Query 011530
Match_columns 483
No_of_seqs 347 out of 2489
Neff 6.7
Searched_HMMs 29240
Date Mon Mar 25 10:02:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011530.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/011530hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1v9f_A Ribosomal large subunit 100.0 1.4E-50 4.9E-55 412.3 21.0 257 110-428 17-299 (325)
2 2i82_A Ribosomal large subunit 100.0 8.6E-43 2.9E-47 335.7 22.2 199 218-472 12-217 (217)
3 1ksk_A Ribosomal small subunit 100.0 1.7E-43 5.9E-48 344.1 15.1 207 108-405 2-209 (234)
4 1v9k_A Ribosomal large subunit 100.0 5.2E-42 1.8E-46 332.6 21.0 192 219-428 3-212 (228)
5 1vio_A Ribosomal small subunit 100.0 3.2E-42 1.1E-46 337.1 15.0 204 110-404 3-209 (243)
6 3dh3_A Ribosomal large subunit 100.0 7.7E-38 2.6E-42 313.0 16.7 203 108-403 5-207 (290)
7 2oml_A Ribosomal large subunit 100.0 7.4E-38 2.5E-42 295.1 9.6 167 217-406 3-173 (189)
8 2olw_A Ribosomal large subunit 100.0 2.4E-36 8.3E-41 290.8 9.7 167 217-406 31-201 (217)
9 2gml_A Ribosomal large subunit 100.0 1.8E-29 6.2E-34 244.9 10.9 142 224-403 13-154 (237)
10 2k6p_A Uncharacterized protein 98.1 4.3E-07 1.5E-11 74.9 0.3 73 111-227 2-83 (92)
11 1p9k_A ORF, hypothetical prote 97.7 6E-06 2.1E-10 66.1 0.1 52 108-202 19-71 (79)
12 1dm9_A Hypothetical 15.5 KD pr 97.6 0.0001 3.5E-09 65.0 7.2 53 109-205 8-61 (133)
13 2vqe_D 30S ribosomal protein S 97.6 2.2E-05 7.7E-10 74.4 2.8 54 109-205 98-152 (209)
14 1c05_A Ribosomal protein S4 de 97.3 0.00041 1.4E-08 62.9 6.6 52 110-204 51-103 (159)
15 2cqj_A BRMS2, U3 small nucleol 97.1 0.00024 8.1E-09 55.8 3.1 50 110-202 8-60 (71)
16 3r8n_D 30S ribosomal protein S 96.8 0.00035 1.2E-08 65.9 2.0 55 109-206 94-149 (205)
17 3hp7_A Hemolysin, putative; st 96.8 0.00094 3.2E-08 66.3 5.1 53 109-204 6-61 (291)
18 3bbn_D Ribosomal protein S4; s 96.8 0.00063 2.1E-08 63.9 3.5 54 110-206 89-143 (201)
19 1k8w_A TRNA pseudouridine synt 96.7 0.002 6.7E-08 64.8 6.1 70 225-307 25-94 (327)
20 2aus_C Pseudouridine synthase; 96.6 0.0021 7.1E-08 65.1 5.5 73 222-307 43-115 (334)
21 1r3e_A TRNA pseudouridine synt 96.5 0.0023 7.9E-08 63.8 5.5 70 225-307 3-72 (309)
22 1sgv_A TRNA pseudouridine synt 96.4 0.0027 9.2E-08 63.5 5.3 71 224-307 5-75 (316)
23 2apo_A Probable tRNA pseudouri 96.4 0.0028 9.6E-08 64.5 5.3 73 222-307 63-135 (357)
24 3j20_D 30S ribosomal protein S 96.3 0.0017 5.7E-08 60.0 2.8 50 110-202 103-155 (180)
25 3u28_A H/ACA ribonucleoprotein 96.2 0.0045 1.5E-07 63.8 5.3 73 222-307 56-128 (400)
26 2xzm_D Ribosomal protein S4 co 96.0 0.0022 7.5E-08 59.3 2.2 50 110-202 107-157 (181)
27 3u5c_J 40S ribosomal protein S 95.0 0.008 2.7E-07 56.1 1.9 49 110-201 107-158 (197)
28 3j20_E 30S ribosomal protein S 94.6 0.14 4.7E-06 49.2 9.4 52 109-203 42-95 (243)
29 3kbg_A 30S ribosomal protein S 93.0 0.11 3.8E-06 48.9 5.3 51 108-201 6-58 (213)
30 3iz6_C 40S ribosomal protein S 90.7 0.0028 9.5E-08 59.1 -8.2 51 111-204 110-161 (195)
31 2xzm_W 40S ribosomal protein S 76.1 6.9 0.00024 37.7 7.7 51 109-202 41-95 (260)
32 3iz6_D 40S ribosomal protein S 72.1 2.8 9.6E-05 40.5 3.9 69 109-230 41-111 (265)
33 1h3f_A Tyrosyl-tRNA synthetase 68.4 7.6 0.00026 40.3 6.6 28 110-137 369-397 (432)
34 3u5c_E RP5, S7, YS6, 40S ribos 68.1 3.5 0.00012 39.8 3.6 51 110-203 42-94 (261)
35 2jan_A Tyrosyl-tRNA synthetase 65.1 10 0.00035 39.3 6.7 27 111-137 357-384 (432)
36 1fm0_D Molybdopterin convertin 60.5 19 0.00065 27.5 6.1 53 107-202 23-75 (81)
37 1jil_A Tyrrs, tyrosyl-tRNA syn 60.2 1.8 6.3E-05 44.8 0.0 27 111-137 354-381 (420)
38 2ktl_A Tyrosyl-tRNA synthetase 46.0 78 0.0027 28.3 8.3 31 109-139 49-80 (164)
39 2ts1_A Tyrosyl-tRNA synthetase 44.3 4.7 0.00016 41.7 0.0 27 111-137 353-380 (419)
40 1tyg_B YJBS; alpha beta barrel 42.0 42 0.0014 26.7 5.3 26 171-202 56-81 (87)
41 1v9k_A Ribosomal large subunit 41.9 14 0.00047 34.6 2.8 27 448-474 187-217 (228)
42 3hvz_A Uncharacterized protein 40.1 18 0.00061 28.3 2.8 24 171-204 45-68 (78)
43 3po0_A Small archaeal modifier 36.2 29 0.00098 27.1 3.5 23 171-203 62-84 (89)
44 2hj1_A Hypothetical protein; s 31.3 12 0.00041 30.6 0.5 23 171-203 62-84 (97)
45 2q5w_D Molybdopterin convertin 31.2 47 0.0016 24.9 3.9 22 171-202 50-71 (77)
46 1wv3_A Similar to DNA segregat 30.8 57 0.002 30.6 5.2 36 171-230 138-174 (238)
47 1v9f_A Ribosomal large subunit 30.2 26 0.00087 34.5 2.8 26 449-474 275-304 (325)
48 2cu3_A Unknown function protei 24.5 66 0.0023 23.4 3.5 26 171-202 33-58 (64)
49 3fm8_A Kinesin-like protein KI 24.1 81 0.0028 26.6 4.5 22 171-202 93-114 (124)
50 2kl0_A Putative thiamin biosyn 22.5 37 0.0013 25.9 1.8 27 171-203 34-60 (73)
51 1rws_A Hypothetical protein PF 20.3 32 0.0011 26.3 1.0 22 171-202 50-71 (77)
No 1
>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=1.4e-50 Score=412.29 Aligned_cols=257 Identities=17% Similarity=0.213 Sum_probs=157.4
Q ss_pred CcHHHHHHhcc-CCCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccC
Q 011530 110 GPVLEYICREL-NLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (483)
Q Consensus 110 ~rl~~~Ls~~l-~~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~ 188 (483)
.||++||++.+ .+||+.++++|+.|.| .|||+.+. +
T Consensus 17 ~RLd~~L~~~~~~~SR~~~~~lI~~G~V----------------------------------~VNG~~v~---------~ 53 (325)
T 1v9f_A 17 QRLDQALAEMFPDYSRSRIKEWILDQRV----------------------------------LVNGKVCD---------K 53 (325)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred chHHHHHHhhccccCHHHHHHHHHCCCE----------------------------------EECCEEcc---------C
Confidence 45559999998 7999999999999999 58998744 4
Q ss_pred CCceecCCCEEEEecCCCCCCcccCCCCCceEEeecCeEEEEeCCCCCccCCCCCCccchHHHHHHHhcc---CCCCCcc
Q 011530 189 VDQIVEAGTYLRVHVHPKRFPRCYDIDWNSRIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALG---LTTPLRT 265 (483)
Q Consensus 189 ~~~~v~~GD~I~v~~~~~~~p~~~~~~~~~~IlyED~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~---~~~~l~~ 265 (483)
+++.|++||.|.+...+.+.......+.++.|+|||++|+|||||+||+||+.......++.+.+...+. ....+++
T Consensus 54 ~~~~v~~gD~I~v~~~~~~~~~~~~~~~~~~ilyed~~~lvvnKP~G~~~~~~~~~~~~tl~~~l~~~~~~~~~~~~~~~ 133 (325)
T 1v9f_A 54 PKEKVLGGEQVAINAEIEEEARFEPQDIPLDIVYEDEDIIIINKPRDLVVHPGAGNPDGTVLNALLHYYPPIADVPRAGI 133 (325)
T ss_dssp ----------------------CCCCCCCCCEEEECSSEEEEEECSSCCSSCBTTBSSSSHHHHHHHHCGGGGGSGGGGB
T ss_pred CCCEeCCCCEEEEeccccccccCCcccCCCeEEEECCCEEEEECCCCCeEecCCCCCCccHHHHHHHHHHhcCCCCceee
Confidence 8899999999999875533221112234578999999999999999999999887767788777754332 1235789
Q ss_pred ccCCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceEEEEEEeccCC-ccceeecccccccCCccccCCeeeeeEEEeecc
Q 011530 266 THQIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKLYLALTTAPLP-VGIMTHYMRPINIAPRLVSEGWYLCQLEVMECK 344 (483)
Q Consensus 266 VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~YlAlV~G~~~-~g~I~~~l~~~~~~~~~v~~g~~~~~~~vl~~~ 344 (483)
|||||++||||||||||+++++.|+++|++++++|+|+|+|.|.++ +|.|+.++....... .+ +.+.
T Consensus 134 vhRLD~~TSGlll~ak~~~~~~~l~~~~~~~~v~K~Y~a~v~G~~~~~g~i~~~i~~~~~~~------~~---~~v~--- 201 (325)
T 1v9f_A 134 VHRLDKDTTGLMVVAKTVPAQTRLVESLQRREITREYEAVAIGHMTAGGTVDEPISRHPTKR------TH---MAVH--- 201 (325)
T ss_dssp CCCCCTTCEEEEEEESSHHHHHHHHHHHHTTCSEEEEEEEEESCCCCCEEEECCEEECSSCT------TC---EEEC---
T ss_pred ecCCCCCCeeEEEEEcCHHHHHHHHHHHHcCCeeEEEEEEEeCCCCCCCEEeeeeeECCCCC------EE---EEEC---
Confidence 9999999999999999999999999999999999999999999887 488887664321110 01 1121
Q ss_pred cCCCCCCccceeEEeeecCCCCCCCeeEEEEEEcCCcchHHHHHHHHcCCCeeecCCCChhh----------------hh
Q 011530 345 KVPWPDATVGKAYSIEDCGWPSRDYAYECKIKLLTGRTHQVRAQLAACGAPIVGDSMYMPAA----------------IA 408 (483)
Q Consensus 345 ~~~~~~~~~~t~~~vl~~~~~~~~~~slv~l~l~TGRtHQIRvHla~lG~PIvGD~~YG~~~----------------~~ 408 (483)
. +.+.+.|.|++++. ....++++|+|.||||||||+||+++||||+||.+||+.. ..
T Consensus 202 --~-~gk~a~t~~~vl~~----~~~~slv~~~l~TGR~HQIRvhla~lG~PI~GD~~Yg~~~~~~~~~~~~~~~~~~~~~ 274 (325)
T 1v9f_A 202 --P-MGKPAVTHYRIMEH----FRVHTRLRLRLETGRTHQIRVHMAHITHPLVGDPVYGGRPRPPKGASEAFISTLRKFD 274 (325)
T ss_dssp --T-TSBCCEEEEEEEEE----CSSEEEEEEEESCCCTTHHHHHHHHTTCCBTTCTTTTCCCCCCTTCCHHHHHHHHHCC
T ss_pred --C-CCeeEEEEEEEeEE----cCCeEEEEEEECCCCcHHHHHHHHhCCCceeCChhhCCccccccccchhhhhhccCCc
Confidence 1 12345689999985 3468999999999999999999999999999999999641 12
Q ss_pred hcC-----CCCCCCCCCceeeEecC
Q 011530 409 QLS-----SPGLNPFGKCQKEYASD 428 (483)
Q Consensus 409 ~~~-----l~f~hP~t~~~~~f~~~ 428 (483)
+++ +.|.||++++.+.|++|
T Consensus 275 r~~LHA~~L~f~hP~~~~~~~~~ap 299 (325)
T 1v9f_A 275 RQALHATMLRLYHPISGIEMEWHAP 299 (325)
T ss_dssp SCSEEEEEEEEECTTTCCEEEEECC
T ss_pred ChhhheeeeEeeCCCCCCEEEEEec
Confidence 333 68999999999999986
No 2
>2i82_A Ribosomal large subunit pseudouridine synthase A; lyase/RNA complex; HET: FOU; 2.05A {Escherichia coli}
Probab=100.00 E-value=8.6e-43 Score=335.75 Aligned_cols=199 Identities=22% Similarity=0.267 Sum_probs=156.3
Q ss_pred ceEEeecCeEEEEeCCCCCccCCCCC-CccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcC
Q 011530 218 SRIIAVTESHVVLDKPAGTSVGGTTD-NIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREK 296 (483)
Q Consensus 218 ~~IlyED~~liVvNKPaGl~v~~~~~-~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~ 296 (483)
+.|+|||++|+|||||+||+||+..+ ...+++.+.+...+ ..+++|||||++||||||||||+++++.|+++|+++
T Consensus 12 ~~ilyed~~~lvvnKP~G~~~~~~~~~~~~~tl~~~l~~~~---~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~f~~~ 88 (217)
T 2i82_A 12 LVILYQDDHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDY---PQAESVHRLDMATSGVIVVALTKAAERELKRQFRER 88 (217)
T ss_dssp CCEEEECSSEEEEEECTTSBSSCCSSGGGCCBHHHHHHHHC---TTCEESSCCCTTCEEEEEEESSHHHHHHHHHHHHTT
T ss_pred ceEEEECCCEEEEECCCCCeEeCCCCCCchhHHHHHHHHHC---CCCceeecCCCCCeEEEEEEeCHHHHHHHHHHHHhC
Confidence 68999999999999999999998764 45678888776654 357899999999999999999999999999999999
Q ss_pred CcceEEEEEEeccCC--ccceeecccccccCCccccCCeeeeeEEEeecccCCCCCCccceeEEeeecCCCCCCCeeEEE
Q 011530 297 KVKKLYLALTTAPLP--VGIMTHYMRPINIAPRLVSEGWYLCQLEVMECKKVPWPDATVGKAYSIEDCGWPSRDYAYECK 374 (483)
Q Consensus 297 ~v~K~YlAlV~G~~~--~g~I~~~l~~~~~~~~~v~~g~~~~~~~vl~~~~~~~~~~~~~t~~~vl~~~~~~~~~~slv~ 374 (483)
+++|+|+|+|.|.++ +|.|+.++...... +.. ..+ . .. ..+.+.|.|++++.. ....++++
T Consensus 89 ~v~K~Y~a~v~G~~~~~~g~i~~~l~~~~~~------~~~---~~v-~---~~-~gk~a~t~~~vl~~~---~~~~slv~ 151 (217)
T 2i82_A 89 EPKKQYVARVWGHPSPAEGLVDLPLICDWPN------RPK---QKV-C---YE-TGKPAQTEYEVVEYA---ADNTARVV 151 (217)
T ss_dssp CSEEEEEEEEESCCSSSEEEEECCEEECGGG------TTC---EEE-C---TT-TCBCCEEEEEEEEEE---TTTEEEEE
T ss_pred CeeEEEEEEEecccCCCCcEEecceeecCCC------CcE---EEE-e---CC-CCcEEEEEEEEEEEC---CCCeEEEE
Confidence 999999999999886 46677665322110 000 011 0 11 224557899999752 22378999
Q ss_pred EEEcCCcchHHHHHHHHcCCCeeecCCCChhhhhhcCCCCCCCCCCceeeEecChhhHHHHHHHHHhcCCCCCcceeEEE
Q 011530 375 IKLLTGRTHQVRAQLAACGAPIVGDSMYMPAAIAQLSSPGLNPFGKCQKEYASDDDKEMAVIEWISQHGMEPSVAIGLQA 454 (483)
Q Consensus 375 l~l~TGRtHQIRvHla~lG~PIvGD~~YG~~~~~~~~l~f~hP~t~~~~~f~~~~~~~~~~~~~l~~h~~e~~~~I~LhA 454 (483)
|+|.||||||||+||+++||||+||.+||+.... .....++|||
T Consensus 152 ~~l~TGR~HQIR~hla~lG~PIvGD~~Yg~~~~~------------------------------------~~~~r~~LHa 195 (217)
T 2i82_A 152 LKPITGRSHQLRVHMLALGHPILGDRFYASPEAR------------------------------------AMAPRLLLHA 195 (217)
T ss_dssp EEESSCCTTHHHHHHHHTTCCBTTCTTTSCHHHH------------------------------------HTCSSCCEEE
T ss_pred EEECCCCcHHHHHHHHHCCCcEECccccCCcccc------------------------------------CCCCCceeee
Confidence 9999999999999999999999999999953210 0113689999
Q ss_pred EEeeec----CcceEEEeCCCc
Q 011530 455 CHISWD----DGECCYEARSPW 472 (483)
Q Consensus 455 ~~~~~~----g~~~~f~a~~P~ 472 (483)
++++|. |+...|++++||
T Consensus 196 ~~l~f~hP~~~~~~~~~ap~p~ 217 (217)
T 2i82_A 196 EMLTITHPAYGNSMTFKAPADF 217 (217)
T ss_dssp EEEEEECTTTCCEEEEECCCCC
T ss_pred eEeEEcCCCCCCEEEEEecCCC
Confidence 999994 567789999986
No 3
>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=100.00 E-value=1.7e-43 Score=344.13 Aligned_cols=207 Identities=14% Similarity=0.217 Sum_probs=163.5
Q ss_pred CCCcHHHHHHhccCCCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeecccccccc
Q 011530 108 EGGPVLEYICRELNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRIT 187 (483)
Q Consensus 108 ~~~rl~~~Ls~~l~~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~ 187 (483)
++.||++||++.+.+||+.++++|+.|.| .|||+.++
T Consensus 2 ~~~RLd~~L~~~~~~SR~~~~~li~~G~V----------------------------------~VNG~~v~--------- 38 (234)
T 1ksk_A 2 SHMRLDKFIAQQLGVSRAIAGREIRGNRV----------------------------------TVDGEIVR--------- 38 (234)
T ss_dssp CCEEHHHHHHHHHTCCHHHHHHHHHTTCE----------------------------------EETTEECC---------
T ss_pred CcccHHHHHHHcCCCCHHHHHHHHHcCeE----------------------------------EECCEEeC---------
Confidence 34578899999888999999999999999 68999875
Q ss_pred CCCceecCCCEEEEecCCCCCCcccCCCCCceEEee-cCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccc
Q 011530 188 HVDQIVEAGTYLRVHVHPKRFPRCYDIDWNSRIIAV-TESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTT 266 (483)
Q Consensus 188 ~~~~~v~~GD~I~v~~~~~~~p~~~~~~~~~~IlyE-D~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~V 266 (483)
++++.|++||.|.+.. ..|+|| |++|+|||||+||+||+.+.. ..++.+++...+. ..+++|
T Consensus 39 ~~~~~v~~gD~I~v~~--------------~~i~~e~d~~~lvvnKP~G~~~~~~~~~-~~tl~~~l~~~~~--~~~~~v 101 (234)
T 1ksk_A 39 NAAFKLLPEHDVAYDG--------------NPLAQQHGPRYFMLNKPQGYVCSTDDPD-HPTVLYFLDEPVA--WKLHAA 101 (234)
T ss_dssp CTTCEECTTCCEEETT--------------EEECCCCCCCEEEEEECTTCBSSSSCSS-SCBGGGGCCCTTG--GGCEES
T ss_pred CCCCCCCCCCEEEEeC--------------eEeecCCCCEEEEEECCCCCEeCCCCCC-CCcHHHHhhhhhc--CCeeEc
Confidence 4889999999998851 258999 999999999999999998764 6677665543321 257899
Q ss_pred cCCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceEEEEEEeccCCccceeecccccccCCccccCCeeeeeEEEeecccC
Q 011530 267 HQIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKLYLALTTAPLPVGIMTHYMRPINIAPRLVSEGWYLCQLEVMECKKV 346 (483)
Q Consensus 267 HRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~YlAlV~G~~~~g~I~~~l~~~~~~~~~v~~g~~~~~~~vl~~~~~ 346 (483)
||||++||||||||||+++++.|.+ ++++++|+|+|+|.|.++...++.+..... +. + ..
T Consensus 102 hRLD~~TsGlll~ak~~~~~~~l~~--~~~~v~K~Y~a~v~g~~~~~~i~~~~~g~~-----~~-~------------~~ 161 (234)
T 1ksk_A 102 GRLDIDTTGLVLMTDDGQWSHRITS--PRHHCEKTYLVTLESPVADDTAEQFAKGVQ-----LH-N------------EK 161 (234)
T ss_dssp SCCCTTCEEEEEEESCHHHHHHHHC--TTSCCCEEEEEEESSCCCTTHHHHHHHCCC-----CT-T------------CS
T ss_pred CCCCCCCeeEEEEEcCHHHHHHHhC--CCCCCCeEEEEEEccCCCHHHHHHHHCCeE-----EC-C------------CC
Confidence 9999999999999999999988865 788999999999999987655543321110 00 0 00
Q ss_pred CCCCCccceeEEeeecCCCCCCCeeEEEEEEcCCcchHHHHHHHHcCCCeeecCCCChh
Q 011530 347 PWPDATVGKAYSIEDCGWPSRDYAYECKIKLLTGRTHQVRAQLAACGAPIVGDSMYMPA 405 (483)
Q Consensus 347 ~~~~~~~~t~~~vl~~~~~~~~~~slv~l~l~TGRtHQIRvHla~lG~PIvGD~~YG~~ 405 (483)
...+ ...|++++ .++++|+|.||||||||+||+++||||+||.+|+..
T Consensus 162 ~~~~---~a~~~~~~--------~s~~~~~l~tGR~HQIR~h~~~lG~pi~gd~ry~~g 209 (234)
T 1ksk_A 162 DLTK---PAVLEVIT--------PTQVRLTISEGRYHQVKRMFAAVGNHVVELHRERIG 209 (234)
T ss_dssp SCCC---CCEEEEEE--------TTEEEEEESCCCTTHHHHHHHHTTCCEEEEEEEEET
T ss_pred cccc---eEEEEEeC--------CeEEEEEEccCCCHHHHHHHHHcCCeEeeeEEEEEC
Confidence 0011 12466664 468999999999999999999999999999999743
No 4
>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=5.2e-42 Score=332.64 Aligned_cols=192 Identities=22% Similarity=0.270 Sum_probs=151.4
Q ss_pred eEEeecCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcCCc
Q 011530 219 RIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREKKV 298 (483)
Q Consensus 219 ~IlyED~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v 298 (483)
.|+|||++|+|||||+||+||++.. ...++...+....+....+++|||||++||||||||||+++++.|+++|+++++
T Consensus 3 ~Ilyed~~~lvvnKP~G~~~~~~~~-~~~~l~~~l~~~~~~~~~~~~VhRLD~~TSGlll~ak~~~~~~~l~~~~~~~~v 81 (228)
T 1v9k_A 3 VIMYEDDHILVLNKPSGTAVHGGSG-LSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVAKKRSALRSLHEQLREKGM 81 (228)
T ss_dssp CEEEECSSEEEEEECTTSCSSCCSS-SBCCHHHHHHHHSTTCSCCEESSCCCTTCEEEEEEESSHHHHHHHHHHHHTTCS
T ss_pred CEEEECCCEEEEECCCCCeEecCCC-hHHHHHHHHHHHcCCCCccceEecCCCCCeEEEEEEeCHHHHHHHHHHHHhCCe
Confidence 6999999999999999999998765 456677776655443345789999999999999999999999999999999999
Q ss_pred ceEEEEEEeccCC--ccceeecccccccCCccccCCeeeeeEEEeecccCCCCCCccceeEEeeecCCCCCCCeeEEEEE
Q 011530 299 KKLYLALTTAPLP--VGIMTHYMRPINIAPRLVSEGWYLCQLEVMECKKVPWPDATVGKAYSIEDCGWPSRDYAYECKIK 376 (483)
Q Consensus 299 ~K~YlAlV~G~~~--~g~I~~~l~~~~~~~~~v~~g~~~~~~~vl~~~~~~~~~~~~~t~~~vl~~~~~~~~~~slv~l~ 376 (483)
+|+|+|+|.|.++ +|.|+.++...... .|... +.+ . . ..+.+.|.|++++. ....++++|+
T Consensus 82 ~K~Y~a~v~G~~~~~~~~i~~~l~~~~~~-----~g~~~--~~~-~----~-~gk~a~t~~~vl~~----~~~~slv~~~ 144 (228)
T 1v9k_A 82 QKDYLALVRGQWQSHVKSVQAPLLKNILQ-----SGERI--VRV-S----Q-EGKPSETRFKVEER----YAFATLVRCS 144 (228)
T ss_dssp EEEEEEEEESCCCTTCCEECCCEEEEECT-----TSCEE--EEE-C----T-TSBCCCEEEEEEEE----CSSEEEEEEE
T ss_pred eEEEEEEEecccCCCCCEEeCceeccCCC-----CCceE--EEE-C----C-CCcEEEEEEEEEEE----cCCeEEEEEE
Confidence 9999999999886 46676554322111 11110 111 1 1 12455789999975 3458899999
Q ss_pred EcCCcchHHHHHHHHcCCCeeecCCCChhh-----------hhhcC-----CCCCCCCCCceeeEecC
Q 011530 377 LLTGRTHQVRAQLAACGAPIVGDSMYMPAA-----------IAQLS-----SPGLNPFGKCQKEYASD 428 (483)
Q Consensus 377 l~TGRtHQIRvHla~lG~PIvGD~~YG~~~-----------~~~~~-----l~f~hP~t~~~~~f~~~ 428 (483)
|.||||||||+||+++||||+||.+||+.. ..+++ +.|.||++++.+.|++|
T Consensus 145 l~TGR~HQIR~hla~lG~PI~gD~~YG~~~~~~~~~~~~~~~~r~~LHa~~l~f~hP~t~~~~~~~ap 212 (228)
T 1v9k_A 145 PVTGRTHQIRVHTQYAGHPIAFDDRYGDREFDRQLTEAGTGLNRLFLHAAALKFTHPGTGEVMRIEAP 212 (228)
T ss_dssp ESSCCTTHHHHHHHHTTCCBTTCTTTSCHHHHHHHHHTTCCCCSCCEEEEEEEEECTTTCCEEEEECC
T ss_pred ECCCCchHHHHHHHHCCCcEecCcccCCccccchhhcccCCCCChhhccceeEeeCCCCCCEEEEEeC
Confidence 999999999999999999999999999742 12333 68999999999999986
No 5
>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=100.00 E-value=3.2e-42 Score=337.11 Aligned_cols=204 Identities=20% Similarity=0.262 Sum_probs=159.0
Q ss_pred CcHHHHHHhccCCCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccCC
Q 011530 110 GPVLEYICRELNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITHV 189 (483)
Q Consensus 110 ~rl~~~Ls~~l~~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~~ 189 (483)
.||++||++.+.+||+.++++|+.|.| .|||+.++ ++
T Consensus 3 ~RLd~~L~~~~~~SR~~~~~lI~~G~V----------------------------------~VNG~~v~---------~~ 39 (243)
T 1vio_A 3 LRLDKFIAENVGLTRSQATKAIRQSAV----------------------------------KINGEIVK---------SG 39 (243)
T ss_dssp EEHHHHHHHHHTCCHHHHHHHHHTTCE----------------------------------EETTEECC---------CT
T ss_pred ccHHHHHHHcCCCCHHHHHHHHHcCcE----------------------------------EECCEEeC---------CC
Confidence 377899999888999999999999999 68999875 48
Q ss_pred CceecCCCEEEEecCCCCCCcccCCCCCceEEeecCe-EEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccC
Q 011530 190 DQIVEAGTYLRVHVHPKRFPRCYDIDWNSRIIAVTES-HVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQ 268 (483)
Q Consensus 190 ~~~v~~GD~I~v~~~~~~~p~~~~~~~~~~IlyED~~-liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHR 268 (483)
++.|.+||.|.+. +..|+|||++ |+|||||+||+|++.+.. ..++.+++...+. ..+++|||
T Consensus 40 ~~~v~~gD~I~v~--------------~~~i~~ed~~~~lvvnKP~G~~~~~~~~~-~~tl~~~l~~~~~--~~~~~vhR 102 (243)
T 1vio_A 40 SVQISQEDEIYFE--------------DELLTWIEEGQYFMLNKPQGCVCSNDDGD-YPTIYQFFDYPLA--GKLHSAGR 102 (243)
T ss_dssp TCEECTTSCEEET--------------TEECCSSCCCCEEEEEECTTCBSSCCC---CCBGGGGSCTTGG--GGCEESSC
T ss_pred CCCcCCCCEEEEe--------------ccccccCCCCEEEEEECCCCCEeCCCCCC-CCcHHHHHhHHhc--CCEeEccC
Confidence 8999999988874 1358999999 999999999999988764 5676665543322 24789999
Q ss_pred CCCCCceEEEEEcCHHHHHHHHHHhhcCCcceEEEEEEeccCCccceeecccccccCCccccCCeeeeeEEEeecccCCC
Q 011530 269 IDNCTEGCVVLARTQEYCSIFHRKIREKKVKKLYLALTTAPLPVGIMTHYMRPINIAPRLVSEGWYLCQLEVMECKKVPW 348 (483)
Q Consensus 269 LDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~YlAlV~G~~~~g~I~~~l~~~~~~~~~v~~g~~~~~~~vl~~~~~~~ 348 (483)
||++||||||||+|++++..+.. +++.++|+|+|+|.|.+++..++.+..+.... .+| ..
T Consensus 103 LD~~TsGlll~ak~~~~a~~l~~--~~~~v~K~Y~a~v~g~~~~~~i~~~~~g~~~~----~~~--------------~~ 162 (243)
T 1vio_A 103 LDVDTTGLVLLTDDGQWSHRITS--PKHHCEKTYLVTLADPVEENYSAACAEGILLR----GEK--------------EP 162 (243)
T ss_dssp CCTTCEEEEEEESCHHHHHHHHC--TTSCCCEEEEEEESSCCCTTHHHHHHHCCCCT----TCS--------------SC
T ss_pred CCCCCeEEEEEEECHHHHHHHhC--CCCCCCEEEEEEEeCCCCHHHHHHHhCCeEEC----CCC--------------cc
Confidence 99999999999999998888854 78899999999999998766555332211000 000 00
Q ss_pred CCCccceeEEeeecCCCCCCCeeEEEEEEcCCcchHHHHHHHHcCCCeeecC--CCCh
Q 011530 349 PDATVGKAYSIEDCGWPSRDYAYECKIKLLTGRTHQVRAQLAACGAPIVGDS--MYMP 404 (483)
Q Consensus 349 ~~~~~~t~~~vl~~~~~~~~~~slv~l~l~TGRtHQIRvHla~lG~PIvGD~--~YG~ 404 (483)
++. ..|++++ .++++|+|.||||||||+||+++||||+||. .||+
T Consensus 163 ~~~---a~~~~l~--------~sl~~~~l~tGR~HQIR~hl~~lG~pI~gd~r~~~G~ 209 (243)
T 1vio_A 163 TKP---AKLEILD--------DYNVNLTISEGRYHQVKRMFAALGNKVVGLHRWKIGD 209 (243)
T ss_dssp CCC---CEEEECS--------SSEEEEEESCCCTTHHHHHHHHTTCCEEEEEEEEETT
T ss_pred cee---EEEEEeC--------CEEEEEEEccCCcHHHHHHHHHCCCeEcccEEEEECC
Confidence 111 2355553 4799999999999999999999999999999 5564
No 6
>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=100.00 E-value=7.7e-38 Score=313.02 Aligned_cols=203 Identities=17% Similarity=0.189 Sum_probs=159.2
Q ss_pred CCCcHHHHHHhccCCCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeecccccccc
Q 011530 108 EGGPVLEYICRELNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRIT 187 (483)
Q Consensus 108 ~~~rl~~~Ls~~l~~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~ 187 (483)
++.||++||++.+.+||+.++++|+.|.| .|||+++.
T Consensus 5 ~g~RLdk~La~~g~~SR~~a~~lI~~G~V----------------------------------~VNG~~v~--------- 41 (290)
T 3dh3_A 5 SSVRLNKYISESGICSRREADRYIEQGNV----------------------------------FLNGKRAT--------- 41 (290)
T ss_dssp CCEEHHHHHHTTTSSCHHHHHHHHHTTCE----------------------------------EETTEECC---------
T ss_pred cchHHHHHHHhCCCCCHHHHHHHHHCCCE----------------------------------EECCEEcc---------
Confidence 45577799999988999999999999999 68999873
Q ss_pred CCCceecCCCEEEEecCCCCCCcccCCCCCceEEeecCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCcccc
Q 011530 188 HVDQIVEAGTYLRVHVHPKRFPRCYDIDWNSRIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTH 267 (483)
Q Consensus 188 ~~~~~v~~GD~I~v~~~~~~~p~~~~~~~~~~IlyED~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VH 267 (483)
+++.|.+||.|.|+..+... ..|||++|+|||||+||+||+.+.. ..++.+++.. ...+++||
T Consensus 42 -~~~~V~~gD~I~v~~~~i~~-----------~~~ed~~~lvvnKP~G~~~~~~~~~-~~tl~~~l~~----~~~~~~Vh 104 (290)
T 3dh3_A 42 -IGDQVKPGDVVKVNGQLIEP-----------REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFVNH----SKRVFPIG 104 (290)
T ss_dssp -TTCEECTTCCEEETTEEECC-----------CCGGGCCEEEEEECTTCBCCCCSSC-TTBHHHHHTC----SSCCEESS
T ss_pred -CCcCcCCCCEEEeccccccc-----------cccccceEEEEECCCccccCCCCCC-CCcHHHHhhc----cCceeeec
Confidence 88999999999997532110 1379999999999999999987755 5677777643 35689999
Q ss_pred CCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceEEEEEEeccCCccceeecccccccCCccccCCeeeeeEEEeecccCC
Q 011530 268 QIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKLYLALTTAPLPVGIMTHYMRPINIAPRLVSEGWYLCQLEVMECKKVP 347 (483)
Q Consensus 268 RLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~YlAlV~G~~~~g~I~~~l~~~~~~~~~v~~g~~~~~~~vl~~~~~~ 347 (483)
|||++||||||||+|+++++.|.+ +.+.++|+|+|+|.|.+++..++....++.. +|.
T Consensus 105 RLD~dTSGLllla~d~~~~~~L~~--~~~~v~K~Y~a~V~G~~~~~~i~~l~~Gv~l------~~~-------------- 162 (290)
T 3dh3_A 105 RLDKDSQGLIFLTNHGDLVNKILR--AGNDHEKEYLVTVDKPITEEFIRGMSAGVPI------LGT-------------- 162 (290)
T ss_dssp CCCTTCEEEEEEESCTTHHHHHHC--GGGCCCEEEEEEESSCCCHHHHHHHHTCCBC------SSS--------------
T ss_pred cCCCCCcceEEEcCCHHHHHHHHH--hhCCcCEEEEEEECCCCCHHHHHHHhcCccc------CCc--------------
Confidence 999999999999999999999977 5778999999999999876554422111111 110
Q ss_pred CCCCccceeEEeeecCCCCCCCeeEEEEEEcCCcchHHHHHHHHcCCCeeecCCCC
Q 011530 348 WPDATVGKAYSIEDCGWPSRDYAYECKIKLLTGRTHQVRAQLAACGAPIVGDSMYM 403 (483)
Q Consensus 348 ~~~~~~~t~~~vl~~~~~~~~~~slv~l~l~TGRtHQIRvHla~lG~PIvGD~~YG 403 (483)
......++++ ..++++|.|+|||+||||+||+++||||+++..|.
T Consensus 163 ---~~~~~~v~~~--------~~~~l~l~l~tGR~HQIR~~~~~lG~pV~~L~R~~ 207 (290)
T 3dh3_A 163 ---VTKKCKVKKE--------APFVFRITLVQGLNRQIRRMCEHFGYEVKKLERTR 207 (290)
T ss_dssp ---BCCCCEEEEC--------SSSEEEEEESCCCTTHHHHHHHHTTCCEEEEEEEE
T ss_pred ---ccceEEEEEc--------CCeEEEEEEeCCCChHHHHHHHHcCCeEEEeEEEE
Confidence 0001122222 24589999999999999999999999999999886
No 7
>2oml_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, thrombin-cleaved, isomerase; 1.20A {Escherichia coli}
Probab=100.00 E-value=7.4e-38 Score=295.14 Aligned_cols=167 Identities=17% Similarity=0.168 Sum_probs=121.3
Q ss_pred CceEEeecCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcC
Q 011530 217 NSRIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREK 296 (483)
Q Consensus 217 ~~~IlyED~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~ 296 (483)
+..|||||++|+|||||+||+||+.+.....++.+++. ...+++|||||++||||||||||+++++.|+++ ++
T Consensus 3 ~~~ilyed~~~lvvnKP~G~~~~~~~~~~~~tl~~~l~-----~~~~~~vhRLD~~TSGlll~ak~~~~~~~l~~~--~~ 75 (189)
T 2oml_A 3 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIP-----VQGVYAAGRLDRDSEGLLVLTNNGALQARLTQP--GK 75 (189)
T ss_dssp -----CCCCCEEEEEECTTBCSCSSCCTTCBCGGGTCC-----CSSCEESSCCCTTCEEEEEEESCHHHHHHHHST--TS
T ss_pred ccccccCCCeEEEEECCCCCEecCCCCCCCCCHHHHcC-----CCCceECCCCCCCCeeEEEEEcCHHHHHHHhCc--cC
Confidence 34799999999999999999999988766667665443 135789999999999999999999999999986 78
Q ss_pred CcceEEEEEEeccCCccc---eeecccccccCCccccCCe-eeeeEEEeecccCCCCCCccceeEEeeecCCCCCCCeeE
Q 011530 297 KVKKLYLALTTAPLPVGI---MTHYMRPINIAPRLVSEGW-YLCQLEVMECKKVPWPDATVGKAYSIEDCGWPSRDYAYE 372 (483)
Q Consensus 297 ~v~K~YlAlV~G~~~~g~---I~~~l~~~~~~~~~v~~g~-~~~~~~vl~~~~~~~~~~~~~t~~~vl~~~~~~~~~~sl 372 (483)
.++|+|+|+|.|.+++.. ++..+ ... +|. ..+.+.... .......|.|.++.. .....++
T Consensus 76 ~v~K~Y~a~v~G~~~~~~~~~i~~~i---~~~-----~~~~~~~~~~~~~-----~~~~~~~t~~~v~~~---~~~~~sl 139 (189)
T 2oml_A 76 RTGKIYYVQVEGIPTQDALEALRNGV---TLN-----DGPTLPAGAELVD-----EPAWLWPRNPPIRER---KSIPTSW 139 (189)
T ss_dssp CCCEEEEEEEESCCCHHHHHHHHHCC---EET-----TEECCCCEEEEEC-----CCTTCCCCSSCCC-C---TTSCEEE
T ss_pred CCcEEEEEEEcCCCCHHHHHHHHcCc---eeC-----CceeeeeEEEEec-----ccccccccccccccc---cCCCcEE
Confidence 899999999999987433 33221 111 111 011122221 111123567777753 1246899
Q ss_pred EEEEEcCCcchHHHHHHHHcCCCeeecCCCChhh
Q 011530 373 CKIKLLTGRTHQVRAQLAACGAPIVGDSMYMPAA 406 (483)
Q Consensus 373 v~l~l~TGRtHQIRvHla~lG~PIvGD~~YG~~~ 406 (483)
++|+|.|||+||||+||+++||||+||.+||...
T Consensus 140 v~~~l~TGR~HQIRvhla~lG~PI~gD~~Y~~g~ 173 (189)
T 2oml_A 140 LKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGD 173 (189)
T ss_dssp EEEEESCCCTTHHHHHHHHTTCCEEEEEEEEETT
T ss_pred EEEEEeeCCCHHHHHHHHHcCCcCcceEEEEECC
Confidence 9999999999999999999999999999998543
No 8
>2olw_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, isomerase; 1.60A {Escherichia coli}
Probab=100.00 E-value=2.4e-36 Score=290.80 Aligned_cols=167 Identities=16% Similarity=0.135 Sum_probs=116.1
Q ss_pred CceEEeecCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcC
Q 011530 217 NSRIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREK 296 (483)
Q Consensus 217 ~~~IlyED~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~ 296 (483)
.+.|||||++|+|||||+||+||+.+.....++.+++. . ..+++|||||++||||||||||+++++.|+++ .+
T Consensus 31 ~~~Ilyed~~~lvvnKP~Gl~~~~~~~~~~~tl~~~l~----~-~~~~~VhRLDr~TSGllllAk~~~~~~~L~~~--~~ 103 (217)
T 2olw_A 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIP----V-QGVYAAGRLDRDSEGLLVLTNNGALQARLTQP--GK 103 (217)
T ss_dssp ------CCCCEEEEEECTTBCSCSSCCTTSBCGGGTCC----C-CSCEESSCCCTTCEEEEEEESCHHHHHHHHCT--TC
T ss_pred cCceEeeCCcEEEEECCCCCEeccCCCCCCccHHHHhC----c-CCceECCCCCCCCeeEEEEEcCHHHHHHHHcc--cc
Confidence 56899999999999999999999987766667655443 1 35789999999999999999999999999986 67
Q ss_pred CcceEEEEEEeccCCccc---eeecccccccCCccccCCe-eeeeEEEeecccCCCCCCccceeEEeeecCCCCCCCeeE
Q 011530 297 KVKKLYLALTTAPLPVGI---MTHYMRPINIAPRLVSEGW-YLCQLEVMECKKVPWPDATVGKAYSIEDCGWPSRDYAYE 372 (483)
Q Consensus 297 ~v~K~YlAlV~G~~~~g~---I~~~l~~~~~~~~~v~~g~-~~~~~~vl~~~~~~~~~~~~~t~~~vl~~~~~~~~~~sl 372 (483)
+++|+|+|+|.|.+++.. ++..+ .. .+|. ..+.+.++... .. ..+.+..+... .....++
T Consensus 104 ~v~K~Y~A~V~G~~~~~~~~~i~~~i---~~-----~~g~~~~~~~~~~~~~-----~~-~~~~~~~v~~~--~~~~~sl 167 (217)
T 2olw_A 104 RTGKIYYVQVEGIPTQDALEALRNGV---TL-----NDGPTLPAGAELVDEP-----AW-LWPRNPPIRER--KSIPTSW 167 (217)
T ss_dssp CCCEEEEEEEESCCCHHHHHHHHHCC---EE-----TTEECCCCEEEEECCC-----TT-CCCCSSCCC-C--CSSCEEE
T ss_pred cCCEEEEEEEccCCCHHHHHHHhCCE---Ee-----CCCcccceEEEEecCC-----cc-ccccccceecc--CCCCcEE
Confidence 899999999999987432 33221 11 0111 11223333210 00 11122111110 1245789
Q ss_pred EEEEEcCCcchHHHHHHHHcCCCeeecCCCChhh
Q 011530 373 CKIKLLTGRTHQVRAQLAACGAPIVGDSMYMPAA 406 (483)
Q Consensus 373 v~l~l~TGRtHQIRvHla~lG~PIvGD~~YG~~~ 406 (483)
++|+|.|||+||||+||+++||||+||.+||...
T Consensus 168 v~~~l~TGRtHQIRvhla~lG~PIvgD~rY~~g~ 201 (217)
T 2olw_A 168 LKITLYEGRNRQVRRMTAHVGFPTLRLIRYAMGD 201 (217)
T ss_dssp EEEEESCCCTTHHHHHHHHTTCCEEEEEEEEETT
T ss_pred EEEEECcCCCHHHHHHHHHCCCcEeCCEEEEECC
Confidence 9999999999999999999999999999998543
No 9
>2gml_A Ribosomal large subunit pseudouridine synthase F; RLUF, ribosome, RNA modifying enzyme, isomerase; 2.60A {Escherichia coli}
Probab=99.96 E-value=1.8e-29 Score=244.87 Aligned_cols=142 Identities=15% Similarity=0.200 Sum_probs=108.7
Q ss_pred cCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceEEE
Q 011530 224 TESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKLYL 303 (483)
Q Consensus 224 D~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~Yl 303 (483)
+++|||+|||+|++|++.+. ...++.+++.. ...+++|||||++||||||||+|++++..|.+ +++.|+|+|+
T Consensus 13 ~~~~lvlnKPaG~vs~~~~~-~~~tv~dll~~----~~rl~~VgRLD~dTSGLLLlT~dg~~a~~L~~--p~~~v~K~Y~ 85 (237)
T 2gml_A 13 DLVLIALNKPVGIVSTTEDG-ERDNIVDFVNH----SKRVFPIGRLDKDSQGLIFLTNHGDLVNKILR--AGNDHEKEYL 85 (237)
T ss_dssp CCCEEEEEECTTCBCCSSSS-CSSBHHHHSCC----SSCCEEESCCCTTCEEEEEEESCHHHHHHHHH--HHHHSCEEEE
T ss_pred CCEEEEEECCCCCEeCCCCC-CCCCHHHHhhc----cCCeeEecCCCCCCeeEEEEEcCHHHHHHHhC--ccCCCCEEEE
Confidence 45699999999999998665 46788776532 24689999999999999999999999999987 5778999999
Q ss_pred EEEeccCCccceeecccccccCCccccCCeeeeeEEEeecccCCCCCCccceeEEeeecCCCCCCCeeEEEEEEcCCcch
Q 011530 304 ALTTAPLPVGIMTHYMRPINIAPRLVSEGWYLCQLEVMECKKVPWPDATVGKAYSIEDCGWPSRDYAYECKIKLLTGRTH 383 (483)
Q Consensus 304 AlV~G~~~~g~I~~~l~~~~~~~~~v~~g~~~~~~~vl~~~~~~~~~~~~~t~~~vl~~~~~~~~~~slv~l~l~TGRtH 383 (483)
|+|.|.+++..++.....+. .++. ....+.++++. .++++|.|.|||+|
T Consensus 86 a~V~G~~~~~~i~~l~~Gv~------l~~~-----------------~~~~a~~~~l~--------~s~l~i~L~tGR~H 134 (237)
T 2gml_A 86 VTVDKPITEEFIRGMSAGVP------ILGT-----------------VTKKCKVKKEA--------PFVFRITLVQGLNR 134 (237)
T ss_dssp EEESSCCCHHHHHHHSSCCE------ETTE-----------------ECCCCEEEEEE--------TTEEEEEECCCSTT
T ss_pred EEEcccCCHHHHHHHHcCeE------eCCc-----------------ccccEEEEEeC--------CEEEEEEEecCCcH
Confidence 99999987554432111110 0010 01123455553 35899999999999
Q ss_pred HHHHHHHHcCCCeeecCCCC
Q 011530 384 QVRAQLAACGAPIVGDSMYM 403 (483)
Q Consensus 384 QIRvHla~lG~PIvGD~~YG 403 (483)
|||+||+++||||+||..|.
T Consensus 135 QIRr~~a~lG~pV~~L~R~~ 154 (237)
T 2gml_A 135 QIRRMCEHFGYEVKKLERTR 154 (237)
T ss_dssp HHHHHHHHTTCCEEEEEEEE
T ss_pred HHHHHHHHcCCCEeeeEEEE
Confidence 99999999999999998763
No 10
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori}
Probab=98.10 E-value=4.3e-07 Score=74.86 Aligned_cols=73 Identities=12% Similarity=0.149 Sum_probs=53.9
Q ss_pred cHHHHHHhccC-CCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccCC
Q 011530 111 PVLEYICRELN-LPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITHV 189 (483)
Q Consensus 111 rl~~~Ls~~l~-~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~~ 189 (483)
||++||++.+. .||+.++++|+.|.| .|||+.++ +
T Consensus 2 RLD~~L~~~~~~~sR~~~~~li~~G~V----------------------------------~VNg~~~~----------~ 37 (92)
T 2k6p_A 2 RIDKFLQSVGLVKRRVLATDMCNVGAV----------------------------------WLNGSCAK----------A 37 (92)
T ss_dssp BHHHHSTTTTSCCCCCSSCCHHHHTCC----------------------------------EETTEECC----------T
T ss_pred hHHHHHHHCCCCCCHHHHHHHHHCCcE----------------------------------EECCEEcC----------C
Confidence 67799998764 488899999999999 68999763 8
Q ss_pred CceecCCCEEEEecCCCCCCccc--------CCCCCceEEeecCeE
Q 011530 190 DQIVEAGTYLRVHVHPKRFPRCY--------DIDWNSRIIAVTESH 227 (483)
Q Consensus 190 ~~~v~~GD~I~v~~~~~~~p~~~--------~~~~~~~IlyED~~l 227 (483)
++.|++||.|.|...+....... .....+.++|||+++
T Consensus 38 ~~~v~~gd~I~v~~~~~~~~~~~~~~~~~~~~~~~~~~~lyed~~~ 83 (92)
T 2k6p_A 38 SKEVKAGDTISLHYLKGIEEYTILQIPALKNVPRKDTHLYIAPKTK 83 (92)
T ss_dssp TCBCCTTCEEEECCSSCCEEEEECCCCCCSCCCSSSTTSSEEECCC
T ss_pred CCCcCCCCEEEEEeCCceEEEEEeccccccCCCHHHHHHHHHhcCC
Confidence 89999999999987654321100 111236788888764
No 11
>1p9k_A ORF, hypothetical protein; alfal motif, RNA-binding protein, E.coli, montreal-kingston structural genomics initiative, BSGI; NMR {Escherichia coli} SCOP: d.66.1.6
Probab=97.68 E-value=6e-06 Score=66.13 Aligned_cols=52 Identities=13% Similarity=-0.007 Sum_probs=43.8
Q ss_pred CCCcHHHHHHhccCC-CHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccc
Q 011530 108 EGGPVLEYICRELNL-PPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRI 186 (483)
Q Consensus 108 ~~~rl~~~Ls~~l~~-Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~ 186 (483)
++.||++||++.+.+ ||++++++|+.|.| +|||++++
T Consensus 19 ~~~RLdk~L~~~g~~~SR~~a~~lI~~G~V----------------------------------~VNG~~v~-------- 56 (79)
T 1p9k_A 19 PHVELCDLLKLEGWSESGAQAKIAIAEGQV----------------------------------KVDGAVET-------- 56 (79)
T ss_dssp SCCCHHHHHHHHTSCSSSSTTSHHHHHHHH----------------------------------EETTBCCC--------
T ss_pred CCchHHHHHHHCCCCCCHHHHHHHHHCCEE----------------------------------EECCEEec--------
Confidence 346788999998654 99999999999999 68998765
Q ss_pred cCCCceecCCCEEEEe
Q 011530 187 THVDQIVEAGTYLRVH 202 (483)
Q Consensus 187 ~~~~~~v~~GD~I~v~ 202 (483)
++++.|.+||.|.+.
T Consensus 57 -~~~~~v~~gd~I~v~ 71 (79)
T 1p9k_A 57 -RKRCKIVAGQTVSFA 71 (79)
T ss_dssp -CSSCCCCSSEEEEET
T ss_pred -CCCCCCCCCCEEEEC
Confidence 588899999988875
No 12
>1dm9_A Hypothetical 15.5 KD protein in MRCA-PCKA intergenic region; heat shock proteins, protein-RNA interactions, ribosome, structural genomics; 2.00A {Escherichia coli} SCOP: d.66.1.3 PDB: 3bbu_A
Probab=97.62 E-value=0.0001 Score=64.97 Aligned_cols=53 Identities=15% Similarity=0.181 Sum_probs=45.1
Q ss_pred CCcHHHHHHhcc-CCCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeecccccccc
Q 011530 109 GGPVLEYICREL-NLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRIT 187 (483)
Q Consensus 109 ~~rl~~~Ls~~l-~~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~ 187 (483)
+.||++||...+ ..||+.++++|..|.| .|||+.+.
T Consensus 8 ~~RLDk~L~~~~~~~SRs~a~~li~~G~V----------------------------------~VNG~~vk--------- 44 (133)
T 1dm9_A 8 EVRLDKWLWAARFYKTRALAREMIEGGKV----------------------------------HYNGQRSK--------- 44 (133)
T ss_dssp CCBHHHHHHHTTSSSSHHHHHHHHHTTCE----------------------------------EETTEECC---------
T ss_pred chhHHHHHHHCCCCCCHHHHHHHHHCCcE----------------------------------EECCEEcC---------
Confidence 456679999875 5799999999999999 68998763
Q ss_pred CCCceecCCCEEEEecCC
Q 011530 188 HVDQIVEAGTYLRVHVHP 205 (483)
Q Consensus 188 ~~~~~v~~GD~I~v~~~~ 205 (483)
+++.|+.||.|.|....
T Consensus 45 -~s~~V~~GD~I~I~~~~ 61 (133)
T 1dm9_A 45 -PSKIVELNATLTLRQGN 61 (133)
T ss_dssp -TTCBCCTTCEEEEEETT
T ss_pred -CCCEeCCCCEEEEEeCC
Confidence 88999999999998654
No 13
>2vqe_D 30S ribosomal protein S4; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.66.1.2 PDB: 1hnw_D* 1hnx_D* 1hnz_D* 1ibk_D* 1fka_D* 1ibm_D 1xmo_D* 1ibl_D* 1xnq_D* 1xnr_D* 1yl4_G 2b64_D* 2b9m_D* 2b9o_D* 2hgi_G 2hgp_G 2hgr_G 2hhh_D* 1xmq_D* 2j02_D* ...
Probab=97.60 E-value=2.2e-05 Score=74.42 Aligned_cols=54 Identities=15% Similarity=0.198 Sum_probs=46.9
Q ss_pred CCcHHHHHHhcc-CCCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeecccccccc
Q 011530 109 GGPVLEYICREL-NLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRIT 187 (483)
Q Consensus 109 ~~rl~~~Ls~~l-~~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~ 187 (483)
+.||++||++.+ ..||+.|+++|..|.| .|||++++
T Consensus 98 e~RLD~~L~~~g~~~SR~~arqLI~~G~V----------------------------------~VNG~~v~--------- 134 (209)
T 2vqe_D 98 ESRLDNVVYRLGFAVSRRQARQLVRHGHI----------------------------------TVNGRRVD--------- 134 (209)
T ss_dssp HTBHHHHHHHTTSSSSHHHHHHHHHTTCE----------------------------------EETTEECC---------
T ss_pred HHHHHHHHHHhcCcCCHHHHHHHHHCCCE----------------------------------EECCEEeC---------
Confidence 368889999886 5799999999999999 68999875
Q ss_pred CCCceecCCCEEEEecCC
Q 011530 188 HVDQIVEAGTYLRVHVHP 205 (483)
Q Consensus 188 ~~~~~v~~GD~I~v~~~~ 205 (483)
++++.|.+||.|.|....
T Consensus 135 ~ps~~V~~gD~I~V~~~~ 152 (209)
T 2vqe_D 135 LPSYRVRPGDEIAVAEKS 152 (209)
T ss_dssp CTTCBCCTTCEEEECGGG
T ss_pred cCCcCcCCCCEEEEcCcc
Confidence 489999999999997543
No 14
>1c05_A Ribosomal protein S4 delta 41; two subdomains, unique topology, possible helix-turn-helix motif, ribosome; NMR {Geobacillus stearothermophilus} SCOP: d.66.1.2 PDB: 1c06_A 1eg0_A 1qd7_C
Probab=97.26 E-value=0.00041 Score=62.94 Aligned_cols=52 Identities=15% Similarity=0.161 Sum_probs=45.8
Q ss_pred CcHHHHHHhcc-CCCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccC
Q 011530 110 GPVLEYICREL-NLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (483)
Q Consensus 110 ~rl~~~Ls~~l-~~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~ 188 (483)
.||+++|.+.+ ..||+.|+++|..|.| .|||++++ +
T Consensus 51 ~RLD~~L~~~g~~~SR~~ar~lI~~G~V----------------------------------~VNG~~v~---------~ 87 (159)
T 1c05_A 51 SRLDNLVYRLGLARTRRQARQLVTHGHI----------------------------------LVDGSRVN---------I 87 (159)
T ss_dssp HBHHHHHHHTTSCSSHHHHHHHHHTTCE----------------------------------EETTEECC---------C
T ss_pred HHHHHHHHHcCCcCCHHHHHHHHHCCCE----------------------------------EECCEEeC---------c
Confidence 57789999886 5799999999999999 68999875 5
Q ss_pred CCceecCCCEEEEecC
Q 011530 189 VDQIVEAGTYLRVHVH 204 (483)
Q Consensus 189 ~~~~v~~GD~I~v~~~ 204 (483)
+++.|.+||.|.|...
T Consensus 88 ps~~V~~gD~I~V~~~ 103 (159)
T 1c05_A 88 PSYRVKPGQTIAVREK 103 (159)
T ss_dssp SSCBCCTTCEEEECGG
T ss_pred CCcEeCCCCEEEEeCc
Confidence 8999999999999764
No 15
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog; S4 domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=97.13 E-value=0.00024 Score=55.76 Aligned_cols=50 Identities=8% Similarity=0.023 Sum_probs=42.7
Q ss_pred CcHHHHHHhccCC-CHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccC
Q 011530 110 GPVLEYICRELNL-PPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (483)
Q Consensus 110 ~rl~~~Ls~~l~~-Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~ 188 (483)
.||+.+|.+.+-+ ||+.|+++|..|.| .|||++++ +
T Consensus 8 ~RLD~~l~~~gla~SR~~A~~lI~~G~V----------------------------------~Vng~~v~---------k 44 (71)
T 2cqj_A 8 RRLPTVLLKLRMAQHLQAAVAFVEQGHV----------------------------------RVGPDVVT---------D 44 (71)
T ss_dssp EEHHHHHHHTTCSSSHHHHHHHHHTTCE----------------------------------EETTBCCC---------C
T ss_pred HHHHHHHHHhCCcCCHHHHHHHHHCCcE----------------------------------EECCEEEC---------C
Confidence 4788999999875 99999999999999 68998876 5
Q ss_pred CCceecC--CCEEEEe
Q 011530 189 VDQIVEA--GTYLRVH 202 (483)
Q Consensus 189 ~~~~v~~--GD~I~v~ 202 (483)
|++.|.+ +|.|.+.
T Consensus 45 ps~~V~~~~~d~I~~~ 60 (71)
T 2cqj_A 45 PAFLVTRSMEDFVTWV 60 (71)
T ss_dssp TTCEEEHHHHTTEEES
T ss_pred CCCCCCCCCCcEEEEE
Confidence 9999998 6777653
No 16
>3r8n_D 30S ribosomal protein S4; protein biosynthesis, RNA, tRNA, transfer RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia coli} PDB: 1p6g_D 1p87_D 2aw7_D 2avy_D 2i2u_D 2i2p_D* 2qan_D* 2qb9_D* 2qbb_D* 2qbd_D 2qbf_D 2qbh_D* 2qbj_D* 2qou_D* 2qow_D* 2qoy_D* 2qp0_D* 2vho_D 2vhp_D 2wwl_D* ...
Probab=96.83 E-value=0.00035 Score=65.85 Aligned_cols=55 Identities=15% Similarity=0.180 Sum_probs=46.6
Q ss_pred CCcHHHHHHhcc-CCCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeecccccccc
Q 011530 109 GGPVLEYICREL-NLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRIT 187 (483)
Q Consensus 109 ~~rl~~~Ls~~l-~~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~ 187 (483)
+.|||+||++.+ ..||+.|+++|..|.| .|||++++
T Consensus 94 e~RLD~~L~r~g~~~SR~~ArqLI~~G~V----------------------------------~VNG~~V~--------- 130 (205)
T 3r8n_D 94 EGRLDNVVYRMGFGATRAEARQLVSHKAI----------------------------------MVNGRVVN--------- 130 (205)
T ss_dssp HTBTTHHHHTTSSCSSHHHHHHHHHTTCC----------------------------------BSSSSBCC---------
T ss_pred HhhHHHHHHHhcchhHHHHHHHHHHCCCE----------------------------------EECCEEEc---------
Confidence 357789999875 6799999999999999 68998875
Q ss_pred CCCceecCCCEEEEecCCC
Q 011530 188 HVDQIVEAGTYLRVHVHPK 206 (483)
Q Consensus 188 ~~~~~v~~GD~I~v~~~~~ 206 (483)
.+++.|++||.|.|.....
T Consensus 131 ~ps~~Vk~GD~I~V~~~~~ 149 (205)
T 3r8n_D 131 IASYQVSPNDVVSIREKAK 149 (205)
T ss_dssp CTTCBCCTTBCCBCCSSSC
T ss_pred cCCcCcCCCCEEEecCchh
Confidence 5999999999999875543
No 17
>3hp7_A Hemolysin, putative; structural genomics, APC64019, PSI-2, protein STR initiative, midwest center for structural genomics, MCSG; HET: MSE; 1.53A {Streptococcus thermophilus}
Probab=96.81 E-value=0.00094 Score=66.34 Aligned_cols=53 Identities=11% Similarity=-0.069 Sum_probs=44.7
Q ss_pred CCcHHHHHHhccC-CCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCC-E-EEeecccccc
Q 011530 109 GGPVLEYICRELN-LPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKG-K-TVREAQKTFR 185 (483)
Q Consensus 109 ~~rl~~~Ls~~l~-~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnG-k-~v~~~q~~~r 185 (483)
..||++||++.+. .||++|+++|..|.| .||| + +++
T Consensus 6 ~~RLD~~L~~~g~~~SR~~a~~lI~~G~V----------------------------------~Vng~~~~v~------- 44 (291)
T 3hp7_A 6 KERVDVLAYKQGLFETREQAKRGVMAGLV----------------------------------VNVINGERYD------- 44 (291)
T ss_dssp EEEHHHHHHHTTSSSSHHHHHHHHHTTCE----------------------------------EETTTCCBCC-------
T ss_pred hhhHHHHHHHcCCcccHHHHHHHHHCCeE----------------------------------EECCeEEEEc-------
Confidence 3577899999864 699999999999999 5889 7 655
Q ss_pred ccCCCceecCCCEEEEecC
Q 011530 186 ITHVDQIVEAGTYLRVHVH 204 (483)
Q Consensus 186 ~~~~~~~v~~GD~I~v~~~ 204 (483)
++++.|.+||.|.|...
T Consensus 45 --kp~~~V~~~d~I~v~g~ 61 (291)
T 3hp7_A 45 --KPGEKIDDGTELKLKGE 61 (291)
T ss_dssp --CTTCEEETTCCEEETTC
T ss_pred --cCCCCCCCCCEEEEccc
Confidence 58999999999988743
No 18
>3bbn_D Ribosomal protein S4; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=96.80 E-value=0.00063 Score=63.95 Aligned_cols=54 Identities=9% Similarity=-0.026 Sum_probs=45.9
Q ss_pred CcHHHHHHhccC-CCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccC
Q 011530 110 GPVLEYICRELN-LPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (483)
Q Consensus 110 ~rl~~~Ls~~l~-~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~ 188 (483)
.|||.+|.+.+. .||+.|+++|..|.| .|||++|+ .
T Consensus 89 ~RLD~~L~r~g~a~SR~~ArqLI~~G~V----------------------------------~VNG~~V~---------~ 125 (201)
T 3bbn_D 89 MRLDNILFRLGMAPTIPGARQLVNHRHI----------------------------------LVNGRIVD---------I 125 (201)
T ss_dssp SBTTTTTTTTTSSSSSHHHHHHHHTTCE----------------------------------EETTEECC---------C
T ss_pred HHHHHHHHHcCCcCCHHHHHHHHhCCcE----------------------------------EeCCEEEe---------e
Confidence 467789988764 699999999999999 68999886 5
Q ss_pred CCceecCCCEEEEecCCC
Q 011530 189 VDQIVEAGTYLRVHVHPK 206 (483)
Q Consensus 189 ~~~~v~~GD~I~v~~~~~ 206 (483)
|++.|.+||.|.|.....
T Consensus 126 pS~~V~~gD~I~V~~~~r 143 (201)
T 3bbn_D 126 PSYRCKPQDTIMARDEQK 143 (201)
T ss_dssp TTCBCCTTEEEEECSSTT
T ss_pred cceecCCCCEEEEccccc
Confidence 999999999999975443
No 19
>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=96.66 E-value=0.002 Score=64.81 Aligned_cols=70 Identities=19% Similarity=0.266 Sum_probs=54.6
Q ss_pred CeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceEEEE
Q 011530 225 ESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKLYLA 304 (483)
Q Consensus 225 ~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~YlA 304 (483)
+.+++||||.||.++ .+...+++.++. .++.-.+.||-..||||+++-...+ ++...+.+ -.|+|.|
T Consensus 25 ~Gil~vdKP~G~TS~--------dvv~~vr~~l~~-kKvGH~GTLDP~AtGvL~i~~G~aT--Kl~~~l~~--~~K~Y~a 91 (327)
T 1k8w_A 25 NGVLLLDKPQGMSSN--------DALQKVKRIYNA-NRAGHTGALDPLATGMLPICLGEAT--KFSQYLLD--SDKRYRV 91 (327)
T ss_dssp CEEEEEEECTTCCHH--------HHHHHHHHHTTC-SCEEESSCCCTTCEEEEEEEEGGGG--GGTHHHHT--SCEEEEE
T ss_pred CeEEEEECCCCCCHH--------HHHHHHHHhhcc-ceeccCCCCCCCCeeEEEEEECHHH--hHHHHhcc--CCcEEEE
Confidence 469999999999976 355666777664 4577799999999999999998753 35555554 3799999
Q ss_pred EEe
Q 011530 305 LTT 307 (483)
Q Consensus 305 lV~ 307 (483)
.+.
T Consensus 92 ~~~ 94 (327)
T 1k8w_A 92 IAR 94 (327)
T ss_dssp EEE
T ss_pred EEE
Confidence 986
No 20
>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=96.55 E-value=0.0021 Score=65.08 Aligned_cols=73 Identities=21% Similarity=0.284 Sum_probs=56.5
Q ss_pred eecCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceE
Q 011530 222 AVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKL 301 (483)
Q Consensus 222 yED~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~ 301 (483)
|..+.+|+||||.|+.+| .+...+++.++. .++.-.+-||-..||||+++-... .++.+.+.+ ..|+
T Consensus 43 ~~~~Gil~vdKP~g~tS~--------~vv~~vr~~~~~-~KvGH~GTLDP~atGvL~v~~g~a--Tk~~~~l~~--~~K~ 109 (334)
T 2aus_C 43 HIQYGVINLDKPPGPTSH--------EVVAWIKRILNL-EKAGHGGTLDPKVSGVLPVALERA--TRVVQALLP--AGKE 109 (334)
T ss_dssp HHHTEEEEEEECSSSCHH--------HHHHHHHHHTTC-SCEEESSCCCTTCEEEEEEEEGGG--GGGGGGGTT--CCEE
T ss_pred hccCcEEEEECCCCCCHH--------HHHHHHHHHhCc-ceeccccccCCccceeEEEEeChh--hhhHHHhcc--cCcE
Confidence 445789999999999876 355666777664 457779999999999999999753 355555554 5799
Q ss_pred EEEEEe
Q 011530 302 YLALTT 307 (483)
Q Consensus 302 YlAlV~ 307 (483)
|.|.+.
T Consensus 110 Y~~~~~ 115 (334)
T 2aus_C 110 YVALMH 115 (334)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 999986
No 21
>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=96.52 E-value=0.0023 Score=63.82 Aligned_cols=70 Identities=16% Similarity=0.208 Sum_probs=54.8
Q ss_pred CeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceEEEE
Q 011530 225 ESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKLYLA 304 (483)
Q Consensus 225 ~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~YlA 304 (483)
+.+++||||+||.+| .+...+++.++. .++.-.+-||-..||||+++-...+ ++...+.+ -.|+|.|
T Consensus 3 ~Gil~vdKP~G~TS~--------~vv~~vrr~l~~-kKvGH~GTLDP~AtGvL~i~iG~aT--Kl~~~l~~--~~K~Y~a 69 (309)
T 1r3e_A 3 HGILVAYKPKGPTSH--------DVVDEVRKKLKT-RKVGHGGTLDPFACGVLIIGVNQGT--RILEFYKD--LKKVYWV 69 (309)
T ss_dssp CEEEEEEECSSSCHH--------HHHHHHHHHTTC-SCEEESSCCCTTCEEEEEEEEGGGG--GGGGGGTT--SCEEEEE
T ss_pred CeEEEEECCCCCCHH--------HHHHHHHHHhcc-ceecccccCCCCcceeEEEEECHHH--hHHHHhCc--cCcEEEE
Confidence 458999999999987 355667777664 4577799999999999999998743 45555554 4899999
Q ss_pred EEe
Q 011530 305 LTT 307 (483)
Q Consensus 305 lV~ 307 (483)
.+.
T Consensus 70 ~~~ 72 (309)
T 1r3e_A 70 KMR 72 (309)
T ss_dssp EEE
T ss_pred EEE
Confidence 986
No 22
>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=96.43 E-value=0.0027 Score=63.49 Aligned_cols=71 Identities=20% Similarity=0.245 Sum_probs=55.6
Q ss_pred cCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceEEE
Q 011530 224 TESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKLYL 303 (483)
Q Consensus 224 D~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~Yl 303 (483)
.+.+++||||.||.+| .+...+++.++. .++.-.+-||-..||||+++-...+ ++.+.+.+ -.|+|.
T Consensus 5 ~~Gil~vdKP~G~TS~--------dvv~~vrr~l~~-kKvGH~GTLDP~AtGvL~i~iG~aT--Kl~~~l~~--~~K~Y~ 71 (316)
T 1sgv_A 5 GPGIVVIDKPAGMTSH--------DVVGRCRRIFAT-RRVGHAGTLDPMATGVLVIGIERAT--KILGLLTA--APKSYA 71 (316)
T ss_dssp CSEEEEEEECTTCCHH--------HHHHHHHHHTTC-SCEEESSCCCTTCEEEEEEEEGGGG--GGGGGTTT--SCEEEE
T ss_pred CCeEEEEECCCCCCHH--------HHHHHHHHHhcc-ccccccccCCCCCeEEEEEEECHHH--hHHHHhCc--CCcEEE
Confidence 3569999999999987 455667777765 4577789999999999999998753 45555544 589999
Q ss_pred EEEe
Q 011530 304 ALTT 307 (483)
Q Consensus 304 AlV~ 307 (483)
|.+.
T Consensus 72 ~~~~ 75 (316)
T 1sgv_A 72 ATIR 75 (316)
T ss_dssp EEEE
T ss_pred EEEE
Confidence 9986
No 23
>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=96.39 E-value=0.0028 Score=64.54 Aligned_cols=73 Identities=21% Similarity=0.244 Sum_probs=57.0
Q ss_pred eecCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceE
Q 011530 222 AVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKL 301 (483)
Q Consensus 222 yED~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~ 301 (483)
|..+.+|+||||.|+.++ .+...+++.++. .++.-.+-||-..||||+++-... .++.+.+.+ ..|+
T Consensus 63 ~~~~Gil~vdKP~G~TS~--------~vv~~vr~~l~~-~KvGH~GTLDP~AtGvL~v~~G~a--Tk~~~~l~~--~~K~ 129 (357)
T 2apo_A 63 LIKYGVVVVDKPRGPTSH--------EVSTWVKKILNL-DKAGHGGTLDPKVTGVLPVALERA--TKTIPMWHI--PPKE 129 (357)
T ss_dssp HHHTEEEEEEECSSSCHH--------HHHHHHHHHTTC-SCEEESSCCCTTCEEEEEEEEGGG--GGGGGGTTS--SCEE
T ss_pred hccCcEEEEECCCCCCHH--------HHHHHHHHHhCc-cccccccccCCCceeEEEEEeCHH--HhHHHHhcc--CCcE
Confidence 445789999999999987 355667777764 357779999999999999999753 355555554 6799
Q ss_pred EEEEEe
Q 011530 302 YLALTT 307 (483)
Q Consensus 302 YlAlV~ 307 (483)
|.|.+.
T Consensus 130 Y~~~~~ 135 (357)
T 2apo_A 130 YVCLMH 135 (357)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 999986
No 24
>3j20_D 30S ribosomal protein S4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=96.30 E-value=0.0017 Score=59.99 Aligned_cols=50 Identities=12% Similarity=0.140 Sum_probs=43.7
Q ss_pred CcHHHHHHhccCC-CHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccC
Q 011530 110 GPVLEYICRELNL-PPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (483)
Q Consensus 110 ~rl~~~Ls~~l~~-Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~ 188 (483)
.||+.+|.+.+-. ||+.|+++|..|.| .|||++|+ +
T Consensus 103 ~RLD~~L~~~G~a~SR~~Ar~LI~~G~V----------------------------------~VNg~~V~---------~ 139 (180)
T 3j20_D 103 RRLQTIVYKKGLARTMRQARQLIVHGHI----------------------------------EVNGQIIR---------S 139 (180)
T ss_dssp TSHHHHHHHHTSSSSHHHHHHHHHHTCC----------------------------------EESSSBCC---------C
T ss_pred hhhhheeecCcccCcHHHHHHHHHcCCe----------------------------------EECCEEeC---------C
Confidence 5788999888755 99999999999999 68998876 6
Q ss_pred CCceecCC--CEEEEe
Q 011530 189 VDQIVEAG--TYLRVH 202 (483)
Q Consensus 189 ~~~~v~~G--D~I~v~ 202 (483)
|++.|.+| |.|.+.
T Consensus 140 Ps~~V~~~~eD~I~v~ 155 (180)
T 3j20_D 140 PSYLVLKEEEDTITYA 155 (180)
T ss_dssp SSCCCCTGGGGCEECS
T ss_pred CCcccCCCCCCEEEEe
Confidence 99999999 888884
No 25
>3u28_A H/ACA ribonucleoprotein complex subunit 4; pseudouridine synthase, pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces cerevisiae} PDB: 3uai_A
Probab=96.15 E-value=0.0045 Score=63.76 Aligned_cols=73 Identities=16% Similarity=0.320 Sum_probs=56.3
Q ss_pred eecCeEEEEeCCCCCccCCCCCCccchHHHHHHHhccCCCCCccccCCCCCCceEEEEEcCHHHHHHHHHHhhcCCcceE
Q 011530 222 AVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGCVVLARTQEYCSIFHRKIREKKVKKL 301 (483)
Q Consensus 222 yED~~liVvNKPaGl~v~~~~~~~~~tl~~~l~~~~~~~~~l~~VHRLDr~TSGLLL~Ak~~~aa~~L~~~f~~~~v~K~ 301 (483)
|..+.+|+||||.|+.+| .+...+++.++. .++.-.+-||-..||||+++-... .++...+.+ -.|+
T Consensus 56 ~~~~Gil~ldKP~G~TS~--------dvv~~vrr~l~~-kKvGH~GTLDP~AtGvL~v~iG~a--TKl~~~l~~--~~K~ 122 (400)
T 3u28_A 56 YISSGVINLDKPSNPSSH--------EVVAWIKRILRC-EKTGHSGTLDPKVTGCLIVCIDRA--TRLVKSQQG--AGKE 122 (400)
T ss_dssp HHHTEEEEEEECSSSCHH--------HHHHHHHHHHTC-SCEEESSCCCTTCEEEEEEEEGGG--GGGHHHHHH--SCEE
T ss_pred hccCcEEEEECCCCCCHH--------HHHHHHHHHhCc-CcccccCCCCCCCeEEEEEEEChH--HhHhHHhcC--CCcE
Confidence 455789999999999987 355667777765 457778999999999999998754 344444544 5799
Q ss_pred EEEEEe
Q 011530 302 YLALTT 307 (483)
Q Consensus 302 YlAlV~ 307 (483)
|.|.+.
T Consensus 123 Y~a~~~ 128 (400)
T 3u28_A 123 YVCIVR 128 (400)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 999986
No 26
>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_D
Probab=96.04 E-value=0.0022 Score=59.27 Aligned_cols=50 Identities=8% Similarity=-0.029 Sum_probs=42.6
Q ss_pred CcHHHHHHhccCC-CHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccC
Q 011530 110 GPVLEYICRELNL-PPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (483)
Q Consensus 110 ~rl~~~Ls~~l~~-Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~ 188 (483)
.||+.+|.+.+-. ||+.|+++|..|.| .|||++|+ +
T Consensus 107 ~RLD~vL~~~G~a~SR~~Ar~LI~~G~V----------------------------------~VNg~~V~---------~ 143 (181)
T 2xzm_D 107 RRLQTRVFKLNLANSIHHSRVLIRQRHI----------------------------------KVGKNLVN---------V 143 (181)
T ss_dssp TBHHHHHHHTTCSSSTTHHHHHTTTTCC----------------------------------EETTEECC---------C
T ss_pred cchhHHHHhccccCCHHHHHHHHHCCEE----------------------------------EECCEEEC---------C
Confidence 4778999888765 99999999999999 68999987 6
Q ss_pred CCceecCCCEEEEe
Q 011530 189 VDQIVEAGTYLRVH 202 (483)
Q Consensus 189 ~~~~v~~GD~I~v~ 202 (483)
|++.|.+||.+.|.
T Consensus 144 Ps~~V~~~d~~~I~ 157 (181)
T 2xzm_D 144 PSFMVRTDSEKSID 157 (181)
T ss_dssp SCCBCCSTTSSCEE
T ss_pred CCcCCCCCCceEEE
Confidence 99999999854444
No 27
>3u5c_J 40S ribosomal protein S9-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_C 3o30_E 3o2z_E 3u5g_J 1s1h_D 3jyv_D*
Probab=94.97 E-value=0.008 Score=56.08 Aligned_cols=49 Identities=8% Similarity=-0.014 Sum_probs=41.3
Q ss_pred CcHHHHHHhccCC-CHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccC
Q 011530 110 GPVLEYICRELNL-PPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (483)
Q Consensus 110 ~rl~~~Ls~~l~~-Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~ 188 (483)
.||+.+|.+.+-. ||+.|+++|..|.| .|||++|+ +
T Consensus 107 ~RLD~~L~r~G~a~Sr~~ArqLI~~GhV----------------------------------~VNG~~V~---------~ 143 (197)
T 3u5c_J 107 RRLQTQVYKLGLAKSVHHARVLITQRHI----------------------------------AVGKQIVN---------I 143 (197)
T ss_dssp TSHHHHHHHSSTTSSHHHHHHHHHTSCC----------------------------------BSSSCBCC---------C
T ss_pred HHHHHHHHHccccCCHHHHHHHHHcCCE----------------------------------EECCEEeC---------C
Confidence 5778999998754 99999999999999 68999877 5
Q ss_pred CCceecCCC--EEEE
Q 011530 189 VDQIVEAGT--YLRV 201 (483)
Q Consensus 189 ~~~~v~~GD--~I~v 201 (483)
|++.|.+|+ .|.+
T Consensus 144 Ps~~V~~g~ed~I~~ 158 (197)
T 3u5c_J 144 PSFMVRLDSEKHIDF 158 (197)
T ss_dssp TTCCCCSTTGGGCBC
T ss_pred CccccCCCCccEEEE
Confidence 999999995 4544
No 28
>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=94.57 E-value=0.14 Score=49.17 Aligned_cols=52 Identities=12% Similarity=0.096 Sum_probs=46.1
Q ss_pred CCcHHHHHHhccC--CCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccc
Q 011530 109 GGPVLEYICRELN--LPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRI 186 (483)
Q Consensus 109 ~~rl~~~Ls~~l~--~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~ 186 (483)
.-+|.-||...++ .++++|++.+..|.| .|||++++
T Consensus 42 ~lPL~i~LRdrLgyA~t~rEar~Iv~~~~I----------------------------------~VdGKvr~-------- 79 (243)
T 3j20_E 42 SIPLLYIVRDYLGYAKTAREARKILNEGKF----------------------------------LVDGRVRK-------- 79 (243)
T ss_dssp CEEHHHHHHTTSCCCSSHHHHHHHHHHCSC----------------------------------EETTEECC--------
T ss_pred ceeehhhhhhhhccccCHHHHHHHHHCCcE----------------------------------EECCEEec--------
Confidence 3478899999986 789999999999999 69999987
Q ss_pred cCCCceecCCCEEEEec
Q 011530 187 THVDQIVEAGTYLRVHV 203 (483)
Q Consensus 187 ~~~~~~v~~GD~I~v~~ 203 (483)
++.|.+..+|+|.+.-
T Consensus 80 -d~~ypvG~mDVIsI~k 95 (243)
T 3j20_E 80 -DYKFPVGIMDVVSIPE 95 (243)
T ss_dssp -CSSCEECTTCEEEETT
T ss_pred -cccCCcccceEEEecc
Confidence 6999999999999973
No 29
>3kbg_A 30S ribosomal protein S4E; RPS4E, RS4E_theac, TAR28, NESG, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.75A {Thermoplasma acidophilum}
Probab=92.95 E-value=0.11 Score=48.86 Aligned_cols=51 Identities=24% Similarity=0.206 Sum_probs=45.0
Q ss_pred CCCcHHHHHHhccC--CCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeecccccc
Q 011530 108 EGGPVLEYICRELN--LPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFR 185 (483)
Q Consensus 108 ~~~rl~~~Ls~~l~--~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r 185 (483)
+.-+|.-||...++ .++++|++.+..|.| .|||++++
T Consensus 6 eslPL~i~LRdrLgyA~t~rEarkIv~~~~I----------------------------------~VDGKvr~------- 44 (213)
T 3kbg_A 6 QSVTLLSIIRDYLKLSDKEREAARILANGLV----------------------------------KVDGKTVR------- 44 (213)
T ss_dssp SCEEHHHHHHHHHHTTTCGGGHHHHHHTTCE----------------------------------EETTEECC-------
T ss_pred hceeeHHHHhhhhcccccHHHHHHHHHCCCE----------------------------------EECCEEec-------
Confidence 34478889999874 788999999999999 69999987
Q ss_pred ccCCCceecCCCEEEE
Q 011530 186 ITHVDQIVEAGTYLRV 201 (483)
Q Consensus 186 ~~~~~~~v~~GD~I~v 201 (483)
++.|.+..+|+|.+
T Consensus 45 --d~~ypvG~mDVIsI 58 (213)
T 3kbg_A 45 --EKKFAVGFMDVIEI 58 (213)
T ss_dssp --CTTCEECTTCEEEE
T ss_pred --ccCCCccceeEEEe
Confidence 69999999999999
No 30
>3iz6_C 40S ribosomal protein S9 (S4P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Probab=90.75 E-value=0.0028 Score=59.09 Aligned_cols=51 Identities=8% Similarity=0.014 Sum_probs=42.0
Q ss_pred cHHHHHHhccCC-CHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccccCC
Q 011530 111 PVLEYICRELNL-PPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITHV 189 (483)
Q Consensus 111 rl~~~Ls~~l~~-Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~~~ 189 (483)
||+.+|.+.+-. ||..|+++|..|.| .|||++|+ .|
T Consensus 110 RLD~~L~r~G~a~SR~~ArqlI~~GhV----------------------------------~VNG~~V~---------~P 146 (195)
T 3iz6_C 110 RLQTLVFKAGMAKSIHHARVLIRQRHI----------------------------------RVGRQIVN---------IP 146 (195)
T ss_dssp CCCSSCCCCCCHHHHSCTTSHHHHHST----------------------------------TTSCCCCC---------CC
T ss_pred hhhHHHHhccccCCHHHHHHHHHcCCE----------------------------------EECCEEeC---------CC
Confidence 444888777654 99999999999999 68999876 59
Q ss_pred CceecCCCEEEEecC
Q 011530 190 DQIVEAGTYLRVHVH 204 (483)
Q Consensus 190 ~~~v~~GD~I~v~~~ 204 (483)
++.|.+||.+.|.+.
T Consensus 147 s~~V~~gde~~I~~~ 161 (195)
T 3iz6_C 147 SFMVRVESEKHIDFS 161 (195)
T ss_dssp CCCCSSSCSSSSCSS
T ss_pred CcCcCCCCEEEEEec
Confidence 999999998777643
No 31
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W
Probab=76.15 E-value=6.9 Score=37.71 Aligned_cols=51 Identities=20% Similarity=0.135 Sum_probs=42.9
Q ss_pred CCcHHHHHHhccC--CCHHHHHHHHHc--CCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccc
Q 011530 109 GGPVLEYICRELN--LPPLFVADLIHF--GAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTF 184 (483)
Q Consensus 109 ~~rl~~~Ls~~l~--~Sr~~~~~lI~~--G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~ 184 (483)
.-+|.-||...|. .+.++|+..|.+ |.| .|||++.+
T Consensus 41 slPL~i~LRd~LkyA~t~rEak~Il~q~~~~V----------------------------------kVDGkvr~------ 80 (260)
T 2xzm_W 41 SLPLSVLLKERLNYALNGRDVTLILNDKEQNV----------------------------------FVDGKVRR------ 80 (260)
T ss_dssp CEEHHHHHTTTTCSCCSHHHHHHHTTSTTCCE----------------------------------EETTEECC------
T ss_pred eehhHhhhhhhhccccchhHHHHHHhccCCeE----------------------------------EECCEEec------
Confidence 3467889999986 888999999999 999 69999866
Q ss_pred cccCCCceecCCCEEEEe
Q 011530 185 RITHVDQIVEAGTYLRVH 202 (483)
Q Consensus 185 r~~~~~~~v~~GD~I~v~ 202 (483)
|..+.+--=|+|.|.
T Consensus 81 ---D~~~PvG~MDVIsI~ 95 (260)
T 2xzm_W 81 ---DKGYPTGLMDVVRIE 95 (260)
T ss_dssp ---CTTCEECTTCEEEEG
T ss_pred ---cCCCCCcEEEEEeEc
Confidence 577888777999886
No 32
>3iz6_D 40S ribosomal protein S4 (S4E); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Probab=72.06 E-value=2.8 Score=40.55 Aligned_cols=69 Identities=17% Similarity=0.113 Sum_probs=49.3
Q ss_pred CCcHHHHHHhccC--CCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccc
Q 011530 109 GGPVLEYICRELN--LPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRI 186 (483)
Q Consensus 109 ~~rl~~~Ls~~l~--~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~ 186 (483)
.-+|.-||...|+ .+.++|++.|.+|.| .|||++.+
T Consensus 41 slPL~i~LRd~LkyA~t~~EakkIl~q~~V----------------------------------kVDGkvrt-------- 78 (265)
T 3iz6_D 41 CLPLILIIRNRLKYALTYREVISILMQRHV----------------------------------LVDGKVRT-------- 78 (265)
T ss_dssp --CHHHHHHHHHTTSSCSSSTHHHHHTTCC----------------------------------EETTEECC--------
T ss_pred heeeHHHhhhhhcccccHHHHHHHHHCCcE----------------------------------EECCEEec--------
Confidence 3467789998885 677899999999999 69999976
Q ss_pred cCCCceecCCCEEEEecCCCCCCcccCCCCCceEEeecCeEEEE
Q 011530 187 THVDQIVEAGTYLRVHVHPKRFPRCYDIDWNSRIIAVTESHVVL 230 (483)
Q Consensus 187 ~~~~~~v~~GD~I~v~~~~~~~p~~~~~~~~~~IlyED~~liVv 230 (483)
|..|.+--=|+|.|.--.+ ..++||+....+++
T Consensus 79 -D~~~PvG~MDVIsI~kt~e----------~fRll~D~kGrf~l 111 (265)
T 3iz6_D 79 -DKTYPAGFMDVISIPKTGE----------NYRLLYDTKGRFRL 111 (265)
T ss_dssp -CTTCCCCTTCEEECCSSCC----------EEEEEECTTSCEEE
T ss_pred -cCCCCCcEEEEEEEcCCCC----------EEEEEECCCCcEEE
Confidence 5667776669998863222 34666666544443
No 33
>1h3f_A Tyrosyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase; HET: TYE; 2.00A {Thermus thermophilus} SCOP: c.26.1.1 d.66.1.4 PDB: 1h3e_A*
Probab=68.44 E-value=7.6 Score=40.27 Aligned_cols=28 Identities=11% Similarity=-0.183 Sum_probs=24.0
Q ss_pred CcHHHHHHhcc-CCCHHHHHHHHHcCCEE
Q 011530 110 GPVLEYICREL-NLPPLFVADLIHFGAVY 137 (483)
Q Consensus 110 ~rl~~~Ls~~l-~~Sr~~~~~lI~~G~V~ 137 (483)
..+.++|...+ .-|+++|+++|.+|.|+
T Consensus 369 ~~~~~~l~~~~l~~S~~earr~i~~ggv~ 397 (432)
T 1h3f_A 369 IWVARLFTLAGLTPSNAEARRLIQNRGLR 397 (432)
T ss_dssp EEHHHHHHHTTSSSSHHHHHHHHHTTCEE
T ss_pred CcHHHHHHHhCCcccHHHHHHHHHhCCEE
Confidence 46889998875 57999999999999994
No 34
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_D 3u5g_E
Probab=68.07 E-value=3.5 Score=39.83 Aligned_cols=51 Identities=14% Similarity=0.154 Sum_probs=42.9
Q ss_pred CcHHHHHHhccC--CCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeecccccccc
Q 011530 110 GPVLEYICRELN--LPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRIT 187 (483)
Q Consensus 110 ~rl~~~Ls~~l~--~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~~ 187 (483)
-+|.-||...|+ .+.++|++.+.+|.| .|||++.+
T Consensus 42 lPL~i~LRd~LkyA~t~~EakkIl~q~~V----------------------------------kVDGkvrt--------- 78 (261)
T 3u5c_E 42 LPLIVFLRNRLKYALNGREVKAILMQRHV----------------------------------KVDGKVRT--------- 78 (261)
T ss_dssp EEHHHHHHHTTCCCSSSHHHHHHHTTTCE----------------------------------EETTBCCC---------
T ss_pred eeeHHHhhhhhcccccHHHHHHHHHCCcE----------------------------------EECCEEec---------
Confidence 467789999886 678999999999999 68999876
Q ss_pred CCCceecCCCEEEEec
Q 011530 188 HVDQIVEAGTYLRVHV 203 (483)
Q Consensus 188 ~~~~~v~~GD~I~v~~ 203 (483)
|..|.+--=|+|.|.-
T Consensus 79 D~~~PvG~MDVIsI~k 94 (261)
T 3u5c_E 79 DTTYPAGFMDVITLDA 94 (261)
T ss_dssp CTTCEEETTCEEEETT
T ss_pred cCCCCCceEEEEEEcC
Confidence 5778887779999863
No 35
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA synthetase, tyrrs, ligase, tyrosine, RNA-binding, ATP-binding; 2.9A {Mycobacterium tuberculosis}
Probab=65.06 E-value=10 Score=39.29 Aligned_cols=27 Identities=15% Similarity=0.118 Sum_probs=23.1
Q ss_pred cHHHHHHhcc-CCCHHHHHHHHHcCCEE
Q 011530 111 PVLEYICREL-NLPPLFVADLIHFGAVY 137 (483)
Q Consensus 111 rl~~~Ls~~l-~~Sr~~~~~lI~~G~V~ 137 (483)
.+.++|.... .-|+++|+++|++|.|+
T Consensus 357 ~~~~ll~~~gl~~S~~earr~i~~ggv~ 384 (432)
T 2jan_A 357 GIVDLLVASGLSASKGAARRTIHEGGVS 384 (432)
T ss_dssp SHHHHHHHHTSCSSHHHHHHHHTTTCEE
T ss_pred hHHHHHHHhCCcccHHHHHHHHHhCCEE
Confidence 5778888775 46999999999999994
No 36
>1fm0_D Molybdopterin convertin factor, subunit 1; molybdenum cofactor biosynthesis, transferase; 1.45A {Escherichia coli} SCOP: d.15.3.1 PDB: 1fma_D 1jw9_D 1jwa_D* 1jwb_D* 3bii_D 1nvi_D
Probab=60.50 E-value=19 Score=27.46 Aligned_cols=53 Identities=11% Similarity=-0.019 Sum_probs=36.1
Q ss_pred CCCCcHHHHHHhccCCCHHHHHHHHHcCCEEecccCCCCCCCCCchhhhhccccCCccccccceeeCCEEEeeccccccc
Q 011530 107 SEGGPVLEYICRELNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRI 186 (483)
Q Consensus 107 ~~~~rl~~~Ls~~l~~Sr~~~~~lI~~G~V~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~vnGk~v~~~q~~~r~ 186 (483)
.++.++.+++....... ...++++..+.+.+ .|||+.+.
T Consensus 23 ~~~~tv~~ll~~L~~~~-p~~~~~l~~~~~~v--------------------------------~vN~~~v~-------- 61 (81)
T 1fm0_D 23 ADFPTVEALRQHMAAQS-DRWALALEDGKLLA--------------------------------AVNQTLVS-------- 61 (81)
T ss_dssp SCCSBHHHHHHHHHTTC-HHHHHHHCCTTCEE--------------------------------EETTEECC--------
T ss_pred CCCCCHHHHHHHHHHHC-hhHHHHhcCCCEEE--------------------------------EECCEECC--------
Confidence 34567777776644322 24566666666543 58999874
Q ss_pred cCCCceecCCCEEEEe
Q 011530 187 THVDQIVEAGTYLRVH 202 (483)
Q Consensus 187 ~~~~~~v~~GD~I~v~ 202 (483)
.++.|+.||.|.+.
T Consensus 62 --~~~~l~~gD~V~i~ 75 (81)
T 1fm0_D 62 --FDHPLTDGDEVAFF 75 (81)
T ss_dssp --TTCBCCTTCEEEEE
T ss_pred --CCCCCCCCCEEEEe
Confidence 67899999999886
No 37
>1jil_A Tyrrs, tyrosyl-tRNA synthetase; truncation, based inhibitor design, ligase; HET: 485; 2.20A {Staphylococcus aureus} SCOP: c.26.1.1 PDB: 1jij_A* 1jii_A* 1jik_A*
Probab=60.23 E-value=1.8 Score=44.77 Aligned_cols=27 Identities=15% Similarity=0.166 Sum_probs=0.0
Q ss_pred cHHHHHHhccC-CCHHHHHHHHHcCCEE
Q 011530 111 PVLEYICRELN-LPPLFVADLIHFGAVY 137 (483)
Q Consensus 111 rl~~~Ls~~l~-~Sr~~~~~lI~~G~V~ 137 (483)
.|.++|....- -|+++|+++|.+|.|+
T Consensus 354 ~l~~lL~~agl~~SksEARRlI~~GgV~ 381 (420)
T 1jil_A 354 NIVEVLIETGISPSKRQAREDVNNGAIY 381 (420)
T ss_dssp ----------------------------
T ss_pred cHHHHHHHcCCccCHHHHHHHHHhCCEE
Confidence 57788887653 5999999999999993
No 38
>2ktl_A Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA synthetase, ligase; NMR {Aspergillus nidulans fgsc A4}
Probab=45.97 E-value=78 Score=28.25 Aligned_cols=31 Identities=6% Similarity=-0.069 Sum_probs=26.0
Q ss_pred CCcHHHHHHhccC-CCHHHHHHHHHcCCEEec
Q 011530 109 GGPVLEYICRELN-LPPLFVADLIHFGAVYYA 139 (483)
Q Consensus 109 ~~rl~~~Ls~~l~-~Sr~~~~~lI~~G~V~~~ 139 (483)
+..|.++|....- -|+++++++|.+|.||++
T Consensus 49 g~~ivdlLv~aGLa~SKsEARRlI~qGGv~VN 80 (164)
T 2ktl_A 49 DKTFSKVLWSAGLVASKSEGQRIINNNGAYVG 80 (164)
T ss_dssp SCSHHHHHHHHTSCSTHHHHHHHHHHTCEEEE
T ss_pred CCcHHHHHHHhCcccCHHHHHHHHHhCCEEEC
Confidence 4578898887764 699999999999999865
No 39
>2ts1_A Tyrosyl-tRNA synthetase; ligase (synthetase); 2.30A {Geobacillus stearothermophilus} SCOP: c.26.1.1 PDB: 3ts1_A* 1tyd_E* 1tya_E* 1tyc_A 1tyb_E* 4ts1_A* 1jh3_A
Probab=44.29 E-value=4.7 Score=41.67 Aligned_cols=27 Identities=22% Similarity=0.332 Sum_probs=0.0
Q ss_pred cHHHHHHhcc-CCCHHHHHHHHHcCCEE
Q 011530 111 PVLEYICREL-NLPPLFVADLIHFGAVY 137 (483)
Q Consensus 111 rl~~~Ls~~l-~~Sr~~~~~lI~~G~V~ 137 (483)
.+.++|.... .-|+++|+++|.+|.|+
T Consensus 353 ~~~~~l~~~gl~~S~~earr~i~~ggv~ 380 (419)
T 2ts1_A 353 PLVELLVSAGISPSKRQAREDIQNGAIY 380 (419)
T ss_dssp ----------------------------
T ss_pred cHHHHHHHhCCCCCHHHHHHHHHhCCEE
Confidence 5668887665 46999999999999994
No 40
>1tyg_B YJBS; alpha beta barrel, protein-protein complex, THis, BIOS protein; 3.15A {Bacillus subtilis} SCOP: d.15.3.2
Probab=42.02 E-value=42 Score=26.66 Aligned_cols=26 Identities=0% Similarity=-0.024 Sum_probs=20.2
Q ss_pred eeCCEEEeeccccccccCCCceecCCCEEEEe
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVEAGTYLRVH 202 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~~GD~I~v~ 202 (483)
.+||+.+...+ -.++.|+.||.|.|.
T Consensus 56 avNg~iV~~~~------~~~~~L~dGD~Vei~ 81 (87)
T 1tyg_B 56 ERNKEIIGKER------YHEVELCDRDVIEIV 81 (87)
T ss_dssp EETTEEECGGG------TTTSBCCSSSEEEEE
T ss_pred EECCEECChhh------cCCcCCCCCCEEEEE
Confidence 58999987432 136789999999986
No 41
>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=41.88 E-value=14 Score=34.57 Aligned_cols=27 Identities=15% Similarity=-0.063 Sum_probs=22.6
Q ss_pred cceeEEEEEeeec----CcceEEEeCCCccc
Q 011530 448 VAIGLQACHISWD----DGECCYEARSPWWR 474 (483)
Q Consensus 448 ~~I~LhA~~~~~~----g~~~~f~a~~P~W~ 474 (483)
..++|||++++|. |+...|+|++|.+.
T Consensus 187 ~r~~LHa~~l~f~hP~t~~~~~~~aplp~~~ 217 (228)
T 1v9k_A 187 NRLFLHAAALKFTHPGTGEVMRIEAPMDEGL 217 (228)
T ss_dssp CSCCEEEEEEEEECTTTCCEEEEECCCCHHH
T ss_pred CChhhccceeEeeCCCCCCEEEEEeCCcHHH
Confidence 4799999999994 67788999999643
No 42
>3hvz_A Uncharacterized protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium; 2.20A {Clostridium leptum}
Probab=40.08 E-value=18 Score=28.25 Aligned_cols=24 Identities=25% Similarity=0.468 Sum_probs=20.4
Q ss_pred eeCCEEEeeccccccccCCCceecCCCEEEEecC
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVEAGTYLRVHVH 204 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~~GD~I~v~~~ 204 (483)
+|||+.+. .++.|+.||.|+|.-.
T Consensus 45 kVNG~~v~----------L~~~L~~gd~VeIit~ 68 (78)
T 3hvz_A 45 KVDGRIVP----------IDYKVKTGEIIDVLTT 68 (78)
T ss_dssp EETTEEEC----------TTCBCCTTCBEEEEEC
T ss_pred EECCEEcC----------CCcccCCCCEEEEEcc
Confidence 68999885 8899999999998643
No 43
>3po0_A Small archaeal modifier protein 1; ubiquitin-like protein, protein binding; 1.55A {Haloferax volcanii} PDB: 2l83_A
Probab=36.16 E-value=29 Score=27.08 Aligned_cols=23 Identities=17% Similarity=0.242 Sum_probs=19.5
Q ss_pred eeCCEEEeeccccccccCCCceecCCCEEEEec
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVEAGTYLRVHV 203 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~~GD~I~v~~ 203 (483)
.|||+.+. .++.|+.||.|.+..
T Consensus 62 ~VN~~~v~----------~~~~l~~gDeV~i~P 84 (89)
T 3po0_A 62 LRNGEAAA----------LGEATAAGDELALFP 84 (89)
T ss_dssp EETTEECC----------TTSBCCTTCEEEEEC
T ss_pred EECCEECC----------CCcccCCCCEEEEEC
Confidence 68999875 678999999999873
No 44
>2hj1_A Hypothetical protein; structural genomics, PSI, protein structure initiative, NEW research center for structural genomics, nysgxrc; 2.10A {Haemophilus influenzae} SCOP: d.15.3.4
Probab=31.31 E-value=12 Score=30.59 Aligned_cols=23 Identities=9% Similarity=0.375 Sum_probs=19.7
Q ss_pred eeCCEEEeeccccccccCCCceecCCCEEEEec
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVEAGTYLRVHV 203 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~~GD~I~v~~ 203 (483)
.|||+.+. .++.|+.||+|+|..
T Consensus 62 ~Vng~~v~----------~d~~L~dGDRVEIyr 84 (97)
T 2hj1_A 62 GIFSRPIK----------LTDVLKEGDRIEIYR 84 (97)
T ss_dssp EEEECSCC----------TTCBCCTTCEEEECC
T ss_pred EEcCEECC----------CCccCCCCCEEEEEe
Confidence 58888764 889999999999984
No 45
>2q5w_D Molybdopterin converting factor, subunit 1; MOCO, MPT synthase, MOAD, MOAE, transferase, molybdenum cofactor biosynthesis; 2.00A {Staphylococcus aureus} PDB: 2qie_B*
Probab=31.15 E-value=47 Score=24.91 Aligned_cols=22 Identities=5% Similarity=0.202 Sum_probs=19.1
Q ss_pred eeCCEEEeeccccccccCCCceecCCCEEEEe
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVEAGTYLRVH 202 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~~GD~I~v~ 202 (483)
.+||+.+. .++.|+.||.|.+.
T Consensus 50 ~vNg~~v~----------~~~~L~~gD~V~i~ 71 (77)
T 2q5w_D 50 AVNEEFVQ----------KSDFIQPNDTVALI 71 (77)
T ss_dssp EETTEEEC----------TTSEECTTCEEEEE
T ss_pred EECCEECC----------CCCCcCCCCEEEEE
Confidence 68999885 57899999999986
No 46
>1wv3_A Similar to DNA segregation ATPase and related proteins; structural genomics, unknown function; 1.75A {Staphylococcus aureus subsp} SCOP: b.26.1.4 b.26.1.4
Probab=30.81 E-value=57 Score=30.65 Aligned_cols=36 Identities=14% Similarity=-0.008 Sum_probs=27.9
Q ss_pred eeCCEEEeeccccccccCCCceec-CCCEEEEecCCCCCCcccCCCCCceEEeecCeEEEE
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVE-AGTYLRVHVHPKRFPRCYDIDWNSRIIAVTESHVVL 230 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~-~GD~I~v~~~~~~~p~~~~~~~~~~IlyED~~liVv 230 (483)
.+||+.++ ....|+ .||.|.+. .+.+.+..++++++
T Consensus 138 yvNg~~i~----------~~~~L~~~GD~I~ig--------------~~~~~~~~~~l~i~ 174 (238)
T 1wv3_A 138 YINYELQE----------QLTNKAYIGDHIYVE--------------GIWLEVQADGLNVL 174 (238)
T ss_dssp EETTEECC----------SSEEEEETTCEEEET--------------TEEEEECSSEEEEE
T ss_pred EECCEEec----------cceeccCCcCEEEEC--------------CEEEEEECCEEEEE
Confidence 48999876 345799 99999985 46777888888774
No 47
>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=30.22 E-value=26 Score=34.54 Aligned_cols=26 Identities=19% Similarity=0.008 Sum_probs=21.8
Q ss_pred ceeEEEEEeeec----CcceEEEeCCCccc
Q 011530 449 AIGLQACHISWD----DGECCYEARSPWWR 474 (483)
Q Consensus 449 ~I~LhA~~~~~~----g~~~~f~a~~P~W~ 474 (483)
.++|||++++|. |+...|+|++|++.
T Consensus 275 r~~LHA~~L~f~hP~~~~~~~~~aplp~~~ 304 (325)
T 1v9f_A 275 RQALHATMLRLYHPISGIEMEWHAPIPQDM 304 (325)
T ss_dssp SCSEEEEEEEEECTTTCCEEEEECCCCHHH
T ss_pred ChhhheeeeEeeCCCCCCEEEEEecCcHHH
Confidence 689999999994 57788999999654
No 48
>2cu3_A Unknown function protein; thermus thermophilus HB8, structural genomics, riken structu genomics/proteomics initiative, RSGI, NPPSFA; 1.70A {Thermus thermophilus} SCOP: d.15.3.2 PDB: 2htm_E
Probab=24.50 E-value=66 Score=23.44 Aligned_cols=26 Identities=12% Similarity=0.142 Sum_probs=20.4
Q ss_pred eeCCEEEeeccccccccCCCceecCCCEEEEe
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVEAGTYLRVH 202 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~~GD~I~v~ 202 (483)
.+||+.+...+ -.++.|+.||.|.+.
T Consensus 33 avN~~~v~~~~------~~~~~L~dgD~v~i~ 58 (64)
T 2cu3_A 33 LLNEEAFLGLE------VPDRPLRDGDVVEVV 58 (64)
T ss_dssp EETTEEEEGGG------CCCCCCCTTCEEEEE
T ss_pred EECCEECCccc------cCCcCCCCCCEEEEE
Confidence 58999987433 255789999999986
No 49
>3fm8_A Kinesin-like protein KIF13B; kinesin, GAP, GTPase activation, structural genomics consort ATP-binding, cytoskeleton, microtubule, motor protein, NUCL binding; 2.30A {Homo sapiens} PDB: 3mdb_A*
Probab=24.12 E-value=81 Score=26.60 Aligned_cols=22 Identities=14% Similarity=0.151 Sum_probs=17.9
Q ss_pred eeCCEEEeeccccccccCCCceecCCCEEEEe
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVEAGTYLRVH 202 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~~GD~I~v~ 202 (483)
.|||+.|. ....|+.||+|.+-
T Consensus 93 ~VNG~~V~----------~~~~L~~GD~I~lG 114 (124)
T 3fm8_A 93 FVNGSSVS----------SPIQLHHGDRILWG 114 (124)
T ss_dssp EETTEECC----------SCEEECTTCEEEET
T ss_pred EECCEEcC----------CcEECCCCCEEEEC
Confidence 69999885 34689999999875
No 50
>2kl0_A Putative thiamin biosynthesis THis; structural genomics, PSI-2, protein structure initiative, N structural genomics consortium, NESG; NMR {Rhodopseudomonas palustris} PDB: 2lek_A
Probab=22.46 E-value=37 Score=25.92 Aligned_cols=27 Identities=15% Similarity=0.172 Sum_probs=20.9
Q ss_pred eeCCEEEeeccccccccCCCceecCCCEEEEec
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVEAGTYLRVHV 203 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~~GD~I~v~~ 203 (483)
.+||..|...+- .++.|+.||.|+|..
T Consensus 34 ~vNg~iVpr~~~------~~~~L~dGD~veIv~ 60 (73)
T 2kl0_A 34 ALNYDVVPRGKW------DETPVTAGDEIEILT 60 (73)
T ss_dssp EESSSEECHHHH------TTCBCCTTCEEEEEC
T ss_pred EECCEECChHHc------CcccCCCCCEEEEEc
Confidence 589999875431 467999999999863
No 51
>1rws_A Hypothetical protein PF1061; residual dipolar couplings, structural genomics, unknown FUN; NMR {Pyrococcus furiosus} SCOP: d.15.3.2 PDB: 1sf0_A
Probab=20.25 E-value=32 Score=26.27 Aligned_cols=22 Identities=32% Similarity=0.537 Sum_probs=18.6
Q ss_pred eeCCEEEeeccccccccCCCceecCCCEEEEe
Q 011530 171 SIKGKTVREAQKTFRITHVDQIVEAGTYLRVH 202 (483)
Q Consensus 171 ~vnGk~v~~~q~~~r~~~~~~~v~~GD~I~v~ 202 (483)
.|||+.+. .++.|+.||+|.|.
T Consensus 50 avNg~~v~----------~~~~L~dGD~V~i~ 71 (77)
T 1rws_A 50 KVNGKVVL----------EDDEVKDGDFVEVI 71 (77)
T ss_dssp EETTEEEC----------SSSCCCSSCCCBCS
T ss_pred EECCEECC----------CCCCcCCCCEEEEE
Confidence 68999986 56899999999875
Done!