDRDTSGVLLVAKKRSALRSLHEQLREKGMQKDYLALVRGQWQSHVKSVQAPLLKNILQSGE-RIVRV-S--- 119 (228)
T ss_dssp CCEESSCCCTTCEEEEEEESSHHHHHHHHHHHHTTCSEEEEEEEEESCCCTTCCEECCCEEEEECTTSC-EEEEE-C---
T ss_pred ccceEecCCCCCeEEEEEEeCHHHHHHHHHHHHhCCeeEEEEEEEecccCCCCCEEeCceeccCCCCCc-eEEEE-C---
Confidence 4678999999999999999995432 3578899999999999999988889999999876433321 22333 2
Q ss_pred cccccceeeeEEEeeeCCCceEEEEEEeCCCchhHHHHHHhhhCCCceecCCCCCCcccccccccCCCCCccCCCccccc
Q 026613 83 IMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSKDSNEEIPK 162 (236)
Q Consensus 83 ~~~~k~a~T~~~~l~~~~~~~slv~~~~~TGR~HQIR~hla~~lG~PIlGD~~Yg~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (236)
.+++.|.|.|++++.. .++++++|+|.|||+||||+||++ +||||+||.+||....+. .+..
T Consensus 120 -~~gk~a~t~~~vl~~~-~~~slv~~~l~TGR~HQIR~hla~-lG~PI~gD~~YG~~~~~~---------------~~~~ 181 (228)
T 1v9k_A 120 -QEGKPSETRFKVEERY-AFATLVRCSPVTGRTHQIRVHTQY-AGHPIAFDDRYGDREFDR---------------QLTE 181 (228)
T ss_dssp -TTSBCCCEEEEEEEEC-SSEEEEEEEESSCCTTHHHHHHHH-TTCCBTTCTTTSCHHHHH---------------HHHH
T ss_pred -CCCcEEEEEEEEEEEc-CCeEEEEEEECCCCchHHHHHHHH-CCCcEecCcccCCccccc---------------hhhc
Confidence 2479999999999997 779999999999999999999997 999999999999742100 0000
Q ss_pred ccccccccccCcCcccccccccccccccccccCcchhhhhhhcccCCcCCCCceEEEEcCCcHHHHHHHHHhc
Q 026613 163 EKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQAIQKVQLSSGCDVSKLETLKLVAPLPSHMQRSWDVLN 235 (236)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~~l~LHA~~l~~~~p~~~~~~~~~~~~~~~~~~~~~~~~aplP~~~~~~~~~l~ 235 (236)
. .....|++|||++|.|+|| .+++.++|+||+|++|..+++.|+
T Consensus 182 ------~--------~~~~~r~~LHa~~l~f~hP---------------~t~~~~~~~aplp~~~~~~l~~l~ 225 (228)
T 1v9k_A 182 ------A--------GTGLNRLFLHAAALKFTHP---------------GTGEVMRIEAPMDEGLKRCLQKMR 225 (228)
T ss_dssp ------T--------TCCCCSCCEEEEEEEEECT---------------TTCCEEEEECCCCHHHHHHHHHHH
T ss_pred ------c--------cCCCCChhhccceeEeeCC---------------CCCCEEEEEeCCcHHHHHHHHHhh
Confidence 0 0014689999999999998 589999999999999999998875
No 2
>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=100.00 E-value=3.3e-43 Score=311.67 Aligned_cols=180 Identities=26% Similarity=0.382 Sum_probs=143.4
Q ss_pred ccccccccCCCCcceeeeeecccch----hhhhccCccccEEEEEEeCccCCCceEEEccceeeecCCCceeeEEEEeCC
Q 026613 6 TASHVYEKCIAVSSGIITVERVMYK----DNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNND 81 (236)
Q Consensus 6 ~~~~~vhRLD~~TSGllLlak~~~~----~~~~~~~~v~K~Y~Alv~G~~~~~~g~i~~~l~~~~~~~~~~~~~~~~~~~ 81 (236)
...++|||||++||||||||||... ..+|+++.|+|+|+|+|.|.++. +|+|+.||.+... ...++.+..
T Consensus 129 ~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K~Y~a~v~G~~~~-~g~i~~~i~~~~~---~~~~~~v~~-- 202 (325)
T 1v9f_A 129 PRAGIVHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTA-GGTVDEPISRHPT---KRTHMAVHP-- 202 (325)
T ss_dssp GGGGBCCCCCTTCEEEEEEESSHHHHHHHHHHHHTTCSEEEEEEEEESCCCC-CEEEECCEEECSS---CTTCEEECT--
T ss_pred CceeeecCCCCCCeeEEEEEcCHHHHHHHHHHHHcCCeeEEEEEEEeCCCCC-CCEEeeeeeECCC---CCEEEEECC--
Confidence 3578999999999999999999543 23578999999999999999987 8999999987532 123344432
Q ss_pred ccccccceeeeEEEeeeCCCceEEEEEEeCCCchhHHHHHHhhhCCCceecCCCCCCcccccccccCCCCCccCCCcccc
Q 026613 82 QIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSKDSNEEIP 161 (236)
Q Consensus 82 ~~~~~k~a~T~~~~l~~~~~~~slv~~~~~TGR~HQIR~hla~~lG~PIlGD~~Yg~~~~~~~~~~~~~~~~~~~~~~~~ 161 (236)
+++.|.|.|++++.. .++++++|+|.||||||||+||++ +||||+||.+||..... .+...+++.
T Consensus 203 ---~gk~a~t~~~vl~~~-~~~slv~~~l~TGR~HQIRvhla~-lG~PI~GD~~Yg~~~~~----------~~~~~~~~~ 267 (325)
T 1v9f_A 203 ---MGKPAVTHYRIMEHF-RVHTRLRLRLETGRTHQIRVHMAH-ITHPLVGDPVYGGRPRP----------PKGASEAFI 267 (325)
T ss_dssp ---TSBCCEEEEEEEEEC-SSEEEEEEEESCCCTTHHHHHHHH-TTCCBTTCTTTTCCCCC----------CTTCCHHHH
T ss_pred ---CCeeEEEEEEEeEEc-CCeEEEEEEECCCCcHHHHHHHHh-CCCceeCChhhCCcccc----------ccccchhhh
Confidence 479999999999997 789999999999999999999997 99999999999964210 000010000
Q ss_pred cccccccccccCcCcccccccccccccccccccCcchhhhhhhcccCCcCCCCceEEEEcCCcHHHHHHHHHhc
Q 026613 162 KEKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQAIQKVQLSSGCDVSKLETLKLVAPLPSHMQRSWDVLN 235 (236)
Q Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~l~LHA~~l~~~~p~~~~~~~~~~~~~~~~~~~~~~~~aplP~~~~~~~~~l~ 235 (236)
.. ....+|++|||++|.|+|| .+++.+.|+||+|++|..+++.|+
T Consensus 268 ~~--------------~~~~~r~~LHA~~L~f~hP---------------~~~~~~~~~aplp~~~~~~l~~l~ 312 (325)
T 1v9f_A 268 ST--------------LRKFDRQALHATMLRLYHP---------------ISGIEMEWHAPIPQDMVELIEVMR 312 (325)
T ss_dssp HH--------------HHHCCSCSEEEEEEEEECT---------------TTCCEEEEECCCCHHHHHHHHHHH
T ss_pred hh--------------ccCCcChhhheeeeEeeCC---------------CCCCEEEEEecCcHHHHHHHHHhc
Confidence 00 0014689999999999998 589999999999999999998875
No 3
>2i82_A Ribosomal large subunit pseudouridine synthase A; lyase/RNA complex; HET: FOU; 2.05A {Escherichia coli}
Probab=100.00 E-value=9.7e-43 Score=292.41 Aligned_cols=158 Identities=28% Similarity=0.406 Sum_probs=130.7
Q ss_pred cccccccCCCCcceeeeeecccchh----hhhccCccccEEEEEEeCccCCCceEEEccceeeecCCCceeeEEEEeCCc
Q 026613 7 ASHVYEKCIAVSSGIITVERVMYKD----NDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQ 82 (236)
Q Consensus 7 ~~~~vhRLD~~TSGllLlak~~~~~----~~~~~~~v~K~Y~Alv~G~~~~~~g~i~~~l~~~~~~~~~~~~~~~~~~~~ 82 (236)
..++|||||++||||||||||.... .+|+++.|+|+|+|+|.|.++.++|+|+.||.+..... .+..+..
T Consensus 54 ~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~f~~~~v~K~Y~a~v~G~~~~~~g~i~~~l~~~~~~~---~~~~v~~--- 127 (217)
T 2i82_A 54 QAESVHRLDMATSGVIVVALTKAAERELKRQFREREPKKQYVARVWGHPSPAEGLVDLPLICDWPNR---PKQKVCY--- 127 (217)
T ss_dssp TCEESSCCCTTCEEEEEEESSHHHHHHHHHHHHTTCSEEEEEEEEESCCSSSEEEEECCEEECGGGT---TCEEECT---
T ss_pred CCceeecCCCCCeEEEEEEeCHHHHHHHHHHHHhCCeeEEEEEEEecccCCCCcEEecceeecCCCC---cEEEEeC---
Confidence 4679999999999999999995432 36789999999999999999888899999998643211 1222321
Q ss_pred cccccceeeeEEEeeeCCCc-eEEEEEEeCCCchhHHHHHHhhhCCCceecCCCCCCcccccccccCCCCCccCCCcccc
Q 026613 83 IMSAQHAVTRYQVIKPSCHG-YTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQTHRKWKQFHPSDLSKDSNEEIP 161 (236)
Q Consensus 83 ~~~~k~a~T~~~~l~~~~~~-~slv~~~~~TGR~HQIR~hla~~lG~PIlGD~~Yg~~~~~~~~~~~~~~~~~~~~~~~~ 161 (236)
.+++.+.|+|++++.. .+ +++++|+|.|||+||||+||++ +||||+||.+||.....
T Consensus 128 -~~gk~a~t~~~vl~~~-~~~~slv~~~l~TGR~HQIR~hla~-lG~PIvGD~~Yg~~~~~------------------- 185 (217)
T 2i82_A 128 -ETGKPAQTEYEVVEYA-ADNTARVVLKPITGRSHQLRVHMLA-LGHPILGDRFYASPEAR------------------- 185 (217)
T ss_dssp -TTCBCCEEEEEEEEEE-TTTEEEEEEEESSCCTTHHHHHHHH-TTCCBTTCTTTSCHHHH-------------------
T ss_pred -CCCcEEEEEEEEEEEC-CCCeEEEEEEECCCCcHHHHHHHHH-CCCcEECccccCCcccc-------------------
Confidence 2479999999999987 44 8999999999999999999997 99999999999975310
Q ss_pred cccccccccccCcCcccccccccccccccccccCcchhhhhhhcccCCcCCCCceEEEEcCCc
Q 026613 162 KEKTLHFGLDLESGSILEKQPRLHLHCKEMTLPNVSQAIQKVQLSSGCDVSKLETLKLVAPLP 224 (236)
Q Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~l~LHA~~l~~~~p~~~~~~~~~~~~~~~~~~~~~~~~aplP 224 (236)
....|++|||++|+|+|| .+++.+.|+||+|
T Consensus 186 -----------------~~~~r~~LHa~~l~f~hP---------------~~~~~~~~~ap~p 216 (217)
T 2i82_A 186 -----------------AMAPRLLLHAEMLTITHP---------------AYGNSMTFKAPAD 216 (217)
T ss_dssp -----------------HTCSSCCEEEEEEEEECT---------------TTCCEEEEECCCC
T ss_pred -----------------CCCCCceeeeeEeEEcCC---------------CCCCEEEEEecCC
Confidence 003589999999999998 5899999999998
No 4
>2oml_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, thrombin-cleaved, isomerase; 1.20A {Escherichia coli}
Probab=99.97 E-value=7.5e-32 Score=221.55 Aligned_cols=125 Identities=16% Similarity=0.202 Sum_probs=92.0
Q ss_pred cccccccCCCCcceeeeeecccchh--hhhccCccccEEEEEEeCccCCCc-eEEEccceeeecCCCce--eeEEEEeCC
Q 026613 7 ASHVYEKCIAVSSGIITVERVMYKD--NDNEKRILQRWYWALVVGTPRCSK-GVISAPLGKVVVDNGKS--DRITVVNND 81 (236)
Q Consensus 7 ~~~~vhRLD~~TSGllLlak~~~~~--~~~~~~~v~K~Y~Alv~G~~~~~~-g~i~~~l~~~~~~~~~~--~~~~~~~~~ 81 (236)
..++|||||++||||||||||.... +..+++.|+|+|+|+|.|.+++++ +.++.++... ++.. ..+.....
T Consensus 43 ~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~~~~v~K~Y~a~v~G~~~~~~~~~i~~~i~~~---~~~~~~~~~~~~~~- 118 (189)
T 2oml_A 43 GVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLN---DGPTLPAGAELVDE- 118 (189)
T ss_dssp SCEESSCCCTTCEEEEEEESCHHHHHHHHSTTSCCCEEEEEEEESCCCHHHHHHHHHCCEET---TEECCCCEEEEECC-
T ss_pred CceECCCCCCCCeeEEEEEcCHHHHHHHhCccCCCcEEEEEEEcCCCCHHHHHHHHcCceeC---CceeeeeEEEEecc-
Confidence 5689999999999999999995543 333478899999999999987644 3455555421 2111 12222211
Q ss_pred ccccccceeeeEEEeeeCCCceEEEEEEeCCCchhHHHHHHhhhCCCceecCCCCCCc
Q 026613 82 QIMSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQ 139 (236)
Q Consensus 82 ~~~~~k~a~T~~~~l~~~~~~~slv~~~~~TGR~HQIR~hla~~lG~PIlGD~~Yg~~ 139 (236)
....+.|.|+++.....++++++|+|.|||+||||+||++ +||||+||.+||..
T Consensus 119 ---~~~~~~t~~~v~~~~~~~~slv~~~l~TGR~HQIRvhla~-lG~PI~gD~~Y~~g 172 (189)
T 2oml_A 119 ---PAWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAH-VGFPTLRLIRYAMG 172 (189)
T ss_dssp ---CTTCCCCSSCCC-CTTSCEEEEEEEESCCCTTHHHHHHHH-TTCCEEEEEEEEET
T ss_pred ---cccccccccccccccCCCcEEEEEEEeeCCCHHHHHHHHH-cCCcCcceEEEEEC
Confidence 1224578888887753478999999999999999999997 99999999999864
No 5
>2olw_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, isomerase; 1.60A {Escherichia coli}
Probab=99.96 E-value=6.5e-30 Score=214.29 Aligned_cols=124 Identities=17% Similarity=0.231 Sum_probs=86.0
Q ss_pred cccccccCCCCcceeeeeecccchh--hhhccCccccEEEEEEeCccCCCc-eEEEccceeeecCCCc--eeeEEEEeCC
Q 026613 7 ASHVYEKCIAVSSGIITVERVMYKD--NDNEKRILQRWYWALVVGTPRCSK-GVISAPLGKVVVDNGK--SDRITVVNND 81 (236)
Q Consensus 7 ~~~~vhRLD~~TSGllLlak~~~~~--~~~~~~~v~K~Y~Alv~G~~~~~~-g~i~~~l~~~~~~~~~--~~~~~~~~~~ 81 (236)
..++|||||++||||||||||.... +..++++|+|+|+|+|.|.++.+. +.++.++... ++. ...+.+....
T Consensus 71 ~~~~VhRLDr~TSGllllAk~~~~~~~L~~~~~~v~K~Y~A~V~G~~~~~~~~~i~~~i~~~---~g~~~~~~~~~~~~~ 147 (217)
T 2olw_A 71 GVYAAGRLDRDSEGLLVLTNNGALQARLTQPGKRTGKIYYVQVEGIPTQDALEALRNGVTLN---DGPTLPAGAELVDEP 147 (217)
T ss_dssp SCEESSCCCTTCEEEEEEESCHHHHHHHHCTTCCCCEEEEEEEESCCCHHHHHHHHHCCEET---TEECCCCEEEEECCC
T ss_pred CceECCCCCCCCeeEEEEEcCHHHHHHHHcccccCCEEEEEEEccCCCHHHHHHHhCCEEeC---CCcccceEEEEecCC
Confidence 4689999999999999999995443 333478899999999999987644 3455554321 111 1122222211
Q ss_pred ccccccceeeeEEEeeeC-CCceEEEEEEeCCCchhHHHHHHhhhCCCceecCCCCCCc
Q 026613 82 QIMSAQHAVTRYQVIKPS-CHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQ 139 (236)
Q Consensus 82 ~~~~~k~a~T~~~~l~~~-~~~~slv~~~~~TGR~HQIR~hla~~lG~PIlGD~~Yg~~ 139 (236)
..+.+.+.++... ..++++++|+|.|||+||||+||++ +||||+||.+||..
T Consensus 148 -----~~~~~~~~~v~~~~~~~~slv~~~l~TGRtHQIRvhla~-lG~PIvgD~rY~~g 200 (217)
T 2olw_A 148 -----AWLWPRNPPIRERKSIPTSWLKITLYEGRNRQVRRMTAH-VGFPTLRLIRYAMG 200 (217)
T ss_dssp -----TTCCCCSSCCC-CCSSCEEEEEEEESCCCTTHHHHHHHH-TTCCEEEEEEEEET
T ss_pred -----ccccccccceeccCCCCcEEEEEEECcCCCHHHHHHHHH-CCCcEeCCEEEEEC
Confidence 1122222222222 1468999999999999999999997 99999999999864
No 6
>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=99.94 E-value=7.2e-28 Score=203.91 Aligned_cols=111 Identities=15% Similarity=0.121 Sum_probs=82.5
Q ss_pred cccccccCCCCcceeeeeecccc--hhhhhccCccccEEEEEEeCccCCCceEEEccceeeecCCCceeeEEEEeCCccc
Q 026613 7 ASHVYEKCIAVSSGIITVERVMY--KDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIM 84 (236)
Q Consensus 7 ~~~~vhRLD~~TSGllLlak~~~--~~~~~~~~~v~K~Y~Alv~G~~~~~~g~i~~~l~~~~~~~~~~~~~~~~~~~~~~ 84 (236)
..++|||||++||||||||||.. ..+..+++.++|+|+|+|.|.++.. .++.+... +. ... ...
T Consensus 97 ~~~~vhRLD~~TsGlll~ak~~~~~~~l~~~~~~v~K~Y~a~v~g~~~~~--~i~~~~~g----------~~-~~~-~~~ 162 (234)
T 1ksk_A 97 KLHAAGRLDIDTTGLVLMTDDGQWSHRITSPRHHCEKTYLVTLESPVADD--TAEQFAKG----------VQ-LHN-EKD 162 (234)
T ss_dssp GCEESSCCCTTCEEEEEEESCHHHHHHHHCTTSCCCEEEEEEESSCCCTT--HHHHHHHC----------CC-CTT-CSS
T ss_pred CeeEcCCCCCCCeeEEEEEcCHHHHHHHhCCCCCCCeEEEEEEccCCCHH--HHHHHHCC----------eE-ECC-CCc
Confidence 46899999999999999999953 3334468899999999999998764 23332211 00 111 011
Q ss_pred cccceeeeEEEeeeCCCceEEEEEEeCCCchhHHHHHHhhhCCCceecCCCCCCc
Q 026613 85 SAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQ 139 (236)
Q Consensus 85 ~~k~a~T~~~~l~~~~~~~slv~~~~~TGR~HQIR~hla~~lG~PIlGD~~Yg~~ 139 (236)
.++++. |++++ +++++|+|.||||||||+||++ +||||+||.+|+..
T Consensus 163 ~~~~a~--~~~~~-----~s~~~~~l~tGR~HQIR~h~~~-lG~pi~gd~ry~~g 209 (234)
T 1ksk_A 163 LTKPAV--LEVIT-----PTQVRLTISEGRYHQVKRMFAA-VGNHVVELHRERIG 209 (234)
T ss_dssp CCCCCE--EEEEE-----TTEEEEEESCCCTTHHHHHHHH-TTCCEEEEEEEEET
T ss_pred ccceEE--EEEeC-----CeEEEEEEccCCCHHHHHHHHH-cCCeEeeeEEEEEC
Confidence 245554 66664 4799999999999999999997 99999999999654
No 7
>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=99.93 E-value=5e-27 Score=199.85 Aligned_cols=110 Identities=16% Similarity=0.150 Sum_probs=81.8
Q ss_pred cccccccCCCCcceeeeeecccc--hhhhhccCccccEEEEEEeCccCCCceEEEccceeeecCCCceeeEEEEeCCccc
Q 026613 7 ASHVYEKCIAVSSGIITVERVMY--KDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIM 84 (236)
Q Consensus 7 ~~~~vhRLD~~TSGllLlak~~~--~~~~~~~~~v~K~Y~Alv~G~~~~~~g~i~~~l~~~~~~~~~~~~~~~~~~~~~~ 84 (236)
..++|||||++||||||||+|.. ..+..+++.|+|+|+|+|.|.++.. .++.+... +.+ .. ...
T Consensus 96 ~~~~vhRLD~~TsGlll~ak~~~~a~~l~~~~~~v~K~Y~a~v~g~~~~~--~i~~~~~g----------~~~-~~-~~~ 161 (243)
T 1vio_A 96 KLHSAGRLDVDTTGLVLLTDDGQWSHRITSPKHHCEKTYLVTLADPVEEN--YSAACAEG----------ILL-RG-EKE 161 (243)
T ss_dssp GCEESSCCCTTCEEEEEEESCHHHHHHHHCTTSCCCEEEEEEESSCCCTT--HHHHHHHC----------CCC-TT-CSS
T ss_pred CEeEccCCCCCCeEEEEEEECHHHHHHHhCCCCCCCEEEEEEEeCCCCHH--HHHHHhCC----------eEE-CC-CCc
Confidence 46899999999999999999953 3444578899999999999998764 23333211 001 11 011
Q ss_pred cccceeeeEEEeeeCCCceEEEEEEeCCCchhHHHHHHhhhCCCceecCCC--CCC
Q 026613 85 SAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYK--YGW 138 (236)
Q Consensus 85 ~~k~a~T~~~~l~~~~~~~slv~~~~~TGR~HQIR~hla~~lG~PIlGD~~--Yg~ 138 (236)
.+++|. |++++ +++++|+|.||||||||+||++ +||||+||.+ ||.
T Consensus 162 ~~~~a~--~~~l~-----~sl~~~~l~tGR~HQIR~hl~~-lG~pI~gd~r~~~G~ 209 (243)
T 1vio_A 162 PTKPAK--LEILD-----DYNVNLTISEGRYHQVKRMFAA-LGNKVVGLHRWKIGD 209 (243)
T ss_dssp CCCCCE--EEECS-----SSEEEEEESCCCTTHHHHHHHH-TTCCEEEEEEEEETT
T ss_pred cceeEE--EEEeC-----CEEEEEEEccCCcHHHHHHHHH-CCCeEcccEEEEECC
Confidence 245555 55554 4799999999999999999997 9999999995 554
No 8
>2gml_A Ribosomal large subunit pseudouridine synthase F; RLUF, ribosome, RNA modifying enzyme, isomerase; 2.60A {Escherichia coli}
Probab=99.89 E-value=1.9e-24 Score=182.49 Aligned_cols=107 Identities=11% Similarity=0.059 Sum_probs=80.5
Q ss_pred cccccccCCCCcceeeeeecccc--hhhhhccCccccEEEEEEeCccCCCceEEEccceeeecCCCceeeEEEEeCCccc
Q 026613 7 ASHVYEKCIAVSSGIITVERVMY--KDNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQIM 84 (236)
Q Consensus 7 ~~~~vhRLD~~TSGllLlak~~~--~~~~~~~~~v~K~Y~Alv~G~~~~~~g~i~~~l~~~~~~~~~~~~~~~~~~~~~~ 84 (236)
..++|||||++||||||||+|.. ..+..+++.|+|+|+|+|.|.++++. ++. + ..+ +.+ +
T Consensus 46 rl~~VgRLD~dTSGLLLlT~dg~~a~~L~~p~~~v~K~Y~a~V~G~~~~~~--i~~-l-----~~G----v~l-~----- 107 (237)
T 2gml_A 46 RVFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITEEF--IRG-M-----SAG----VPI-L----- 107 (237)
T ss_dssp CCEEESCCCTTCEEEEEEESCHHHHHHHHHHHHHSCEEEEEEESSCCCHHH--HHH-H-----SSC----CEE-T-----
T ss_pred CeeEecCCCCCCeeEEEEEcCHHHHHHHhCccCCCCEEEEEEEcccCCHHH--HHH-H-----HcC----eEe-C-----
Confidence 57899999999999999999954 33455778899999999999986532 111 1 111 111 1
Q ss_pred cccceeeeEEEeeeCCCceEEEEEEeCCCchhHHHHHHhhhCCCceecCCCCC
Q 026613 85 SAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYG 137 (236)
Q Consensus 85 ~~k~a~T~~~~l~~~~~~~slv~~~~~TGR~HQIR~hla~~lG~PIlGD~~Yg 137 (236)
+++.+.+.+++++ .++++|+|.|||+||||+||++ +||||+||..|.
T Consensus 108 ~~~~~~a~~~~l~-----~s~l~i~L~tGR~HQIRr~~a~-lG~pV~~L~R~~ 154 (237)
T 2gml_A 108 GTVTKKCKVKKEA-----PFVFRITLVQGLNRQIRRMCEH-FGYEVKKLERTR 154 (237)
T ss_dssp TEECCCCEEEEEE-----TTEEEEEECCCSTTHHHHHHHH-TTCCEEEEEEEE
T ss_pred CcccccEEEEEeC-----CEEEEEEEecCCcHHHHHHHHH-cCCCEeeeEEEE
Confidence 1344456666664 3689999999999999999997 999999998863
No 9
>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=99.85 E-value=1.4e-22 Score=176.22 Aligned_cols=110 Identities=11% Similarity=0.023 Sum_probs=78.3
Q ss_pred ccccccccCCCCcceeeeeecccch--hhhhccCccccEEEEEEeCccCCCceEEEccceeeecCCCceeeEEEEeCCcc
Q 026613 6 TASHVYEKCIAVSSGIITVERVMYK--DNDNEKRILQRWYWALVVGTPRCSKGVISAPLGKVVVDNGKSDRITVVNNDQI 83 (236)
Q Consensus 6 ~~~~~vhRLD~~TSGllLlak~~~~--~~~~~~~~v~K~Y~Alv~G~~~~~~g~i~~~l~~~~~~~~~~~~~~~~~~~~~ 83 (236)
...++|||||++||||||||+|... .+..+++.|+|+|+|+|.|.++++. ++. +. .+. ..+.
T Consensus 98 ~~~~~VhRLD~dTSGLllla~d~~~~~~L~~~~~~v~K~Y~a~V~G~~~~~~--i~~-l~-----~Gv-----~l~~--- 161 (290)
T 3dh3_A 98 KRVFPIGRLDKDSQGLIFLTNHGDLVNKILRAGNDHEKEYLVTVDKPITEEF--IRG-MS-----AGV-----PILG--- 161 (290)
T ss_dssp SCCEESSCCCTTCEEEEEEESCTTHHHHHHCGGGCCCEEEEEEESSCCCHHH--HHH-HH-----TCC-----BCSS---
T ss_pred CceeeeccCCCCCcceEEEcCCHHHHHHHHHhhCCcCEEEEEEECCCCCHHH--HHH-Hh-----cCc-----ccCC---
Confidence 3578999999999999999999543 3445678899999999999987532 111 10 110 0111
Q ss_pred ccccceeeeEEEeeeCCCceEEEEEEeCCCchhHHHHHHhhhCCCceecCCCCCCc
Q 026613 84 MSAQHAVTRYQVIKPSCHGYTWLKLSPLTGRKHQLRVHCAEVLGTPIVGDYKYGWQ 139 (236)
Q Consensus 84 ~~~k~a~T~~~~l~~~~~~~slv~~~~~TGR~HQIR~hla~~lG~PIlGD~~Yg~~ 139 (236)
+....+.++.+ +.++++|+|.|||+||||+||++ +||||+++..|.-.
T Consensus 162 --~~~~~~~v~~~-----~~~~l~l~l~tGR~HQIR~~~~~-lG~pV~~L~R~~iG 209 (290)
T 3dh3_A 162 --TVTKKCKVKKE-----APFVFRITLVQGLNRQIRRMCEH-FGYEVKKLERTRIM 209 (290)
T ss_dssp --SBCCCCEEEEC-----SSSEEEEEESCCCTTHHHHHHHH-TTCCEEEEEEEEET
T ss_pred --cccceEEEEEc-----CCeEEEEEEeCCCChHHHHHHHH-cCCeEEEeEEEEEC
Confidence 11122233322 34689999999999999999997 99999999988543
No 10
>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=53.77 E-value=14 Score=31.90 Aligned_cols=41 Identities=15% Similarity=-0.067 Sum_probs=28.9
Q ss_pred ccccccCCCCcceeeeeecccchhhhhccCccccEEEEEEe
Q 026613 8 SHVYEKCIAVSSGIITVERVMYKDNDNEKRILQRWYWALVV 48 (236)
Q Consensus 8 ~~~vhRLD~~TSGllLlak~~~~~~~~~~~~v~K~Y~Alv~ 48 (236)
.+-.+-||-..||||+++-+..-.+..--..-.|+|.|.+.
T Consensus 75 vGH~GTLDP~atGvL~v~~g~aTk~~~~l~~~~K~Y~~~~~ 115 (334)
T 2aus_C 75 AGHGGTLDPKVSGVLPVALERATRVVQALLPAGKEYVALMH 115 (334)
T ss_dssp EEESSCCCTTCEEEEEEEEGGGGGGGGGGTTCCEEEEEEEE
T ss_pred eccccccCCccceeEEEEeChhhhhHHHhcccCcEEEEEEE
Confidence 45568899999999999887544332111224799999986
No 11
>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=50.83 E-value=17 Score=31.85 Aligned_cols=41 Identities=12% Similarity=-0.034 Sum_probs=29.0
Q ss_pred ccccccCCCCcceeeeeecccchhhhhccCccccEEEEEEe
Q 026613 8 SHVYEKCIAVSSGIITVERVMYKDNDNEKRILQRWYWALVV 48 (236)
Q Consensus 8 ~~~vhRLD~~TSGllLlak~~~~~~~~~~~~v~K~Y~Alv~ 48 (236)
.+-.+-||-..||||+++-+..-.+..--....|+|.|.+.
T Consensus 95 vGH~GTLDP~AtGvL~v~~G~aTk~~~~l~~~~K~Y~~~~~ 135 (357)
T 2apo_A 95 AGHGGTLDPKVTGVLPVALERATKTIPMWHIPPKEYVCLMH 135 (357)
T ss_dssp EEESSCCCTTCEEEEEEEEGGGGGGGGGTTSSCEEEEEEEE
T ss_pred cccccccCCCceeEEEEEeCHHHhHHHHhccCCcEEEEEEE
Confidence 44567899999999999887544332222236799999986
No 12
>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=46.76 E-value=22 Score=30.42 Aligned_cols=41 Identities=10% Similarity=0.037 Sum_probs=28.2
Q ss_pred ccccccCCCCcceeeeeecccchhhhhccCccccEEEEEEe
Q 026613 8 SHVYEKCIAVSSGIITVERVMYKDNDNEKRILQRWYWALVV 48 (236)
Q Consensus 8 ~~~vhRLD~~TSGllLlak~~~~~~~~~~~~v~K~Y~Alv~ 48 (236)
.+-.+.||-..||||+++-...-.+..--..-.|+|.|.+.
T Consensus 32 vGH~GTLDP~AtGvL~i~iG~aTKl~~~l~~~~K~Y~a~~~ 72 (309)
T 1r3e_A 32 VGHGGTLDPFACGVLIIGVNQGTRILEFYKDLKKVYWVKMR 72 (309)
T ss_dssp EEESSCCCTTCEEEEEEEEGGGGGGGGGGTTSCEEEEEEEE
T ss_pred ecccccCCCCcceeEEEEECHHHhHHHHhCccCcEEEEEEE
Confidence 34467899999999999877543332111124799999886
No 13
>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=44.03 E-value=26 Score=30.05 Aligned_cols=40 Identities=8% Similarity=-0.062 Sum_probs=27.8
Q ss_pred cccccCCCCcceeeeeecccchhhhhccCccccEEEEEEe
Q 026613 9 HVYEKCIAVSSGIITVERVMYKDNDNEKRILQRWYWALVV 48 (236)
Q Consensus 9 ~~vhRLD~~TSGllLlak~~~~~~~~~~~~v~K~Y~Alv~ 48 (236)
+=.+.||-..||||+++-...-.+..--..-.|+|.|.+.
T Consensus 36 GH~GTLDP~AtGvL~i~iG~aTKl~~~l~~~~K~Y~~~~~ 75 (316)
T 1sgv_A 36 GHAGTLDPMATGVLVIGIERATKILGLLTAAPKSYAATIR 75 (316)
T ss_dssp EESSCCCTTCEEEEEEEEGGGGGGGGGTTTSCEEEEEEEE
T ss_pred cccccCCCCCeEEEEEEECHHHhHHHHhCcCCcEEEEEEE
Confidence 4457899999999999877443332111234799999986
No 14
>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=37.71 E-value=22 Score=30.70 Aligned_cols=39 Identities=5% Similarity=-0.058 Sum_probs=27.5
Q ss_pred ccccccCCCCcceeeeeecccchhh--hhccCccccEEEEEEe
Q 026613 8 SHVYEKCIAVSSGIITVERVMYKDN--DNEKRILQRWYWALVV 48 (236)
Q Consensus 8 ~~~vhRLD~~TSGllLlak~~~~~~--~~~~~~v~K~Y~Alv~ 48 (236)
.+-.+.||-..||||+++-...-.+ .+.. -.|+|.|.+.
T Consensus 54 vGH~GTLDP~AtGvL~i~~G~aTKl~~~l~~--~~K~Y~a~~~ 94 (327)
T 1k8w_A 54 AGHTGALDPLATGMLPICLGEATKFSQYLLD--SDKRYRVIAR 94 (327)
T ss_dssp EEESSCCCTTCEEEEEEEEGGGGGGTHHHHT--SCEEEEEEEE
T ss_pred eccCCCCCCCCeeEEEEEECHHHhHHHHhcc--CCcEEEEEEE
Confidence 3446789999999999977643322 1222 2699999886
No 15
>3u28_A H/ACA ribonucleoprotein complex subunit 4; pseudouridine synthase, pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces cerevisiae} PDB: 3uai_A
Probab=30.83 E-value=30 Score=30.72 Aligned_cols=43 Identities=9% Similarity=-0.113 Sum_probs=28.4
Q ss_pred cccccCCCCcceeeeeecccchhhhhccCccccEEEEEEe-Ccc
Q 026613 9 HVYEKCIAVSSGIITVERVMYKDNDNEKRILQRWYWALVV-GTP 51 (236)
Q Consensus 9 ~~vhRLD~~TSGllLlak~~~~~~~~~~~~v~K~Y~Alv~-G~~ 51 (236)
+=.+-||-..||||+++-+..-.+..--..-.|+|.|.+. |..
T Consensus 89 GH~GTLDP~AtGvL~v~iG~aTKl~~~l~~~~K~Y~a~~~lG~~ 132 (400)
T 3u28_A 89 GHSGTLDPKVTGCLIVCIDRATRLVKSQQGAGKEYVCIVRLHDA 132 (400)
T ss_dssp EESSCCCTTCEEEEEEEEGGGGGGHHHHHHSCEEEEEEEEESSC
T ss_pred cccCCCCCCCeEEEEEEEChHHhHhHHhcCCCcEEEEEEEeCCC
Confidence 3456799999999999877443331111124699999885 543
No 16
>2rod_B NOXA, noxaa; MCL-1, apoptosis, BH3-only, BCL-2, cytoplasm, developmental protein, differentiation, membrane, mitochondrion, nucleus, phosphoprotein; NMR {Mus musculus}
Probab=23.56 E-value=45 Score=17.12 Aligned_cols=15 Identities=20% Similarity=0.352 Sum_probs=11.3
Q ss_pred cCCcHHHHHHHHHhc
Q 026613 221 APLPSHMQRSWDVLN 235 (236)
Q Consensus 221 aplP~~~~~~~~~l~ 235 (236)
|.+|+.|..-+++++
T Consensus 1 aelppefaaqlrkig 15 (27)
T 2rod_B 1 AELPPEFAAQLRKIG 15 (27)
T ss_dssp CCCCTHHHHHHHHHH
T ss_pred CCCChHHHHHHHHhC
Confidence 468888888877765
Done!