Query 023330
Match_columns 284
No_of_seqs 192 out of 1816
Neff 4.9
Searched_HMMs 29240
Date Mon Mar 25 04:59:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023330.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/023330hhsearch_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 99.9 2.2E-26 7.5E-31 215.2 6.7 131 110-283 17-151 (325)
2 1ksk_A Ribosomal small subunit 99.9 1.9E-24 6.4E-29 193.0 6.2 114 110-283 4-118 (234)
3 1vio_A Ribosomal small subunit 99.9 4.2E-24 1.4E-28 192.2 5.9 114 110-283 3-117 (243)
4 3dh3_A Ribosomal large subunit 99.8 1.9E-21 6.4E-26 180.8 9.2 114 110-283 7-120 (290)
5 2i82_A Ribosomal large subunit 99.7 1.2E-17 4.1E-22 148.0 7.4 63 218-283 12-75 (217)
6 1v9k_A Ribosomal large subunit 99.7 1.8E-17 6.2E-22 147.8 7.4 64 219-283 3-66 (228)
7 2oml_A Ribosomal large subunit 99.7 6.2E-18 2.1E-22 146.7 2.3 60 219-283 5-64 (189)
8 2olw_A Ribosomal large subunit 99.7 9E-18 3.1E-22 149.4 2.5 62 217-283 31-92 (217)
9 2gml_A Ribosomal large subunit 99.2 3.6E-12 1.2E-16 115.7 3.7 55 224-283 13-67 (237)
10 2k6p_A Uncharacterized protein 98.3 9E-08 3.1E-12 73.7 -0.2 73 111-227 2-83 (92)
11 1dm9_A Hypothetical 15.5 KD pr 97.9 7E-06 2.4E-10 68.0 4.0 73 110-226 9-89 (133)
12 1p9k_A ORF, hypothetical prote 97.3 8.3E-05 2.8E-09 55.8 2.0 31 110-141 21-53 (79)
13 1c05_A Ribosomal protein S4 de 97.0 0.0013 4.4E-08 55.9 6.5 52 110-204 51-103 (159)
14 2vqe_D 30S ribosomal protein S 96.8 0.0021 7.1E-08 57.0 6.4 52 110-204 99-151 (209)
15 3hp7_A Hemolysin, putative; st 96.2 0.0059 2E-07 56.5 5.8 31 110-140 7-38 (291)
16 3r8n_D 30S ribosomal protein S 96.2 0.0013 4.3E-08 58.6 1.2 32 110-141 95-127 (205)
17 2cqj_A BRMS2, U3 small nucleol 95.6 0.011 3.9E-07 43.7 4.1 32 110-141 8-40 (71)
18 3bbn_D Ribosomal protein S4; s 95.5 0.0049 1.7E-07 54.5 2.2 51 110-203 89-140 (201)
19 2aus_C Pseudouridine synthase; 94.4 0.022 7.4E-07 53.8 3.4 52 222-282 43-94 (334)
20 3j20_D 30S ribosomal protein S 94.4 0.033 1.1E-06 48.5 4.3 32 110-141 103-135 (180)
21 1k8w_A TRNA pseudouridine synt 94.2 0.026 8.9E-07 53.3 3.5 49 225-282 25-73 (327)
22 2apo_A Probable tRNA pseudouri 93.5 0.041 1.4E-06 52.5 3.4 52 222-282 63-114 (357)
23 3u28_A H/ACA ribonucleoprotein 93.1 0.052 1.8E-06 52.6 3.4 52 222-282 56-107 (400)
24 2xzm_D Ribosomal protein S4 co 92.5 0.042 1.4E-06 47.8 1.8 32 110-141 107-139 (181)
25 3u5c_J 40S ribosomal protein S 89.2 0.15 5.3E-06 44.9 2.1 32 110-141 107-139 (197)
26 3j20_E 30S ribosomal protein S 86.6 0.9 3.1E-05 41.3 5.5 31 111-141 44-76 (243)
27 3kbg_A 30S ribosomal protein S 81.6 1.4 4.8E-05 39.3 4.4 31 111-141 9-41 (213)
28 3iz6_C 40S ribosomal protein S 66.0 0.19 6.5E-06 44.3 -5.2 31 110-141 109-141 (195)
29 1h3f_A Tyrosyl-tRNA synthetase 59.8 15 0.00052 35.5 6.4 31 111-141 370-401 (432)
30 1jil_A Tyrrs, tyrosyl-tRNA syn 44.3 4.7 0.00016 38.8 0.0 30 111-141 354-385 (420)
31 1r3e_A TRNA pseudouridine synt 43.3 6.8 0.00023 36.6 0.9 16 225-240 3-18 (309)
32 2ktl_A Tyrosyl-tRNA synthetase 43.2 19 0.00066 30.6 3.6 31 111-141 51-82 (164)
33 2jan_A Tyrosyl-tRNA synthetase 42.7 15 0.0005 35.7 3.2 31 111-141 357-388 (432)
34 1sgv_A TRNA pseudouridine synt 42.7 7 0.00024 36.6 0.9 17 224-240 5-21 (316)
35 1fm0_D Molybdopterin convertin 37.4 1E+02 0.0034 21.7 6.4 15 189-203 62-76 (81)
36 3iz6_D 40S ribosomal protein S 30.9 32 0.0011 31.5 3.3 31 111-141 43-75 (265)
37 1tyg_B YJBS; alpha beta barrel 30.8 61 0.0021 24.4 4.3 16 188-203 67-82 (87)
38 1wv3_A Similar to DNA segregat 30.7 46 0.0016 29.2 4.2 26 191-230 148-174 (238)
39 2ts1_A Tyrosyl-tRNA synthetase 30.7 11 0.00036 36.5 0.0 31 111-141 353-384 (419)
40 2xzm_W 40S ribosomal protein S 27.5 67 0.0023 29.3 4.7 32 110-141 42-77 (260)
41 3po0_A Small archaeal modifier 27.0 58 0.002 23.6 3.6 16 188-203 69-84 (89)
42 4egu_A Histidine triad (HIT) p 25.3 42 0.0014 25.7 2.6 13 218-230 18-30 (119)
43 3oj7_A Putative histidine tria 25.0 43 0.0015 25.6 2.6 16 218-233 21-37 (117)
44 3n1s_A HIT-like protein HINT; 25.0 42 0.0015 25.9 2.6 15 217-231 16-30 (119)
45 3o1c_A Histidine triad nucleot 24.4 44 0.0015 26.0 2.6 15 217-231 28-42 (126)
46 1f0z_A THis protein; ubiquitin 21.8 60 0.0021 22.4 2.7 14 190-203 48-61 (66)
47 3u5c_E RP5, S7, YS6, 40S ribos 21.7 1.2E+02 0.0041 27.6 5.2 31 111-141 43-75 (261)
48 2q5w_D Molybdopterin convertin 21.6 74 0.0025 22.2 3.2 15 189-203 58-72 (77)
49 3ksv_A Uncharacterized protein 20.5 57 0.002 26.4 2.6 15 217-231 24-38 (149)
50 3p0t_A Uncharacterized protein 20.2 60 0.002 25.5 2.6 14 218-231 19-32 (138)
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=99.92 E-value=2.2e-26 Score=215.20 Aligned_cols=131 Identities=13% Similarity=0.075 Sum_probs=59.3
Q ss_pred CcHHHHHHHhc-CCCHHHHHHHHHcCCEEEcCccCCCCCCCCchhhhhhcccCCcccccccccccCcchhhccccccccC
Q 023330 110 GPVLEYICREL-NLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (284)
Q Consensus 110 g~L~~~L~~~l-~lSr~~i~~LI~~G~V~vng~~~~~p~~~~~~~~~~~~~~~~~~~~~kr~~~~Gk~vr~~~~~~r~~~ 188 (284)
.+|++||++.+ .+||+.++++|+.|.|++||+. +++
T Consensus 17 ~RLd~~L~~~~~~~SR~~~~~lI~~G~V~VNG~~-------------------------------------------v~~ 53 (325)
T 1v9f_A 17 QRLDQALAEMFPDYSRSRIKEWILDQRVLVNGKV-------------------------------------------CDK 53 (325)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred chHHHHHHhhccccCHHHHHHHHHCCCEEECCEE-------------------------------------------ccC
Confidence 48999999887 7999999999999999999851 135
Q ss_pred cCceecCCCEEEEEcCCCCCCCCCCCCCCcceEEeeCcEEEEECCCCCccCCCCCCccchHHHHHHHHhC---CCCCCcc
Q 023330 189 VDQIVEAGTYLRVHVHPKRFPRCYDIDWNSRIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALG---LTTPLRT 265 (284)
Q Consensus 189 ~~~~L~~GD~I~V~~~~~~~~~~~~~~~~l~ILYEDedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg---~~~pl~~ 265 (284)
+++.|++||.|+|..++.......+.+++++|||||++++|||||+||+|||+.++..+|+.+.+..++. ....+++
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 6778999999999765432212223455689999999999999999999999988777888887765442 1224678
Q ss_pred ccCCCcccceeeeeeeeC
Q 023330 266 THQIDNCTEGWYCYFTTL 283 (284)
Q Consensus 266 VHRLDRdTSGLLlfAKT~ 283 (284)
|||||++||||||||||.
T Consensus 134 vhRLD~~TSGlll~ak~~ 151 (325)
T 1v9f_A 134 VHRLDKDTTGLMVVAKTV 151 (325)
T ss_dssp CCCCCTTCEEEEEEESSH
T ss_pred ecCCCCCCeeEEEEEcCH
Confidence 999999999999999984
No 2
>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=99.90 E-value=1.9e-24 Score=193.01 Aligned_cols=114 Identities=11% Similarity=0.070 Sum_probs=92.9
Q ss_pred CcHHHHHHHhcCCCHHHHHHHHHcCCEEEcCccCCCCCCCCchhhhhhcccCCcccccccccccCcchhhccccccccCc
Q 023330 110 GPVLEYICRELNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITHV 189 (284)
Q Consensus 110 g~L~~~L~~~l~lSr~~i~~LI~~G~V~vng~~~~~p~~~~~~~~~~~~~~~~~~~~~kr~~~~Gk~vr~~~~~~r~~~~ 189 (284)
.+|++||++...+||+.++++|+.|.|++||+. +.++
T Consensus 4 ~RLd~~L~~~~~~SR~~~~~li~~G~V~VNG~~-------------------------------------------v~~~ 40 (234)
T 1ksk_A 4 MRLDKFIAQQLGVSRAIAGREIRGNRVTVDGEI-------------------------------------------VRNA 40 (234)
T ss_dssp EEHHHHHHHHHTCCHHHHHHHHHTTCEEETTEE-------------------------------------------CCCT
T ss_pred ccHHHHHHHcCCCCHHHHHHHHHcCeEEECCEE-------------------------------------------eCCC
Confidence 479999998777999999999999999999851 1246
Q ss_pred CceecCCCEEEEEcCCCCCCCCCCCCCCcceEEe-eCcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccC
Q 023330 190 DQIVEAGTYLRVHVHPKRFPRCYDIDWNSRIIAV-TESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQ 268 (284)
Q Consensus 190 ~~~L~~GD~I~V~~~~~~~~~~~~~~~~l~ILYE-DedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHR 268 (284)
++.|++||.|++.. ..|+|| |++++|||||+||+|||+.++ ..|+.+++....+ ..+++|||
T Consensus 41 ~~~v~~gD~I~v~~--------------~~i~~e~d~~~lvvnKP~G~~~~~~~~~-~~tl~~~l~~~~~--~~~~~vhR 103 (234)
T 1ksk_A 41 AFKLLPEHDVAYDG--------------NPLAQQHGPRYFMLNKPQGYVCSTDDPD-HPTVLYFLDEPVA--WKLHAAGR 103 (234)
T ss_dssp TCEECTTCCEEETT--------------EEECCCCCCCEEEEEECTTCBSSSSCSS-SCBGGGGCCCTTG--GGCEESSC
T ss_pred CCCCCCCCEEEEeC--------------eEeecCCCCEEEEEECCCCCEeCCCCCC-CCcHHHHhhhhhc--CCeeEcCC
Confidence 78999999988741 148999 999999999999999998764 6777665432211 24678999
Q ss_pred CCcccceeeeeeeeC
Q 023330 269 IDNCTEGWYCYFTTL 283 (284)
Q Consensus 269 LDRdTSGLLlfAKT~ 283 (284)
||+|||||||||||.
T Consensus 104 LD~~TsGlll~ak~~ 118 (234)
T 1ksk_A 104 LDIDTTGLVLMTDDG 118 (234)
T ss_dssp CCTTCEEEEEEESCH
T ss_pred CCCCCeeEEEEEcCH
Confidence 999999999999984
No 3
>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=99.89 E-value=4.2e-24 Score=192.22 Aligned_cols=114 Identities=14% Similarity=0.113 Sum_probs=90.9
Q ss_pred CcHHHHHHHhcCCCHHHHHHHHHcCCEEEcCccCCCCCCCCchhhhhhcccCCcccccccccccCcchhhccccccccCc
Q 023330 110 GPVLEYICRELNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITHV 189 (284)
Q Consensus 110 g~L~~~L~~~l~lSr~~i~~LI~~G~V~vng~~~~~p~~~~~~~~~~~~~~~~~~~~~kr~~~~Gk~vr~~~~~~r~~~~ 189 (284)
.+|++||++...+||+.++++|+.|.|++||+. +.++
T Consensus 3 ~RLd~~L~~~~~~SR~~~~~lI~~G~V~VNG~~-------------------------------------------v~~~ 39 (243)
T 1vio_A 3 LRLDKFIAENVGLTRSQATKAIRQSAVKINGEI-------------------------------------------VKSG 39 (243)
T ss_dssp EEHHHHHHHHHTCCHHHHHHHHHTTCEEETTEE-------------------------------------------CCCT
T ss_pred ccHHHHHHHcCCCCHHHHHHHHHcCcEEECCEE-------------------------------------------eCCC
Confidence 379999998777999999999999999999851 1246
Q ss_pred CceecCCCEEEEEcCCCCCCCCCCCCCCcceEEeeCc-EEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccC
Q 023330 190 DQIVEAGTYLRVHVHPKRFPRCYDIDWNSRIIAVTES-HVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQ 268 (284)
Q Consensus 190 ~~~L~~GD~I~V~~~~~~~~~~~~~~~~l~ILYEDed-LLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHR 268 (284)
++.|++||.|.+. + ..|+|||++ ++|||||+||+|||+.+. ..|+.+++..... ..+++|||
T Consensus 40 ~~~v~~gD~I~v~--~------------~~i~~ed~~~~lvvnKP~G~~~~~~~~~-~~tl~~~l~~~~~--~~~~~vhR 102 (243)
T 1vio_A 40 SVQISQEDEIYFE--D------------ELLTWIEEGQYFMLNKPQGCVCSNDDGD-YPTIYQFFDYPLA--GKLHSAGR 102 (243)
T ss_dssp TCEECTTSCEEET--T------------EECCSSCCCCEEEEEECTTCBSSCCC---CCBGGGGSCTTGG--GGCEESSC
T ss_pred CCCcCCCCEEEEe--c------------cccccCCCCEEEEEECCCCCEeCCCCCC-CCcHHHHHhHHhc--CCEeEccC
Confidence 7799999987763 1 248999999 999999999999998764 6677665432221 23678999
Q ss_pred CCcccceeeeeeeeC
Q 023330 269 IDNCTEGWYCYFTTL 283 (284)
Q Consensus 269 LDRdTSGLLlfAKT~ 283 (284)
||+|||||||||||.
T Consensus 103 LD~~TsGlll~ak~~ 117 (243)
T 1vio_A 103 LDVDTTGLVLLTDDG 117 (243)
T ss_dssp CCTTCEEEEEEESCH
T ss_pred CCCCCeEEEEEEECH
Confidence 999999999999984
No 4
>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=99.84 E-value=1.9e-21 Score=180.81 Aligned_cols=114 Identities=14% Similarity=0.134 Sum_probs=91.6
Q ss_pred CcHHHHHHHhcCCCHHHHHHHHHcCCEEEcCccCCCCCCCCchhhhhhcccCCcccccccccccCcchhhccccccccCc
Q 023330 110 GPVLEYICRELNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITHV 189 (284)
Q Consensus 110 g~L~~~L~~~l~lSr~~i~~LI~~G~V~vng~~~~~p~~~~~~~~~~~~~~~~~~~~~kr~~~~Gk~vr~~~~~~r~~~~ 189 (284)
.+|+.||++....||..++++|..|.|+|||+. ...
T Consensus 7 ~RLdk~La~~g~~SR~~a~~lI~~G~V~VNG~~--------------------------------------------v~~ 42 (290)
T 3dh3_A 7 VRLNKYISESGICSRREADRYIEQGNVFLNGKR--------------------------------------------ATI 42 (290)
T ss_dssp EEHHHHHHTTTSSCHHHHHHHHHTTCEEETTEE--------------------------------------------CCT
T ss_pred hHHHHHHHhCCCCCHHHHHHHHHCCCEEECCEE--------------------------------------------ccC
Confidence 489999998755899999999999999999851 255
Q ss_pred CceecCCCEEEEEcCCCCCCCCCCCCCCcceEEeeCcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccCC
Q 023330 190 DQIVEAGTYLRVHVHPKRFPRCYDIDWNSRIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQI 269 (284)
Q Consensus 190 ~~~L~~GD~I~V~~~~~~~~~~~~~~~~l~ILYEDedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHRL 269 (284)
++.|.+||.|+|...+.. + ..|||++++|||||+||+||++..+ ..|+.+++.. ...+++||||
T Consensus 43 ~~~V~~gD~I~v~~~~i~-----~------~~~ed~~~lvvnKP~G~~~~~~~~~-~~tl~~~l~~----~~~~~~VhRL 106 (290)
T 3dh3_A 43 GDQVKPGDVVKVNGQLIE-----P------REAEDLVLIALNKPVGIVSTTEDGE-RDNIVDFVNH----SKRVFPIGRL 106 (290)
T ss_dssp TCEECTTCCEEETTEEEC-----C------CCGGGCCEEEEEECTTCBCCCCSSC-TTBHHHHHTC----SSCCEESSCC
T ss_pred CcCcCCCCEEEecccccc-----c------cccccceEEEEECCCccccCCCCCC-CCcHHHHhhc----cCceeeeccC
Confidence 678999999988642110 0 1389999999999999999998754 5677775532 3457889999
Q ss_pred CcccceeeeeeeeC
Q 023330 270 DNCTEGWYCYFTTL 283 (284)
Q Consensus 270 DRdTSGLLlfAKT~ 283 (284)
|+|||||||||++.
T Consensus 107 D~dTSGLllla~d~ 120 (290)
T 3dh3_A 107 DKDSQGLIFLTNHG 120 (290)
T ss_dssp CTTCEEEEEEESCT
T ss_pred CCCCcceEEEcCCH
Confidence 99999999999985
No 5
>2i82_A Ribosomal large subunit pseudouridine synthase A; lyase/RNA complex; HET: FOU; 2.05A {Escherichia coli}
Probab=99.70 E-value=1.2e-17 Score=147.96 Aligned_cols=63 Identities=21% Similarity=0.178 Sum_probs=53.6
Q ss_pred cceEEeeCcEEEEECCCCCccCCCCC-CccchHHHHHHHHhCCCCCCccccCCCcccceeeeeeeeC
Q 023330 218 SRIIAVTESHVVLDKPAGTSVGGTTD-NIEESCATFASRALGLTTPLRTTHQIDNCTEGWYCYFTTL 283 (284)
Q Consensus 218 l~ILYEDedLLVVNKPaGl~VHPt~~-~~~~TL~~~l~~~lg~~~pl~~VHRLDRdTSGLLlfAKT~ 283 (284)
++|||||++++|||||+||+|||+.+ ...+++.+.+...+. .+++|||||++||||||||||.
T Consensus 12 ~~ilyed~~~lvvnKP~G~~~~~~~~~~~~~tl~~~l~~~~~---~~~~vhRLD~~TSGlll~ak~~ 75 (217)
T 2i82_A 12 LVILYQDDHIMVVNKPSGLLSVPGRLEEHKDSVMTRIQRDYP---QAESVHRLDMATSGVIVVALTK 75 (217)
T ss_dssp CCEEEECSSEEEEEECTTSBSSCCSSGGGCCBHHHHHHHHCT---TCEESSCCCTTCEEEEEEESSH
T ss_pred ceEEEECCCEEEEECCCCCeEeCCCCCCchhHHHHHHHHHCC---CCceeecCCCCCeEEEEEEeCH
Confidence 68999999999999999999999765 456788887765542 3578999999999999999984
No 6
>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=99.69 E-value=1.8e-17 Score=147.80 Aligned_cols=64 Identities=22% Similarity=0.202 Sum_probs=52.9
Q ss_pred ceEEeeCcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccCCCcccceeeeeeeeC
Q 023330 219 RIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGWYCYFTTL 283 (284)
Q Consensus 219 ~ILYEDedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHRLDRdTSGLLlfAKT~ 283 (284)
+|+|||++++|||||+||+|||+.+ ...++...+....+....+++|||||+|||||||||||.
T Consensus 3 ~Ilyed~~~lvvnKP~G~~~~~~~~-~~~~l~~~l~~~~~~~~~~~~VhRLD~~TSGlll~ak~~ 66 (228)
T 1v9k_A 3 VIMYEDDHILVLNKPSGTAVHGGSG-LSFGVIEGLRALRPEARFLELVHRLDRDTSGVLLVAKKR 66 (228)
T ss_dssp CEEEECSSEEEEEECTTSCSSCCSS-SBCCHHHHHHHHSTTCSCCEESSCCCTTCEEEEEEESSH
T ss_pred CEEEECCCEEEEECCCCCeEecCCC-hHHHHHHHHHHHcCCCCccceEecCCCCCeEEEEEEeCH
Confidence 6999999999999999999999776 456677766555443334678999999999999999984
No 7
>2oml_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, thrombin-cleaved, isomerase; 1.20A {Escherichia coli}
Probab=99.68 E-value=6.2e-18 Score=146.72 Aligned_cols=60 Identities=12% Similarity=0.117 Sum_probs=48.5
Q ss_pred ceEEeeCcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccCCCcccceeeeeeeeC
Q 023330 219 RIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGWYCYFTTL 283 (284)
Q Consensus 219 ~ILYEDedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHRLDRdTSGLLlfAKT~ 283 (284)
.|||||++++|||||+||+|||+.+....|+.+++. . ..+++|||||+|||||||||||.
T Consensus 5 ~ilyed~~~lvvnKP~G~~~~~~~~~~~~tl~~~l~----~-~~~~~vhRLD~~TSGlll~ak~~ 64 (189)
T 2oml_A 5 KPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIP----V-QGVYAAGRLDRDSEGLLVLTNNG 64 (189)
T ss_dssp ---CCCCCEEEEEECTTBCSCSSCCTTCBCGGGTCC----C-SSCEESSCCCTTCEEEEEEESCH
T ss_pred ccccCCCeEEEEECCCCCEecCCCCCCCCCHHHHcC----C-CCceECCCCCCCCeeEEEEEcCH
Confidence 699999999999999999999988766777765432 1 24678999999999999999984
No 8
>2olw_A Ribosomal large subunit pseudouridine synthase E; bifurcated beta sheet, isomerase; 1.60A {Escherichia coli}
Probab=99.67 E-value=9e-18 Score=149.41 Aligned_cols=62 Identities=11% Similarity=0.114 Sum_probs=47.2
Q ss_pred CcceEEeeCcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccCCCcccceeeeeeeeC
Q 023330 217 NSRIIAVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGWYCYFTTL 283 (284)
Q Consensus 217 ~l~ILYEDedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHRLDRdTSGLLlfAKT~ 283 (284)
.++|||||++++|||||+||+|||+.+....|+.+++. . ..+++|||||+|||||||||||.
T Consensus 31 ~~~Ilyed~~~lvvnKP~Gl~~~~~~~~~~~tl~~~l~----~-~~~~~VhRLDr~TSGllllAk~~ 92 (217)
T 2olw_A 31 RRKPENQPTRVILFNKPYDVLPQFTDEAGRKTLKEFIP----V-QGVYAAGRLDRDSEGLLVLTNNG 92 (217)
T ss_dssp ------CCCCEEEEEECTTBCSCSSCCTTSBCGGGTCC----C-CSCEESSCCCTTCEEEEEEESCH
T ss_pred cCceEeeCCcEEEEECCCCCEeccCCCCCCccHHHHhC----c-CCceECCCCCCCCeeEEEEEcCH
Confidence 46899999999999999999999988766677665432 1 24678999999999999999984
No 9
>2gml_A Ribosomal large subunit pseudouridine synthase F; RLUF, ribosome, RNA modifying enzyme, isomerase; 2.60A {Escherichia coli}
Probab=99.22 E-value=3.6e-12 Score=115.69 Aligned_cols=55 Identities=13% Similarity=0.172 Sum_probs=44.1
Q ss_pred eCcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccCCCcccceeeeeeeeC
Q 023330 224 TESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGWYCYFTTL 283 (284)
Q Consensus 224 DedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHRLDRdTSGLLlfAKT~ 283 (284)
++++||+|||+|++||+... ...|+.+++. ....+++|||||+|||||||||++-
T Consensus 13 ~~~~lvlnKPaG~vs~~~~~-~~~tv~dll~----~~~rl~~VgRLD~dTSGLLLlT~dg 67 (237)
T 2gml_A 13 DLVLIALNKPVGIVSTTEDG-ERDNIVDFVN----HSKRVFPIGRLDKDSQGLIFLTNHG 67 (237)
T ss_dssp CCCEEEEEECTTCBCCSSSS-CSSBHHHHSC----CSSCCEEESCCCTTCEEEEEEESCH
T ss_pred CCEEEEEECCCCCEeCCCCC-CCCCHHHHhh----ccCCeeEecCCCCCCeeEEEEEcCH
Confidence 46799999999999999765 4567766442 2234789999999999999999973
No 10
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori}
Probab=98.28 E-value=9e-08 Score=73.71 Aligned_cols=73 Identities=12% Similarity=0.147 Sum_probs=52.5
Q ss_pred cHHHHHHHhc-CCCHHHHHHHHHcCCEEEcCccCCCCCCCCchhhhhhcccCCcccccccccccCcchhhccccccccCc
Q 023330 111 PVLEYICREL-NLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITHV 189 (284)
Q Consensus 111 ~L~~~L~~~l-~lSr~~i~~LI~~G~V~vng~~~~~p~~~~~~~~~~~~~~~~~~~~~kr~~~~Gk~vr~~~~~~r~~~~ 189 (284)
+|+.||++.. ..|++++++||..|.|++||.. .++
T Consensus 2 RLD~~L~~~~~~~sR~~~~~li~~G~V~VNg~~--------------------------------------------~~~ 37 (92)
T 2k6p_A 2 RIDKFLQSVGLVKRRVLATDMCNVGAVWLNGSC--------------------------------------------AKA 37 (92)
T ss_dssp BHHHHSTTTTSCCCCCSSCCHHHHTCCEETTEE--------------------------------------------CCT
T ss_pred hHHHHHHHCCCCCCHHHHHHHHHCCcEEECCEE--------------------------------------------cCC
Confidence 6899998653 3599999999999999999851 255
Q ss_pred CceecCCCEEEEEcCCCCCCC--------CCCCCCCcceEEeeCcE
Q 023330 190 DQIVEAGTYLRVHVHPKRFPR--------CYDIDWNSRIIAVTESH 227 (284)
Q Consensus 190 ~~~L~~GD~I~V~~~~~~~~~--------~~~~~~~l~ILYEDedL 227 (284)
++.|++||.|.|..+++.... .......++|+|||+++
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 678999999999865432110 01112347899999975
No 11
>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=97.90 E-value=7e-06 Score=68.04 Aligned_cols=73 Identities=11% Similarity=0.068 Sum_probs=52.3
Q ss_pred CcHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCccCCCCCCCCchhhhhhcccCCcccccccccccCcchhhccccccccC
Q 023330 110 GPVLEYICRE-LNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (284)
Q Consensus 110 g~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~~~~~p~~~~~~~~~~~~~~~~~~~~~kr~~~~Gk~vr~~~~~~r~~~ 188 (284)
.+|+.||... +..|++.++++|..|.|.|||.. .+
T Consensus 9 ~RLDk~L~~~~~~~SRs~a~~li~~G~V~VNG~~--------------------------------------------vk 44 (133)
T 1dm9_A 9 VRLDKWLWAARFYKTRALAREMIEGGKVHYNGQR--------------------------------------------SK 44 (133)
T ss_dssp CBHHHHHHHTTSSSSHHHHHHHHHTTCEEETTEE--------------------------------------------CC
T ss_pred hhHHHHHHHCCCCCCHHHHHHHHHCCcEEECCEE--------------------------------------------cC
Confidence 5899999876 45799999999999999999851 25
Q ss_pred cCceecCCCEEEEEcCCCCCCC-CCC-----C-CCCcceEEeeCc
Q 023330 189 VDQIVEAGTYLRVHVHPKRFPR-CYD-----I-DWNSRIIAVTES 226 (284)
Q Consensus 189 ~~~~L~~GD~I~V~~~~~~~~~-~~~-----~-~~~l~ILYEDed 226 (284)
+++.|+.||.|.|...+..... ... . .-..+++|||..
T Consensus 45 ~s~~V~~GD~I~I~~~~~~~~~~v~~~~~~r~~a~~a~~lYed~~ 89 (133)
T 1dm9_A 45 PSKIVELNATLTLRQGNDERTVIVKAITEQRRPASEAALLYEETA 89 (133)
T ss_dssp TTCBCCTTCEEEEEETTEEEEEEECEEESCCCCHHHHGGGEEECH
T ss_pred CCCEeCCCCEEEEEeCCceeeEEEccccccCCCcHHhhhheEECC
Confidence 6778999999999875432110 000 0 012578999874
No 12
>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=97.30 E-value=8.3e-05 Score=55.75 Aligned_cols=31 Identities=13% Similarity=-0.091 Sum_probs=27.7
Q ss_pred CcHHHHHHHhcCC--CHHHHHHHHHcCCEEEcCc
Q 023330 110 GPVLEYICRELNL--PPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 110 g~L~~~L~~~l~l--Sr~~i~~LI~~G~V~vng~ 141 (284)
.+|+.||++. ++ ||+.+++||..|.|++||+
T Consensus 21 ~RLdk~L~~~-g~~~SR~~a~~lI~~G~V~VNG~ 53 (79)
T 1p9k_A 21 VELCDLLKLE-GWSESGAQAKIAIAEGQVKVDGA 53 (79)
T ss_dssp CCHHHHHHHH-TSCSSSSTTSHHHHHHHHEETTB
T ss_pred chHHHHHHHC-CCCCCHHHHHHHHHCCEEEECCE
Confidence 5899999875 53 9999999999999999985
No 13
>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=96.98 E-value=0.0013 Score=55.89 Aligned_cols=52 Identities=13% Similarity=0.105 Sum_probs=42.8
Q ss_pred CcHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCccCCCCCCCCchhhhhhcccCCcccccccccccCcchhhccccccccC
Q 023330 110 GPVLEYICRE-LNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (284)
Q Consensus 110 g~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~~~~~p~~~~~~~~~~~~~~~~~~~~~kr~~~~Gk~vr~~~~~~r~~~ 188 (284)
.+||.+|.+. ++.||..+++||..|.|.|||+. +.+
T Consensus 51 ~RLD~~L~~~g~~~SR~~ar~lI~~G~V~VNG~~-------------------------------------------v~~ 87 (159)
T 1c05_A 51 SRLDNLVYRLGLARTRRQARQLVTHGHILVDGSR-------------------------------------------VNI 87 (159)
T ss_dssp HBHHHHHHHTTSCSSHHHHHHHHHTTCEEETTEE-------------------------------------------CCC
T ss_pred HHHHHHHHHcCCcCCHHHHHHHHHCCCEEECCEE-------------------------------------------eCc
Confidence 4799999865 36899999999999999999851 236
Q ss_pred cCceecCCCEEEEEcC
Q 023330 189 VDQIVEAGTYLRVHVH 204 (284)
Q Consensus 189 ~~~~L~~GD~I~V~~~ 204 (284)
+++.|++||.|+|...
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 7789999999998653
No 14
>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=96.77 E-value=0.0021 Score=57.01 Aligned_cols=52 Identities=12% Similarity=0.080 Sum_probs=43.1
Q ss_pred CcHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCccCCCCCCCCchhhhhhcccCCcccccccccccCcchhhccccccccC
Q 023330 110 GPVLEYICRE-LNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (284)
Q Consensus 110 g~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~~~~~p~~~~~~~~~~~~~~~~~~~~~kr~~~~Gk~vr~~~~~~r~~~ 188 (284)
.+||.+|.+. ++.|+..+++||..|.|.|||.. +..
T Consensus 99 ~RLD~~L~~~g~~~SR~~arqLI~~G~V~VNG~~-------------------------------------------v~~ 135 (209)
T 2vqe_D 99 SRLDNVVYRLGFAVSRRQARQLVRHGHITVNGRR-------------------------------------------VDL 135 (209)
T ss_dssp TBHHHHHHHTTSSSSHHHHHHHHHTTCEEETTEE-------------------------------------------CCC
T ss_pred HHHHHHHHHhcCcCCHHHHHHHHHCCCEEECCEE-------------------------------------------eCc
Confidence 5899999865 46899999999999999999851 235
Q ss_pred cCceecCCCEEEEEcC
Q 023330 189 VDQIVEAGTYLRVHVH 204 (284)
Q Consensus 189 ~~~~L~~GD~I~V~~~ 204 (284)
+++.|++||.|+|...
T Consensus 136 ps~~V~~gD~I~V~~~ 151 (209)
T 2vqe_D 136 PSYRVRPGDEIAVAEK 151 (209)
T ss_dssp TTCBCCTTCEEEECGG
T ss_pred CCcCcCCCCEEEEcCc
Confidence 7789999999998743
No 15
>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=96.19 E-value=0.0059 Score=56.46 Aligned_cols=31 Identities=13% Similarity=-0.056 Sum_probs=27.8
Q ss_pred CcHHHHHHHh-cCCCHHHHHHHHHcCCEEEcC
Q 023330 110 GPVLEYICRE-LNLPPLFVADLIHFGAVYYAL 140 (284)
Q Consensus 110 g~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng 140 (284)
.|||.||.+. +..||+++++||..|.|++||
T Consensus 7 ~RLD~~L~~~g~~~SR~~a~~lI~~G~V~Vng 38 (291)
T 3hp7_A 7 ERVDVLAYKQGLFETREQAKRGVMAGLVVNVI 38 (291)
T ss_dssp EEHHHHHHHTTSSSSHHHHHHHHHTTCEEETT
T ss_pred hhHHHHHHHcCCcccHHHHHHHHHCCeEEECC
Confidence 4899999875 468999999999999999998
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=96.18 E-value=0.0013 Score=58.56 Aligned_cols=32 Identities=13% Similarity=0.080 Sum_probs=28.0
Q ss_pred CcHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCc
Q 023330 110 GPVLEYICRE-LNLPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 110 g~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~ 141 (284)
.+||.||.+. +..|+..+++||..|.|.|||.
T Consensus 95 ~RLD~~L~r~g~~~SR~~ArqLI~~G~V~VNG~ 127 (205)
T 3r8n_D 95 GRLDNVVYRMGFGATRAEARQLVSHKAIMVNGR 127 (205)
T ss_dssp TBTTHHHHTTSSCSSHHHHHHHHHTTCCBSSSS
T ss_pred hhHHHHHHHhcchhHHHHHHHHHHCCCEEECCE
Confidence 4789999864 4689999999999999999985
No 17
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog; S4 domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=95.59 E-value=0.011 Score=43.70 Aligned_cols=32 Identities=6% Similarity=-0.043 Sum_probs=27.1
Q ss_pred CcHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCc
Q 023330 110 GPVLEYICRE-LNLPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 110 g~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~ 141 (284)
.+||.+|.+. +.-|+.++++||..|.|.+||+
T Consensus 8 ~RLD~~l~~~gla~SR~~A~~lI~~G~V~Vng~ 40 (71)
T 2cqj_A 8 RRLPTVLLKLRMAQHLQAAVAFVEQGHVRVGPD 40 (71)
T ss_dssp EEHHHHHHHTTCSSSHHHHHHHHHTTCEEETTB
T ss_pred HHHHHHHHHhCCcCCHHHHHHHHHCCcEEECCE
Confidence 4799998754 3459999999999999999985
No 18
>3bbn_D Ribosomal protein S4; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=95.53 E-value=0.0049 Score=54.53 Aligned_cols=51 Identities=4% Similarity=-0.117 Sum_probs=40.5
Q ss_pred CcHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCccCCCCCCCCchhhhhhcccCCcccccccccccCcchhhccccccccC
Q 023330 110 GPVLEYICRE-LNLPPLFVADLIHFGAVYYALVCPKPPLTATPEQMRVFKEVTDPSVLSKRSSIKGKTVREAQKTFRITH 188 (284)
Q Consensus 110 g~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~~~~~p~~~~~~~~~~~~~~~~~~~~~kr~~~~Gk~vr~~~~~~r~~~ 188 (284)
.+||.+|.+. +..|+..+++||..|.|.|||.. +..
T Consensus 89 ~RLD~~L~r~g~a~SR~~ArqLI~~G~V~VNG~~-------------------------------------------V~~ 125 (201)
T 3bbn_D 89 MRLDNILFRLGMAPTIPGARQLVNHRHILVNGRI-------------------------------------------VDI 125 (201)
T ss_dssp SBTTTTTTTTTSSSSSHHHHHHHHTTCEEETTEE-------------------------------------------CCC
T ss_pred HHHHHHHHHcCCcCCHHHHHHHHhCCcEEeCCEE-------------------------------------------Eee
Confidence 3677777653 24799999999999999999851 246
Q ss_pred cCceecCCCEEEEEc
Q 023330 189 VDQIVEAGTYLRVHV 203 (284)
Q Consensus 189 ~~~~L~~GD~I~V~~ 203 (284)
+++.|++||.|+|.-
T Consensus 126 pS~~V~~gD~I~V~~ 140 (201)
T 3bbn_D 126 PSYRCKPQDTIMARD 140 (201)
T ss_dssp TTCBCCTTEEEEECS
T ss_pred cceecCCCCEEEEcc
Confidence 778999999999864
No 19
>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=94.44 E-value=0.022 Score=53.79 Aligned_cols=52 Identities=19% Similarity=0.224 Sum_probs=41.6
Q ss_pred EeeCcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccCCCcccceeeeeeee
Q 023330 222 AVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGWYCYFTT 282 (284)
Q Consensus 222 YEDedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHRLDRdTSGLLlfAKT 282 (284)
|-.+.+|+||||.||.+|- +++.+.+.++... +....-||-..||+|+++-.
T Consensus 43 ~~~~Gil~vdKP~g~tS~~--------vv~~vr~~~~~~K-vGH~GTLDP~atGvL~v~~g 94 (334)
T 2aus_C 43 HIQYGVINLDKPPGPTSHE--------VVAWIKRILNLEK-AGHGGTLDPKVSGVLPVALE 94 (334)
T ss_dssp HHHTEEEEEEECSSSCHHH--------HHHHHHHHTTCSC-EEESSCCCTTCEEEEEEEEG
T ss_pred hccCcEEEEECCCCCCHHH--------HHHHHHHHhCcce-eccccccCCccceeEEEEeC
Confidence 4457899999999998874 5666777777543 44589999999999999854
No 20
>3j20_D 30S ribosomal protein S4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=94.42 E-value=0.033 Score=48.51 Aligned_cols=32 Identities=13% Similarity=0.019 Sum_probs=26.6
Q ss_pred CcHHHHHHH-hcCCCHHHHHHHHHcCCEEEcCc
Q 023330 110 GPVLEYICR-ELNLPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 110 g~L~~~L~~-~l~lSr~~i~~LI~~G~V~vng~ 141 (284)
.+|+.+|.+ .+.-|+..+++||..|.|.|||.
T Consensus 103 ~RLD~~L~~~G~a~SR~~Ar~LI~~G~V~VNg~ 135 (180)
T 3j20_D 103 RRLQTIVYKKGLARTMRQARQLIVHGHIEVNGQ 135 (180)
T ss_dssp TSHHHHHHHHTSSSSHHHHHHHHHHTCCEESSS
T ss_pred hhhhheeecCcccCcHHHHHHHHHcCCeEECCE
Confidence 478888864 34569999999999999999985
No 21
>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=94.23 E-value=0.026 Score=53.34 Aligned_cols=49 Identities=20% Similarity=0.220 Sum_probs=39.6
Q ss_pred CcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccCCCcccceeeeeeee
Q 023330 225 ESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGWYCYFTT 282 (284)
Q Consensus 225 edLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHRLDRdTSGLLlfAKT 282 (284)
+.+++||||+||.+|- +++.+.+.++... +.....||-..||+|+++-.
T Consensus 25 ~Gil~vdKP~G~TS~d--------vv~~vr~~l~~kK-vGH~GTLDP~AtGvL~i~~G 73 (327)
T 1k8w_A 25 NGVLLLDKPQGMSSND--------ALQKVKRIYNANR-AGHTGALDPLATGMLPICLG 73 (327)
T ss_dssp CEEEEEEECTTCCHHH--------HHHHHHHHTTCSC-EEESSCCCTTCEEEEEEEEG
T ss_pred CeEEEEECCCCCCHHH--------HHHHHHHhhccce-eccCCCCCCCCeeEEEEEEC
Confidence 4699999999999874 5666777776554 44599999999999999854
No 22
>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=93.51 E-value=0.041 Score=52.50 Aligned_cols=52 Identities=21% Similarity=0.250 Sum_probs=41.8
Q ss_pred EeeCcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccCCCcccceeeeeeee
Q 023330 222 AVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGWYCYFTT 282 (284)
Q Consensus 222 YEDedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHRLDRdTSGLLlfAKT 282 (284)
|-.+.+|+||||+||.+|- +++.+.+.++... +....-||-..||+|+++-.
T Consensus 63 ~~~~Gil~vdKP~G~TS~~--------vv~~vr~~l~~~K-vGH~GTLDP~AtGvL~v~~G 114 (357)
T 2apo_A 63 LIKYGVVVVDKPRGPTSHE--------VSTWVKKILNLDK-AGHGGTLDPKVTGVLPVALE 114 (357)
T ss_dssp HHHTEEEEEEECSSSCHHH--------HHHHHHHHTTCSC-EEESSCCCTTCEEEEEEEEG
T ss_pred hccCcEEEEECCCCCCHHH--------HHHHHHHHhCccc-cccccccCCCceeEEEEEeC
Confidence 4567899999999999874 5667777777553 44589999999999999854
No 23
>3u28_A H/ACA ribonucleoprotein complex subunit 4; pseudouridine synthase, pseudouridylation, H/ACA RNA; 1.90A {Saccharomyces cerevisiae} PDB: 3uai_A
Probab=93.07 E-value=0.052 Score=52.62 Aligned_cols=52 Identities=17% Similarity=0.221 Sum_probs=42.2
Q ss_pred EeeCcEEEEECCCCCccCCCCCCccchHHHHHHHHhCCCCCCccccCCCcccceeeeeeee
Q 023330 222 AVTESHVVLDKPAGTSVGGTTDNIEESCATFASRALGLTTPLRTTHQIDNCTEGWYCYFTT 282 (284)
Q Consensus 222 YEDedLLVVNKPaGl~VHPt~~~~~~TL~~~l~~~lg~~~pl~~VHRLDRdTSGLLlfAKT 282 (284)
|-.+.+|+||||.||.+|- +++.+.+.++... +....-||-..||||+++-.
T Consensus 56 ~~~~Gil~ldKP~G~TS~d--------vv~~vrr~l~~kK-vGH~GTLDP~AtGvL~v~iG 107 (400)
T 3u28_A 56 YISSGVINLDKPSNPSSHE--------VVAWIKRILRCEK-TGHSGTLDPKVTGCLIVCID 107 (400)
T ss_dssp HHHTEEEEEEECSSSCHHH--------HHHHHHHHHTCSC-EEESSCCCTTCEEEEEEEEG
T ss_pred hccCcEEEEECCCCCCHHH--------HHHHHHHHhCcCc-ccccCCCCCCCeEEEEEEEC
Confidence 5568999999999999874 5667777777654 44589999999999999864
No 24
>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_D
Probab=92.55 E-value=0.042 Score=47.78 Aligned_cols=32 Identities=9% Similarity=-0.092 Sum_probs=27.3
Q ss_pred CcHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCc
Q 023330 110 GPVLEYICRE-LNLPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 110 g~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~ 141 (284)
.+||.+|.+. +..|+..+++||..|.|.|||.
T Consensus 107 ~RLD~vL~~~G~a~SR~~Ar~LI~~G~V~VNg~ 139 (181)
T 2xzm_D 107 RRLQTRVFKLNLANSIHHSRVLIRQRHIKVGKN 139 (181)
T ss_dssp TBHHHHHHHTTCSSSTTHHHHHTTTTCCEETTE
T ss_pred cchhHHHHhccccCCHHHHHHHHHCCEEEECCE
Confidence 5899998643 4569999999999999999985
No 25
>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=89.21 E-value=0.15 Score=44.94 Aligned_cols=32 Identities=9% Similarity=-0.062 Sum_probs=26.1
Q ss_pred CcHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCc
Q 023330 110 GPVLEYICRE-LNLPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 110 g~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~ 141 (284)
.+|+.+|.+. +.-|+..+++||..|.|.|||.
T Consensus 107 ~RLD~~L~r~G~a~Sr~~ArqLI~~GhV~VNG~ 139 (197)
T 3u5c_J 107 RRLQTQVYKLGLAKSVHHARVLITQRHIAVGKQ 139 (197)
T ss_dssp TSHHHHHHHSSTTSSHHHHHHHHHTSCCBSSSC
T ss_pred HHHHHHHHHccccCCHHHHHHHHHcCCEEECCE
Confidence 4788888652 3359999999999999999985
No 26
>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=86.61 E-value=0.9 Score=41.26 Aligned_cols=31 Identities=13% Similarity=0.066 Sum_probs=28.0
Q ss_pred cHHHHHHHhcC--CCHHHHHHHHHcCCEEEcCc
Q 023330 111 PVLEYICRELN--LPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 111 ~L~~~L~~~l~--lSr~~i~~LI~~G~V~vng~ 141 (284)
+|.-||.+.|+ .+...+++++.+|.|.|||+
T Consensus 44 PL~i~LRdrLgyA~t~rEar~Iv~~~~I~VdGK 76 (243)
T 3j20_E 44 PLLYIVRDYLGYAKTAREARKILNEGKFLVDGR 76 (243)
T ss_dssp EHHHHHHTTSCCCSSHHHHHHHHHHCSCEETTE
T ss_pred eehhhhhhhhccccCHHHHHHHHHCCcEEECCE
Confidence 68889999887 78889999999999999985
No 27
>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=81.57 E-value=1.4 Score=39.28 Aligned_cols=31 Identities=19% Similarity=0.012 Sum_probs=27.2
Q ss_pred cHHHHHHHhcC--CCHHHHHHHHHcCCEEEcCc
Q 023330 111 PVLEYICRELN--LPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 111 ~L~~~L~~~l~--lSr~~i~~LI~~G~V~vng~ 141 (284)
+|.-||.+.|+ .+...+++++..|.|.|||+
T Consensus 9 PL~i~LRdrLgyA~t~rEarkIv~~~~I~VDGK 41 (213)
T 3kbg_A 9 TLLSIIRDYLKLSDKEREAARILANGLVKVDGK 41 (213)
T ss_dssp EHHHHHHHHHHTTTCGGGHHHHHHTTCEEETTE
T ss_pred eeHHHHhhhhcccccHHHHHHHHHCCCEEECCE
Confidence 67888888876 67889999999999999986
No 28
>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=66.00 E-value=0.19 Score=44.29 Aligned_cols=31 Identities=6% Similarity=-0.010 Sum_probs=23.7
Q ss_pred CcHHHHHHHhcCC--CHHHHHHHHHcCCEEEcCc
Q 023330 110 GPVLEYICRELNL--PPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 110 g~L~~~L~~~l~l--Sr~~i~~LI~~G~V~vng~ 141 (284)
.+|+.+|.+ +++ |+..+++||..|.|.|||.
T Consensus 109 ~RLD~~L~r-~G~a~SR~~ArqlI~~GhV~VNG~ 141 (195)
T 3iz6_C 109 RRLQTLVFK-AGMAKSIHHARVLIRQRHIRVGRQ 141 (195)
T ss_dssp SCCCSSCCC-CCCHHHHSCTTSHHHHHSTTTSCC
T ss_pred hhhhHHHHh-ccccCCHHHHHHHHHcCCEEECCE
Confidence 456666653 453 7778999999999999985
No 29
>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=59.84 E-value=15 Score=35.48 Aligned_cols=31 Identities=13% Similarity=-0.097 Sum_probs=25.6
Q ss_pred cHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCc
Q 023330 111 PVLEYICRE-LNLPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 111 ~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~ 141 (284)
.+.+.|... +--|++.++++|+.|+|+|||+
T Consensus 370 ~~~~~l~~~~l~~S~~earr~i~~ggv~vn~~ 401 (432)
T 1h3f_A 370 WVARLFTLAGLTPSNAEARRLIQNRGLRLDGE 401 (432)
T ss_dssp EHHHHHHHTTSSSSHHHHHHHHHTTCEEETTE
T ss_pred cHHHHHHHhCCcccHHHHHHHHHhCCEEECCE
Confidence 577777643 4479999999999999999985
No 30
>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=44.31 E-value=4.7 Score=38.83 Aligned_cols=30 Identities=13% Similarity=0.140 Sum_probs=0.0
Q ss_pred cHHHHHHHhcC--CCHHHHHHHHHcCCEEEcCc
Q 023330 111 PVLEYICRELN--LPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 111 ~L~~~L~~~l~--lSr~~i~~LI~~G~V~vng~ 141 (284)
.|.++|.. .+ -|++.++++|..|+|+|||+
T Consensus 354 ~l~~lL~~-agl~~SksEARRlI~~GgV~VNge 385 (420)
T 1jil_A 354 NIVEVLIE-TGISPSKRQAREDVNNGAIYINGE 385 (420)
T ss_dssp ---------------------------------
T ss_pred cHHHHHHH-cCCccCHHHHHHHHHhCCEEECCE
Confidence 57777753 34 58889999999999999986
No 31
>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=43.27 E-value=6.8 Score=36.57 Aligned_cols=16 Identities=25% Similarity=0.337 Sum_probs=14.2
Q ss_pred CcEEEEECCCCCccCC
Q 023330 225 ESHVVLDKPAGTSVGG 240 (284)
Q Consensus 225 edLLVVNKPaGl~VHP 240 (284)
+.+++||||+||.+|-
T Consensus 3 ~Gil~vdKP~G~TS~~ 18 (309)
T 1r3e_A 3 HGILVAYKPKGPTSHD 18 (309)
T ss_dssp CEEEEEEECSSSCHHH
T ss_pred CeEEEEECCCCCCHHH
Confidence 4589999999999985
No 32
>2ktl_A Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA synthetase, ligase; NMR {Aspergillus nidulans fgsc A4}
Probab=43.18 E-value=19 Score=30.64 Aligned_cols=31 Identities=10% Similarity=-0.013 Sum_probs=25.4
Q ss_pred cHHHHHHH-hcCCCHHHHHHHHHcCCEEEcCc
Q 023330 111 PVLEYICR-ELNLPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 111 ~L~~~L~~-~l~lSr~~i~~LI~~G~V~vng~ 141 (284)
.+.++|.+ .+--|++.++++|..|+||||+.
T Consensus 51 ~ivdlLv~aGLa~SKsEARRlI~qGGv~VNg~ 82 (164)
T 2ktl_A 51 TFSKVLWSAGLVASKSEGQRIINNNGAYVGSR 82 (164)
T ss_dssp SHHHHHHHHTSCSTHHHHHHHHHHTCEEEEEC
T ss_pred cHHHHHHHhCcccCHHHHHHHHHhCCEEECCE
Confidence 57777753 34468999999999999999985
No 33
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA synthetase, tyrrs, ligase, tyrosine, RNA-binding, ATP-binding; 2.9A {Mycobacterium tuberculosis}
Probab=42.68 E-value=15 Score=35.65 Aligned_cols=31 Identities=16% Similarity=0.179 Sum_probs=25.5
Q ss_pred cHHHHHHHh-cCCCHHHHHHHHHcCCEEEcCc
Q 023330 111 PVLEYICRE-LNLPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 111 ~L~~~L~~~-l~lSr~~i~~LI~~G~V~vng~ 141 (284)
.+.+.|.+. +--|++.++++|..|+|+|||+
T Consensus 357 ~~~~ll~~~gl~~S~~earr~i~~ggv~in~~ 388 (432)
T 2jan_A 357 GIVDLLVASGLSASKGAARRTIHEGGVSVNNI 388 (432)
T ss_dssp SHHHHHHHHTSCSSHHHHHHHHTTTCEEESSC
T ss_pred hHHHHHHHhCCcccHHHHHHHHHhCCEEECCE
Confidence 578877642 3469999999999999999985
No 34
>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=42.67 E-value=7 Score=36.62 Aligned_cols=17 Identities=41% Similarity=0.575 Sum_probs=14.8
Q ss_pred eCcEEEEECCCCCccCC
Q 023330 224 TESHVVLDKPAGTSVGG 240 (284)
Q Consensus 224 DedLLVVNKPaGl~VHP 240 (284)
.+.+++||||.||.+|-
T Consensus 5 ~~Gil~vdKP~G~TS~d 21 (316)
T 1sgv_A 5 GPGIVVIDKPAGMTSHD 21 (316)
T ss_dssp CSEEEEEEECTTCCHHH
T ss_pred CCeEEEEECCCCCCHHH
Confidence 45799999999999985
No 35
>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=37.38 E-value=1e+02 Score=21.67 Aligned_cols=15 Identities=13% Similarity=0.182 Sum_probs=12.2
Q ss_pred cCceecCCCEEEEEc
Q 023330 189 VDQIVEAGTYLRVHV 203 (284)
Q Consensus 189 ~~~~L~~GD~I~V~~ 203 (284)
.++.|+.||.|.|..
T Consensus 62 ~~~~l~~gD~V~i~P 76 (81)
T 1fm0_D 62 FDHPLTDGDEVAFFP 76 (81)
T ss_dssp TTCBCCTTCEEEEEC
T ss_pred CCCCCCCCCEEEEeC
Confidence 456899999998863
No 36
>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=30.90 E-value=32 Score=31.48 Aligned_cols=31 Identities=19% Similarity=0.107 Sum_probs=26.6
Q ss_pred cHHHHHHHhcC--CCHHHHHHHHHcCCEEEcCc
Q 023330 111 PVLEYICRELN--LPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 111 ~L~~~L~~~l~--lSr~~i~~LI~~G~V~vng~ 141 (284)
+|.-||.+.|+ ++...++..+.+|.|.|||+
T Consensus 43 PL~i~LRd~LkyA~t~~EakkIl~q~~VkVDGk 75 (265)
T 3iz6_D 43 PLILIIRNRLKYALTYREVISILMQRHVLVDGK 75 (265)
T ss_dssp CHHHHHHHHHTTSSCSSSTHHHHHTTCCEETTE
T ss_pred eeHHHhhhhhcccccHHHHHHHHHCCcEEECCE
Confidence 67888888887 56678999999999999996
No 37
>1tyg_B YJBS; alpha beta barrel, protein-protein complex, THis, BIOS protein; 3.15A {Bacillus subtilis} SCOP: d.15.3.2
Probab=30.76 E-value=61 Score=24.42 Aligned_cols=16 Identities=0% Similarity=-0.143 Sum_probs=12.7
Q ss_pred CcCceecCCCEEEEEc
Q 023330 188 HVDQIVEAGTYLRVHV 203 (284)
Q Consensus 188 ~~~~~L~~GD~I~V~~ 203 (284)
..++.|+.||.|+|..
T Consensus 67 ~~~~~L~dGD~Vei~~ 82 (87)
T 1tyg_B 67 YHEVELCDRDVIEIVH 82 (87)
T ss_dssp TTTSBCCSSSEEEEEE
T ss_pred cCCcCCCCCCEEEEEc
Confidence 3357899999999873
No 38
>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=30.72 E-value=46 Score=29.20 Aligned_cols=26 Identities=15% Similarity=0.087 Sum_probs=19.7
Q ss_pred ceec-CCCEEEEEcCCCCCCCCCCCCCCcceEEeeCcEEEE
Q 023330 191 QIVE-AGTYLRVHVHPKRFPRCYDIDWNSRIIAVTESHVVL 230 (284)
Q Consensus 191 ~~L~-~GD~I~V~~~~~~~~~~~~~~~~l~ILYEDedLLVV 230 (284)
..|+ .||.|.|. ...+.+..++++|+
T Consensus 148 ~~L~~~GD~I~ig--------------~~~~~~~~~~l~i~ 174 (238)
T 1wv3_A 148 TNKAYIGDHIYVE--------------GIWLEVQADGLNVL 174 (238)
T ss_dssp EEEEETTCEEEET--------------TEEEEECSSEEEEE
T ss_pred eeccCCcCEEEEC--------------CEEEEEECCEEEEE
Confidence 3789 99999873 24678888888884
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=30.66 E-value=11 Score=36.48 Aligned_cols=31 Identities=19% Similarity=0.276 Sum_probs=0.0
Q ss_pred cHHHHHHH-hcCCCHHHHHHHHHcCCEEEcCc
Q 023330 111 PVLEYICR-ELNLPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 111 ~L~~~L~~-~l~lSr~~i~~LI~~G~V~vng~ 141 (284)
.+.+.|.+ .+--|++.++++|..|+|+|||+
T Consensus 353 ~~~~~l~~~gl~~S~~earr~i~~ggv~in~~ 384 (419)
T 2ts1_A 353 PLVELLVSAGISPSKRQAREDIQNGAIYVNGE 384 (419)
T ss_dssp --------------------------------
T ss_pred cHHHHHHHhCCCCCHHHHHHHHHhCCEEECCE
Confidence 46666653 23358899999999999999985
No 40
>2xzm_W 40S ribosomal protein S4; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_W
Probab=27.48 E-value=67 Score=29.27 Aligned_cols=32 Identities=19% Similarity=0.069 Sum_probs=28.0
Q ss_pred CcHHHHHHHhcC--CCHHHHHHHHHc--CCEEEcCc
Q 023330 110 GPVLEYICRELN--LPPLFVADLIHF--GAVYYALV 141 (284)
Q Consensus 110 g~L~~~L~~~l~--lSr~~i~~LI~~--G~V~vng~ 141 (284)
-+|.-+|.+.|+ ++...++..+.+ |.|.|||+
T Consensus 42 lPL~i~LRd~LkyA~t~rEak~Il~q~~~~VkVDGk 77 (260)
T 2xzm_W 42 LPLSVLLKERLNYALNGRDVTLILNDKEQNVFVDGK 77 (260)
T ss_dssp EEHHHHHTTTTCSCCSHHHHHHHTTSTTCCEEETTE
T ss_pred ehhHhhhhhhhccccchhHHHHHHhccCCeEEECCE
Confidence 368888988887 788899999999 99999996
No 41
>3po0_A Small archaeal modifier protein 1; ubiquitin-like protein, protein binding; 1.55A {Haloferax volcanii} PDB: 2l83_A
Probab=26.99 E-value=58 Score=23.57 Aligned_cols=16 Identities=19% Similarity=0.243 Sum_probs=12.7
Q ss_pred CcCceecCCCEEEEEc
Q 023330 188 HVDQIVEAGTYLRVHV 203 (284)
Q Consensus 188 ~~~~~L~~GD~I~V~~ 203 (284)
..++.|+.||.|.|..
T Consensus 69 ~~~~~l~~gDeV~i~P 84 (89)
T 3po0_A 69 ALGEATAAGDELALFP 84 (89)
T ss_dssp CTTSBCCTTCEEEEEC
T ss_pred CCCcccCCCCEEEEEC
Confidence 3467899999999874
No 42
>4egu_A Histidine triad (HIT) protein; structural genomics, center for structural genomics of infec diseases, csgid, HIT domain, unknown function; HET: 5GP; 0.95A {Clostridium difficile}
Probab=25.32 E-value=42 Score=25.66 Aligned_cols=13 Identities=8% Similarity=0.087 Sum_probs=10.8
Q ss_pred cceEEeeCcEEEE
Q 023330 218 SRIIAVTESHVVL 230 (284)
Q Consensus 218 l~ILYEDedLLVV 230 (284)
.+|||||++++++
T Consensus 18 ~~iv~e~e~~~af 30 (119)
T 4egu_A 18 STKVYEDDRVLAF 30 (119)
T ss_dssp CCEEEECSSEEEE
T ss_pred CCEEEECCCEEEE
Confidence 4799999998865
No 43
>3oj7_A Putative histidine triad family protein; hydrolase, structural genomics, seattle structural genomics for infectious disease, ssgcid; 1.40A {Entamoeba histolytica} SCOP: d.13.1.0 PDB: 3omf_A* 3oxk_A*
Probab=25.03 E-value=43 Score=25.58 Aligned_cols=16 Identities=19% Similarity=0.202 Sum_probs=12.0
Q ss_pred cceEEeeCcEEEE-ECC
Q 023330 218 SRIIAVTESHVVL-DKP 233 (284)
Q Consensus 218 l~ILYEDedLLVV-NKP 233 (284)
.+||||||+++++ |+=
T Consensus 21 ~~iv~e~~~~~af~d~~ 37 (117)
T 3oj7_A 21 STIVYEDDEIFAFKDIN 37 (117)
T ss_dssp CCEEEECSSEEEEECSS
T ss_pred CCEEEECCcEEEEECCC
Confidence 4799999988864 443
No 44
>3n1s_A HIT-like protein HINT; histidine triad nucleotide binding protein, GMP, hydro; HET: 5GP; 1.45A {Escherichia coli} SCOP: d.13.1.0 PDB: 3n1t_A*
Probab=24.99 E-value=42 Score=25.90 Aligned_cols=15 Identities=13% Similarity=0.109 Sum_probs=11.8
Q ss_pred CcceEEeeCcEEEEE
Q 023330 217 NSRIIAVTESHVVLD 231 (284)
Q Consensus 217 ~l~ILYEDedLLVVN 231 (284)
+.+||||||+++++-
T Consensus 16 ~~~iv~ede~~~af~ 30 (119)
T 3n1s_A 16 PSDIVYQDDLVTAFR 30 (119)
T ss_dssp CCCEEEECSSEEEEE
T ss_pred cCCEEEECCCEEEEE
Confidence 347999999988753
No 45
>3o1c_A Histidine triad nucleotide-binding protein 1; hydrolase, HINT protein, HIT protein, adenosine 5'- monophosphoramidase; HET: ADN; 1.08A {Oryctolagus cuniculus} SCOP: d.13.1.1 PDB: 3llj_A* 1rzy_A* 3qgz_A* 3o1z_A 3o1x_A* 4eqe_A* 4eqg_A* 4eqh_A* 3tw2_A* 1kpb_A 1kpf_A* 1kpa_A 1kpc_A 1av5_A* 1kpe_A* 4rhn_A* 3rhn_A* 5rhn_A* 6rhn_A
Probab=24.35 E-value=44 Score=26.02 Aligned_cols=15 Identities=13% Similarity=0.293 Sum_probs=11.9
Q ss_pred CcceEEeeCcEEEEE
Q 023330 217 NSRIIAVTESHVVLD 231 (284)
Q Consensus 217 ~l~ILYEDedLLVVN 231 (284)
+.+||||||+++++-
T Consensus 28 ~~~iv~e~e~~~af~ 42 (126)
T 3o1c_A 28 PAKIIFEDDQALAFH 42 (126)
T ss_dssp CCCEEEECSSEEEEE
T ss_pred cCCEEEECCCEEEEE
Confidence 358999999987754
No 46
>1f0z_A THis protein; ubiquitin fold, transport protein; NMR {Escherichia coli} SCOP: d.15.3.2 PDB: 1zud_2
Probab=21.78 E-value=60 Score=22.43 Aligned_cols=14 Identities=21% Similarity=0.396 Sum_probs=11.8
Q ss_pred CceecCCCEEEEEc
Q 023330 190 DQIVEAGTYLRVHV 203 (284)
Q Consensus 190 ~~~L~~GD~I~V~~ 203 (284)
++.|+.||.|.|..
T Consensus 48 ~~~L~~gD~v~i~~ 61 (66)
T 1f0z_A 48 QHIVQDGDQILLFQ 61 (66)
T ss_dssp TCCCCTTEEECEEE
T ss_pred CcCCCCCCEEEEEe
Confidence 56899999999874
No 47
>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=21.66 E-value=1.2e+02 Score=27.61 Aligned_cols=31 Identities=16% Similarity=0.145 Sum_probs=27.1
Q ss_pred cHHHHHHHhcC--CCHHHHHHHHHcCCEEEcCc
Q 023330 111 PVLEYICRELN--LPPLFVADLIHFGAVYYALV 141 (284)
Q Consensus 111 ~L~~~L~~~l~--lSr~~i~~LI~~G~V~vng~ 141 (284)
+|.-||.+.|+ ++...++..+.+|.|.|||+
T Consensus 43 PL~i~LRd~LkyA~t~~EakkIl~q~~VkVDGk 75 (261)
T 3u5c_E 43 PLIVFLRNRLKYALNGREVKAILMQRHVKVDGK 75 (261)
T ss_dssp EHHHHHHHTTCCCSSSHHHHHHHTTTCEEETTB
T ss_pred eeHHHhhhhhcccccHHHHHHHHHCCcEEECCE
Confidence 67888988887 56679999999999999996
No 48
>2q5w_D Molybdopterin converting factor, subunit 1; MOCO, MPT synthase, MOAD, MOAE, transferase, molybdenum cofactor biosynthesis; 2.00A {Staphylococcus aureus} PDB: 2qie_B*
Probab=21.62 E-value=74 Score=22.21 Aligned_cols=15 Identities=0% Similarity=0.076 Sum_probs=12.3
Q ss_pred cCceecCCCEEEEEc
Q 023330 189 VDQIVEAGTYLRVHV 203 (284)
Q Consensus 189 ~~~~L~~GD~I~V~~ 203 (284)
.++.|+.||.|.|..
T Consensus 58 ~~~~L~~gD~V~i~p 72 (77)
T 2q5w_D 58 KSDFIQPNDTVALIP 72 (77)
T ss_dssp TTSEECTTCEEEEEC
T ss_pred CCCCcCCCCEEEEEC
Confidence 357999999999863
No 49
>3ksv_A Uncharacterized protein; HIT family, structural genomics, structural genomics of PATH protozoa consortium, SGPP, unknown function; 1.90A {Leishmania major} SCOP: d.13.1.0
Probab=20.46 E-value=57 Score=26.38 Aligned_cols=15 Identities=13% Similarity=0.069 Sum_probs=11.9
Q ss_pred CcceEEeeCcEEEEE
Q 023330 217 NSRIIAVTESHVVLD 231 (284)
Q Consensus 217 ~l~ILYEDedLLVVN 231 (284)
+..|||||++++++-
T Consensus 24 p~~iV~ed~~~~af~ 38 (149)
T 3ksv_A 24 PCAKVAETSKALAFM 38 (149)
T ss_dssp CCCEEEECSSEEEEE
T ss_pred CccEEEECCCEEEEE
Confidence 458999999988654
No 50
>3p0t_A Uncharacterized protein; ssgcid, HIT-like protein, mycobacerium paratuberculosis, STR genomics; 1.90A {Mycobacterium avium subsp}
Probab=20.15 E-value=60 Score=25.48 Aligned_cols=14 Identities=14% Similarity=0.188 Sum_probs=11.4
Q ss_pred cceEEeeCcEEEEE
Q 023330 218 SRIIAVTESHVVLD 231 (284)
Q Consensus 218 l~ILYEDedLLVVN 231 (284)
.+|||||++++++-
T Consensus 19 ~~iV~e~~~~~af~ 32 (138)
T 3p0t_A 19 GRFVYEDDDVVAFL 32 (138)
T ss_dssp CCEEEECSSEEEEE
T ss_pred cCEEEeCCCEEEEe
Confidence 47999999988753
Done!