Query 022999
Match_columns 289
No_of_seqs 132 out of 591
Neff 5.3
Searched_HMMs 29240
Date Mon Mar 25 14:38:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022999.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/022999hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2fph_X YLMH; division protein, 100.0 7E-49 2.4E-53 339.8 10.4 160 68-230 2-163 (165)
2 2vqe_D 30S ribosomal protein S 98.1 3.3E-07 1.1E-11 81.7 -0.9 68 195-281 66-134 (209)
3 1dm9_A Hypothetical 15.5 KD pr 97.7 2.8E-05 9.7E-10 64.4 5.1 43 244-286 6-49 (133)
4 2cqj_A BRMS2, U3 small nucleol 97.7 2.3E-05 7.8E-10 58.5 4.0 38 247-284 8-46 (71)
5 2xzm_D Ribosomal protein S4 co 97.7 2.2E-05 7.6E-10 68.6 3.3 41 244-284 104-145 (181)
6 1p9k_A ORF, hypothetical prote 97.5 1.1E-05 3.9E-10 60.6 -0.7 37 245-281 19-56 (79)
7 1c05_A Ribosomal protein S4 de 97.4 0.00012 4E-09 62.4 4.6 37 245-281 49-86 (159)
8 3j20_D 30S ribosomal protein S 97.4 9.8E-05 3.4E-09 64.5 3.4 37 247-283 103-140 (180)
9 3r8n_D 30S ribosomal protein S 97.3 9.1E-05 3.1E-09 65.9 2.6 38 244-281 92-130 (205)
10 2k6p_A Uncharacterized protein 97.3 3.2E-05 1.1E-09 59.4 -0.5 39 247-285 1-40 (92)
11 3bbn_D Ribosomal protein S4; s 97.2 9.3E-05 3.2E-09 65.6 2.1 39 244-282 86-125 (201)
12 3u5c_J 40S ribosomal protein S 96.6 0.00094 3.2E-08 59.1 3.0 37 247-283 107-144 (197)
13 2g0c_A ATP-dependent RNA helic 94.9 0.032 1.1E-06 40.8 4.7 59 164-223 11-72 (76)
14 3iz6_C 40S ribosomal protein S 94.3 0.00079 2.7E-08 59.4 -6.3 36 247-282 109-145 (195)
15 1v9f_A Ribosomal large subunit 88.8 0.08 2.8E-06 49.1 0.0 28 257-284 28-56 (325)
16 2ktl_A Tyrosyl-tRNA synthetase 82.2 0.77 2.6E-05 39.3 2.9 33 248-280 52-84 (164)
17 2jan_A Tyrosyl-tRNA synthetase 72.3 2.5 8.6E-05 41.1 3.7 33 248-280 358-390 (432)
18 1h3f_A Tyrosyl-tRNA synthetase 72.1 3.2 0.00011 40.2 4.4 32 249-280 372-403 (432)
19 1jil_A Tyrrs, tyrosyl-tRNA syn 57.7 2.2 7.4E-05 41.3 0.0 32 249-280 356-387 (420)
20 2ts1_A Tyrosyl-tRNA synthetase 54.2 2.7 9.1E-05 40.7 0.0 32 249-280 355-386 (419)
21 3gku_A Probable RNA-binding pr 51.4 42 0.0014 29.8 7.3 60 78-139 148-207 (225)
22 3j20_E 30S ribosomal protein S 50.2 10 0.00034 34.3 3.1 36 246-281 42-79 (243)
23 1y6u_A XIS, excisionase from t 47.0 11 0.00037 27.4 2.3 30 253-282 22-56 (70)
24 1z4h_A TORI, TOR inhibition pr 34.8 11 0.00037 26.4 0.7 38 247-285 11-52 (66)
25 2cw1_A SN4M; lambda CRO fold, 30.4 28 0.00095 24.8 2.2 36 252-287 18-61 (65)
26 2l48_A N-acetylmuramoyl-L-alan 28.3 59 0.002 24.8 3.8 35 163-201 27-61 (85)
27 2kfs_A Conserved hypothetical 23.4 36 0.0012 28.5 2.0 32 253-284 37-71 (148)
28 1j9i_A GPNU1 DBD;, terminase s 20.4 43 0.0015 23.1 1.6 20 253-272 8-27 (68)
No 1
>2fph_X YLMH; division protein, bacteria, GRAM+, DNA binding protein; 1.70A {Streptococcus pneumoniae}
Probab=100.00 E-value=7e-49 Score=339.80 Aligned_cols=160 Identities=16% Similarity=0.245 Sum_probs=145.9
Q ss_pred HhccCCCcchHHHHHHHHHHHHHHhcCCCeEEecCCCHHHHHHHHHHHhccCCeeEEEeCCCcccceeEEEeeCCCCCCC
Q 022999 68 LLKGVGDKNAIEEVKHILEMARRASSRREVLHSDFLTPPVLKESMMALEKLADVKAVAQGGYPQAERCRLSVGHPEALTS 147 (289)
Q Consensus 68 ll~~~~~~e~k~~v~ri~D~~~~a~~~~~~~~TdFLdP~e~~i~~~il~~~~~v~~~~~GGy~~AERkrl~i~~p~y~~~ 147 (289)
+++|+. ++++++++|++||+++|.++|.+++|+||||+||+++.+++++. ++++.++|||++|||||++|+|+++..+
T Consensus 2 ~~~hf~-~~e~~~i~~~~d~~~~a~~~~~~~~T~FL~p~e~~i~~~i~~~~-~~~~~~~GGy~~AER~r~~i~p~~~~~~ 79 (165)
T 2fph_X 2 IYQHFS-IEDRPFLDKGMEWIKKVEDSYAPFLTPFINPHQEKLLKILAKTY-GLACSSSGEFVSSEYVRVLLYPDYFQPE 79 (165)
T ss_dssp CCCCCC-GGGHHHHHHHHHHHHHHHHHTSCEECCCBCHHHHHHHHHHHHHT-TCEEEEGGGTSCCSSBCEEEECTTCCCC
T ss_pred hhhhcC-hhhHHHHHHHHHHHHHHHHhCCEEECCCCCHHHHHHHHHHHhcc-CcEEEEeCCCcHHheeEEEEecccccCc
Confidence 577877 56679999999999999999999999999999999999998876 7999999999999999999985544322
Q ss_pred -CcCceEEEEEecCCCCCCCCchhhHHHHHh-CCCCCCccccEEEecCCeEEEEecchHHHHHHHhhchhcceEEEEEEe
Q 022999 148 -DPDIVAALSITGNFGFQPCSHGDFLGSILG-TGIAREKIGDIILQGEKGAQFLVVPELADYLITSLEKVGNVSVSCTRI 225 (289)
Q Consensus 148 -~~~~i~~L~I~~~~kF~~LsHRD~LGaLmg-LGI~RekiGDIiv~~~~~aqv~v~~eia~fi~~nLtKIgr~~V~v~ei 225 (289)
.++++++++|++|+||.+++|||||||||| |||+|+++|||++.+ ++||++|+++|++||.+||+|||+++|+++++
T Consensus 80 ~~d~~i~~l~i~~~~kF~~l~Hrd~LGaLm~~LGI~Re~iGDI~v~~-~~~qv~v~~~i~~~i~~nl~kIg~~~V~~~~i 158 (165)
T 2fph_X 80 FSDFEISLQEIVYSNKFEYLTHAKILGTVINQLGIERKLFGDILVDE-ERAQIMINQQFLLLFQDGLKKIGRIPVSLEER 158 (165)
T ss_dssp GGGGCEEEEEEESCCCCHHHHHHHHHSCSSSCCCCCGGGEEEEECSS-SCCEEEEEGGGHHHHHHHCCEETTEECEEEEC
T ss_pred ccCCceEEEEEecccccccCCHHHHHHHHHHhcCCCHhhcCCEEEEC-CEEEEEEcHHHHHHHHHHHhhccCeeEEEEEe
Confidence 234799999999999999999999999999 999999999999876 58999999999999999999999999999999
Q ss_pred cCCcc
Q 022999 226 PLLAL 230 (289)
Q Consensus 226 ~~~~l 230 (289)
+++++
T Consensus 159 ~~~~l 163 (165)
T 2fph_X 159 PFTEK 163 (165)
T ss_dssp CGGGC
T ss_pred CHHHc
Confidence 98776
No 2
>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=98.08 E-value=3.3e-07 Score=81.71 Aligned_cols=68 Identities=15% Similarity=0.105 Sum_probs=57.8
Q ss_pred eEEEEecchHHHHHHHhhchhcceEEEEEEecCCcccCCCCCeeEEEEeecccchHHHHH-ccccccHHHHHHHHHcCCe
Q 022999 195 GAQFLVVPELADYLITSLEKVGNVSVSCTRIPLLALEYEPPRTKSFKTIEASLRVDALAS-AGFKLSRSKLVNLIRYSSL 273 (289)
Q Consensus 195 ~aqv~v~~eia~fi~~nLtKIgr~~V~v~ei~~~~l~~~~~~~ke~~~tVsSlRLDaVvs-~~f~lSRska~~lI~~GkV 273 (289)
..|.++.+++.+|+..+..++|++.+.+. ....+|||.+++ .+++.||++|+++|.+|+|
T Consensus 66 ~~Yg~~e~q~~~y~~~a~~~~g~t~~~l~-------------------~~le~RLD~~L~~~g~~~SR~~arqLI~~G~V 126 (209)
T 2vqe_D 66 RIYGISERQFRNLFEEASKKKGVTGSVFL-------------------GLLESRLDNVVYRLGFAVSRRQARQLVRHGHI 126 (209)
T ss_dssp HHHTCCHHHHHHHHHHHHHSSSCHHHHHH-------------------HHHHTBHHHHHHHTTSSSSHHHHHHHHHTTCE
T ss_pred HHhCccHHHHHHHHHHHHHccCCcchHHH-------------------HhHHHHHHHHHHHhcCcCCHHHHHHHHHCCCE
Confidence 46778899999999999999999886541 123489999997 5789999999999999999
Q ss_pred EECcEEec
Q 022999 274 ASLVQISA 281 (289)
Q Consensus 274 ~vn~~~~~ 281 (289)
.|||+++.
T Consensus 127 ~VNG~~v~ 134 (209)
T 2vqe_D 127 TVNGRRVD 134 (209)
T ss_dssp EETTEECC
T ss_pred EECCEEeC
Confidence 99999775
No 3
>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=97.74 E-value=2.8e-05 Score=64.43 Aligned_cols=43 Identities=19% Similarity=0.140 Sum_probs=36.4
Q ss_pred ecccchHHHHHcc-ccccHHHHHHHHHcCCeEECcEEecccccc
Q 022999 244 EASLRVDALASAG-FKLSRSKLVNLIRYSSLASLVQISAKASAI 286 (289)
Q Consensus 244 VsSlRLDaVvs~~-f~lSRska~~lI~~GkV~vn~~~~~~~~~~ 286 (289)
-+++|||.+++.. +..||+.++++|++|+|+|||+.++++..+
T Consensus 6 ~~~~RLDk~L~~~~~~~SRs~a~~li~~G~V~VNG~~vk~s~~V 49 (133)
T 1dm9_A 6 AVEVRLDKWLWAARFYKTRALAREMIEGGKVHYNGQRSKPSKIV 49 (133)
T ss_dssp TTCCBHHHHHHHTTSSSSHHHHHHHHHTTCEEETTEECCTTCBC
T ss_pred ccchhHHHHHHHCCCCCCHHHHHHHHHCCcEEECCEEcCCCCEe
Confidence 3579999999875 668999999999999999999987665444
No 4
>2cqj_A BRMS2, U3 small nucleolar ribonucleoprotein protein IMP3 homolog; S4 domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=97.74 E-value=2.3e-05 Score=58.45 Aligned_cols=38 Identities=5% Similarity=0.047 Sum_probs=31.9
Q ss_pred cchHHHH-HccccccHHHHHHHHHcCCeEECcEEecccc
Q 022999 247 LRVDALA-SAGFKLSRSKLVNLIRYSSLASLVQISAKAS 284 (289)
Q Consensus 247 lRLDaVv-s~~f~lSRska~~lI~~GkV~vn~~~~~~~~ 284 (289)
.|||.++ ..+|--||++|+++|.+|+|+|||+++.+.|
T Consensus 8 ~RLD~~l~~~gla~SR~~A~~lI~~G~V~Vng~~v~kps 46 (71)
T 2cqj_A 8 RRLPTVLLKLRMAQHLQAAVAFVEQGHVRVGPDVVTDPA 46 (71)
T ss_dssp EEHHHHHHHTTCSSSHHHHHHHHHTTCEEETTBCCCCTT
T ss_pred HHHHHHHHHhCCcCCHHHHHHHHHCCcEEECCEEECCCC
Confidence 4999765 5688889999999999999999999665544
No 5
>2xzm_D Ribosomal protein S4 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_D
Probab=97.65 E-value=2.2e-05 Score=68.56 Aligned_cols=41 Identities=15% Similarity=0.011 Sum_probs=35.5
Q ss_pred ecccchHHHH-HccccccHHHHHHHHHcCCeEECcEEecccc
Q 022999 244 EASLRVDALA-SAGFKLSRSKLVNLIRYSSLASLVQISAKAS 284 (289)
Q Consensus 244 VsSlRLDaVv-s~~f~lSRska~~lI~~GkV~vn~~~~~~~~ 284 (289)
.-++|||.++ ..+|..||++|+++|++|.|.|||+++.+.|
T Consensus 104 ~le~RLD~vL~~~G~a~SR~~Ar~LI~~G~V~VNg~~V~~Ps 145 (181)
T 2xzm_D 104 LMERRLQTRVFKLNLANSIHHSRVLIRQRHIKVGKNLVNVPS 145 (181)
T ss_dssp HHTTBHHHHHHHTTCSSSTTHHHHHTTTTCCEETTEECCCSC
T ss_pred hhccchhHHHHhccccCCHHHHHHHHHCCEEEECCEEECCCC
Confidence 4457999999 7899999999999999999999999665443
No 6
>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=97.49 E-value=1.1e-05 Score=60.60 Aligned_cols=37 Identities=8% Similarity=-0.021 Sum_probs=31.1
Q ss_pred cccchHHHHHcc-ccccHHHHHHHHHcCCeEECcEEec
Q 022999 245 ASLRVDALASAG-FKLSRSKLVNLIRYSSLASLVQISA 281 (289)
Q Consensus 245 sSlRLDaVvs~~-f~lSRska~~lI~~GkV~vn~~~~~ 281 (289)
..+|||.+++.. +..||++|+.+|++|.|+|||++..
T Consensus 19 ~~~RLdk~L~~~g~~~SR~~a~~lI~~G~V~VNG~~v~ 56 (79)
T 1p9k_A 19 PHVELCDLLKLEGWSESGAQAKIAIAEGQVKVDGAVET 56 (79)
T ss_dssp SCCCHHHHHHHHTSCSSSSTTSHHHHHHHHEETTBCCC
T ss_pred CCchHHHHHHHCCCCCCHHHHHHHHHCCEEEECCEEec
Confidence 448999998864 3349999999999999999999653
No 7
>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=97.41 E-value=0.00012 Score=62.40 Aligned_cols=37 Identities=16% Similarity=0.133 Sum_probs=32.8
Q ss_pred cccchHHHHH-ccccccHHHHHHHHHcCCeEECcEEec
Q 022999 245 ASLRVDALAS-AGFKLSRSKLVNLIRYSSLASLVQISA 281 (289)
Q Consensus 245 sSlRLDaVvs-~~f~lSRska~~lI~~GkV~vn~~~~~ 281 (289)
-.+|||.+++ .++..||++|+++|++|.|.|||+++.
T Consensus 49 le~RLD~~L~~~g~~~SR~~ar~lI~~G~V~VNG~~v~ 86 (159)
T 1c05_A 49 LESRLDNLVYRLGLARTRRQARQLVTHGHILVDGSRVN 86 (159)
T ss_dssp HHHBHHHHHHHTTSCSSHHHHHHHHHTTCEEETTEECC
T ss_pred HHHHHHHHHHHcCCcCCHHHHHHHHHCCCEEECCEEeC
Confidence 4679999987 467899999999999999999999774
No 8
>3j20_D 30S ribosomal protein S4P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=97.35 E-value=9.8e-05 Score=64.49 Aligned_cols=37 Identities=16% Similarity=0.157 Sum_probs=33.0
Q ss_pred cchHHHH-HccccccHHHHHHHHHcCCeEECcEEeccc
Q 022999 247 LRVDALA-SAGFKLSRSKLVNLIRYSSLASLVQISAKA 283 (289)
Q Consensus 247 lRLDaVv-s~~f~lSRska~~lI~~GkV~vn~~~~~~~ 283 (289)
+|||.++ ..+|.-||++|+++|++|+|+|||+++.+.
T Consensus 103 ~RLD~~L~~~G~a~SR~~Ar~LI~~G~V~VNg~~V~~P 140 (180)
T 3j20_D 103 RRLQTIVYKKGLARTMRQARQLIVHGHIEVNGQIIRSP 140 (180)
T ss_dssp TSHHHHHHHHTSSSSHHHHHHHHHHTCCEESSSBCCCS
T ss_pred hhhhheeecCcccCcHHHHHHHHHcCCeEECCEEeCCC
Confidence 5999988 689999999999999999999999976543
No 9
>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=97.29 E-value=9.1e-05 Score=65.90 Aligned_cols=38 Identities=16% Similarity=0.207 Sum_probs=34.1
Q ss_pred ecccchHHHHHc-cccccHHHHHHHHHcCCeEECcEEec
Q 022999 244 EASLRVDALASA-GFKLSRSKLVNLIRYSSLASLVQISA 281 (289)
Q Consensus 244 VsSlRLDaVvs~-~f~lSRska~~lI~~GkV~vn~~~~~ 281 (289)
...+|||.+++. ++..||+.|+++|+.|.|.|||+++.
T Consensus 92 lle~RLD~~L~r~g~~~SR~~ArqLI~~G~V~VNG~~V~ 130 (205)
T 3r8n_D 92 LLEGRLDNVVYRMGFGATRAEARQLVSHKAIMVNGRVVN 130 (205)
T ss_dssp HHHTBTTHHHHTTSSCSSHHHHHHHHHTTCCBSSSSBCC
T ss_pred hhHhhHHHHHHHhcchhHHHHHHHHHHCCCEEECCEEEc
Confidence 456899999985 78999999999999999999999764
No 10
>2k6p_A Uncharacterized protein HP_1423; alpha-L motif, RNA-binding, unknown function; NMR {Helicobacter pylori}
Probab=97.28 E-value=3.2e-05 Score=59.40 Aligned_cols=39 Identities=8% Similarity=0.063 Sum_probs=32.5
Q ss_pred cchHHHHHcc-ccccHHHHHHHHHcCCeEECcEEeccccc
Q 022999 247 LRVDALASAG-FKLSRSKLVNLIRYSSLASLVQISAKASA 285 (289)
Q Consensus 247 lRLDaVvs~~-f~lSRska~~lI~~GkV~vn~~~~~~~~~ 285 (289)
+|||.+++.. +..||++++++|++|+|+|||++.+++..
T Consensus 1 ~RLD~~L~~~~~~~sR~~~~~li~~G~V~VNg~~~~~~~~ 40 (92)
T 2k6p_A 1 MRIDKFLQSVGLVKRRVLATDMCNVGAVWLNGSCAKASKE 40 (92)
T ss_dssp CBHHHHSTTTTSCCCCCSSCCHHHHTCCEETTEECCTTCB
T ss_pred ChHHHHHHHCCCCCCHHHHHHHHHCCcEEECCEEcCCCCC
Confidence 5999999875 34599999999999999999998755433
No 11
>3bbn_D Ribosomal protein S4; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=97.25 E-value=9.3e-05 Score=65.64 Aligned_cols=39 Identities=13% Similarity=0.089 Sum_probs=33.5
Q ss_pred ecccchHHHHH-ccccccHHHHHHHHHcCCeEECcEEecc
Q 022999 244 EASLRVDALAS-AGFKLSRSKLVNLIRYSSLASLVQISAK 282 (289)
Q Consensus 244 VsSlRLDaVvs-~~f~lSRska~~lI~~GkV~vn~~~~~~ 282 (289)
.-++|||.+++ .+|..||+.|+++|+.|.|.|||+++.+
T Consensus 86 ~Le~RLD~~L~r~g~a~SR~~ArqLI~~G~V~VNG~~V~~ 125 (201)
T 3bbn_D 86 LLEMRLDNILFRLGMAPTIPGARQLVNHRHILVNGRIVDI 125 (201)
T ss_dssp HHHSBTTTTTTTTTSSSSSHHHHHHHHTTCEEETTEECCC
T ss_pred HHHHHHHHHHHHcCCcCCHHHHHHHHhCCcEEeCCEEEee
Confidence 44679999995 5778899999999999999999997643
No 12
>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=96.61 E-value=0.00094 Score=59.05 Aligned_cols=37 Identities=22% Similarity=0.109 Sum_probs=32.0
Q ss_pred cchHHHH-HccccccHHHHHHHHHcCCeEECcEEeccc
Q 022999 247 LRVDALA-SAGFKLSRSKLVNLIRYSSLASLVQISAKA 283 (289)
Q Consensus 247 lRLDaVv-s~~f~lSRska~~lI~~GkV~vn~~~~~~~ 283 (289)
.|||.++ ..+|--||++|.++|.+|+|+|||+++.+.
T Consensus 107 ~RLD~~L~r~G~a~Sr~~ArqLI~~GhV~VNG~~V~~P 144 (197)
T 3u5c_J 107 RRLQTQVYKLGLAKSVHHARVLITQRHIAVGKQIVNIP 144 (197)
T ss_dssp TSHHHHHHHSSTTSSHHHHHHHHHTSCCBSSSCBCCCT
T ss_pred HHHHHHHHHccccCCHHHHHHHHHcCCEEECCEEeCCC
Confidence 4899976 478989999999999999999999966543
No 13
>2g0c_A ATP-dependent RNA helicase DBPA; RNA recognition motif, hydrolase; 1.70A {Bacillus subtilis} PDB: 3moj_B
Probab=94.92 E-value=0.032 Score=40.83 Aligned_cols=59 Identities=15% Similarity=0.302 Sum_probs=45.1
Q ss_pred CCCCchhhHHHHHh-CCCCCCccccEEEecCCeEEEEecchHHHHHHHhhch--hcceEEEEE
Q 022999 164 QPCSHGDFLGSILG-TGIAREKIGDIILQGEKGAQFLVVPELADYLITSLEK--VGNVSVSCT 223 (289)
Q Consensus 164 ~~LsHRD~LGaLmg-LGI~RekiGDIiv~~~~~aqv~v~~eia~fi~~nLtK--Igr~~V~v~ 223 (289)
+.+.-+|++|+|.+ .||.++.||+|-+.+ +..+|=+.+++++-+...|.+ +.+.+++++
T Consensus 11 ~~~~p~~ivg~i~~~~gi~~~~IG~I~i~d-~~s~v~v~~~~~~~~~~~l~~~~i~g~~~~v~ 72 (76)
T 2g0c_A 11 KKIRAVDFVGTIAKIDGVSADDIGIITIMD-NASYVEILNGKGPHVLKVMKNTTVKGKQLKVN 72 (76)
T ss_dssp ----CHHHHHHHHTSTTCCGGGEEEEEECS-SCEEEEECTTCHHHHHHHHTTCCC---CCCEE
T ss_pred cCCCHHHHHHHHHHccCCChhhccEEEEeC-CcEEEEECHHHHHHHHHHhccccCcCceEEEE
Confidence 56789999999998 899999999998765 589999999999999999875 455555554
No 14
>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=94.29 E-value=0.00079 Score=59.44 Aligned_cols=36 Identities=28% Similarity=0.175 Sum_probs=31.2
Q ss_pred cchHHHHH-ccccccHHHHHHHHHcCCeEECcEEecc
Q 022999 247 LRVDALAS-AGFKLSRSKLVNLIRYSSLASLVQISAK 282 (289)
Q Consensus 247 lRLDaVvs-~~f~lSRska~~lI~~GkV~vn~~~~~~ 282 (289)
.|||.++. .+|.-||++|.++|.+|+|+|||+++.+
T Consensus 109 ~RLD~~L~r~G~a~SR~~ArqlI~~GhV~VNG~~V~~ 145 (195)
T 3iz6_C 109 RRLQTLVFKAGMAKSIHHARVLIRQRHIRVGRQIVNI 145 (195)
T ss_dssp SCCCSSCCCCCCHHHHSCTTSHHHHHSTTTSCCCCCC
T ss_pred hhhhHHHHhccccCCHHHHHHHHHcCCEEECCEEeCC
Confidence 48999775 6888899999999999999999996654
No 15
>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=88.78 E-value=0.08 Score=49.08 Aligned_cols=28 Identities=14% Similarity=0.074 Sum_probs=0.0
Q ss_pred ccccHHHHHHHHHcCCeEECcEE-ecccc
Q 022999 257 FKLSRSKLVNLIRYSSLASLVQI-SAKAS 284 (289)
Q Consensus 257 f~lSRska~~lI~~GkV~vn~~~-~~~~~ 284 (289)
.+.||++++++|++|+|+|||++ .+++.
T Consensus 28 ~~~SR~~~~~lI~~G~V~VNG~~v~~~~~ 56 (325)
T 1v9f_A 28 PDYSRSRIKEWILDQRVLVNGKVCDKPKE 56 (325)
T ss_dssp -----------------------------
T ss_pred cccCHHHHHHHHHCCCEEECCEEccCCCC
Confidence 38999999999999999999996 55543
No 16
>2ktl_A Tyrosyl-tRNA synthetase; S4 fold, aminoacyl-tRNA synthetase, ligase; NMR {Aspergillus nidulans fgsc A4}
Probab=82.18 E-value=0.77 Score=39.29 Aligned_cols=33 Identities=21% Similarity=0.066 Sum_probs=30.3
Q ss_pred chHHHHHccccccHHHHHHHHHcCCeEECcEEe
Q 022999 248 RVDALASAGFKLSRSKLVNLIRYSSLASLVQIS 280 (289)
Q Consensus 248 RLDaVvs~~f~lSRska~~lI~~GkV~vn~~~~ 280 (289)
=+|.++++++--|++.|..+|++|-|+|||+..
T Consensus 52 ivdlLv~aGLa~SKsEARRlI~qGGv~VNg~kv 84 (164)
T 2ktl_A 52 FSKVLWSAGLVASKSEGQRIINNNGAYVGSRPG 84 (164)
T ss_dssp HHHHHHHHTSCSTHHHHHHHHHHTCEEEEECCS
T ss_pred HHHHHHHhCcccCHHHHHHHHHhCCEEECCEec
Confidence 479999999999999999999999999999644
No 17
>2jan_A Tyrosyl-tRNA synthetase; protein biosynthesis, aminoacyl-tRNA synthetase, tyrrs, ligase, tyrosine, RNA-binding, ATP-binding; 2.9A {Mycobacterium tuberculosis}
Probab=72.34 E-value=2.5 Score=41.08 Aligned_cols=33 Identities=18% Similarity=0.134 Sum_probs=30.4
Q ss_pred chHHHHHccccccHHHHHHHHHcCCeEECcEEe
Q 022999 248 RVDALASAGFKLSRSKLVNLIRYSSLASLVQIS 280 (289)
Q Consensus 248 RLDaVvs~~f~lSRska~~lI~~GkV~vn~~~~ 280 (289)
=+|.++.+++--|++.|..+|++|-|+|||+.+
T Consensus 358 ~~~ll~~~gl~~S~~earr~i~~ggv~in~~~v 390 (432)
T 2jan_A 358 IVDLLVASGLSASKGAARRTIHEGGVSVNNIRV 390 (432)
T ss_dssp HHHHHHHHTSCSSHHHHHHHHTTTCEEESSCEE
T ss_pred HHHHHHHhCCcccHHHHHHHHHhCCEEECCEEc
Confidence 479999999999999999999999999999854
No 18
>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=72.10 E-value=3.2 Score=40.23 Aligned_cols=32 Identities=19% Similarity=0.156 Sum_probs=29.8
Q ss_pred hHHHHHccccccHHHHHHHHHcCCeEECcEEe
Q 022999 249 VDALASAGFKLSRSKLVNLIRYSSLASLVQIS 280 (289)
Q Consensus 249 LDaVvs~~f~lSRska~~lI~~GkV~vn~~~~ 280 (289)
+|.++.+++--|++.|..+|++|-|+|||+.+
T Consensus 372 ~~~l~~~~l~~S~~earr~i~~ggv~vn~~~v 403 (432)
T 1h3f_A 372 ARLFTLAGLTPSNAEARRLIQNRGLRLDGEVL 403 (432)
T ss_dssp HHHHHHTTSSSSHHHHHHHHHTTCEEETTEEC
T ss_pred HHHHHHhCCcccHHHHHHHHHhCCEEECCEEe
Confidence 68999999999999999999999999999854
No 19
>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=57.70 E-value=2.2 Score=41.28 Aligned_cols=32 Identities=13% Similarity=0.117 Sum_probs=0.0
Q ss_pred hHHHHHccccccHHHHHHHHHcCCeEECcEEe
Q 022999 249 VDALASAGFKLSRSKLVNLIRYSSLASLVQIS 280 (289)
Q Consensus 249 LDaVvs~~f~lSRska~~lI~~GkV~vn~~~~ 280 (289)
+|.++.+++--|++.|..+|++|-|+|||+.+
T Consensus 356 ~~lL~~agl~~SksEARRlI~~GgV~VNgekv 387 (420)
T 1jil_A 356 VEVLIETGISPSKRQAREDVNNGAIYINGERQ 387 (420)
T ss_dssp --------------------------------
T ss_pred HHHHHHcCCccCHHHHHHHHHhCCEEECCEEe
Confidence 47777888888999999999999999999844
No 20
>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=54.16 E-value=2.7 Score=40.70 Aligned_cols=32 Identities=22% Similarity=0.158 Sum_probs=0.0
Q ss_pred hHHHHHccccccHHHHHHHHHcCCeEECcEEe
Q 022999 249 VDALASAGFKLSRSKLVNLIRYSSLASLVQIS 280 (289)
Q Consensus 249 LDaVvs~~f~lSRska~~lI~~GkV~vn~~~~ 280 (289)
+|.++.+++--|++.|..+|++|-|+|||+.+
T Consensus 355 ~~~l~~~gl~~S~~earr~i~~ggv~in~~~v 386 (419)
T 2ts1_A 355 VELLVSAGISPSKRQAREDIQNGAIYVNGERL 386 (419)
T ss_dssp --------------------------------
T ss_pred HHHHHHhCCCCCHHHHHHHHHhCCEEECCEEe
Confidence 68899999999999999999999999999844
No 21
>3gku_A Probable RNA-binding protein; APC21302, clostridium symbiosum ATCC 14 structural genomics, PSI-2, protein structure initiative; 2.95A {Clostridium symbiosum atcc 14940}
Probab=51.35 E-value=42 Score=29.78 Aligned_cols=60 Identities=12% Similarity=0.026 Sum_probs=46.5
Q ss_pred HHHHHHHHHHHHHHhcCCCeEEecCCCHHHHHHHHHHHhccCCeeEEEeCCCcccceeEEEe
Q 022999 78 IEEVKHILEMARRASSRREVLHSDFLTPPVLKESMMALEKLADVKAVAQGGYPQAERCRLSV 139 (289)
Q Consensus 78 k~~v~ri~D~~~~a~~~~~~~~TdFLdP~e~~i~~~il~~~~~v~~~~~GGy~~AERkrl~i 139 (289)
+.+..-....+++|.+++.++.-+=++|+|..++...+.+.+++.....| ++..|+.++.
T Consensus 148 e~L~~lA~~~A~kV~~tg~~v~L~PM~~~ERriIH~al~~~~~V~T~SeG--eep~R~VVI~ 207 (225)
T 3gku_A 148 ETLETLAKNIAYKVKRTKRSVSLEPMNPYERRIIHAALQNDKYVVTRSDG--EEPFRHVIIS 207 (225)
T ss_dssp HHHHHHHHHHHHHHHHHCSCEECCCCCHHHHHHHHHHTTTCSSEEEEEES--STTSCEEEEE
T ss_pred HHHHHHHHHHHHHHHHhCCEEEccCCCHHHHHHHHHHHccCCCcEEEEee--cCCCeEEEEE
Confidence 34445556677889999999999999999999999999988888877766 4445654444
No 22
>3j20_E 30S ribosomal protein S4E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=50.15 E-value=10 Score=34.33 Aligned_cols=36 Identities=6% Similarity=0.104 Sum_probs=29.0
Q ss_pred ccchHHHHHc--cccccHHHHHHHHHcCCeEECcEEec
Q 022999 246 SLRVDALASA--GFKLSRSKLVNLIRYSSLASLVQISA 281 (289)
Q Consensus 246 SlRLDaVvs~--~f~lSRska~~lI~~GkV~vn~~~~~ 281 (289)
|+=|=-++.- +|-.++..|++.+.+|.|+|||+++.
T Consensus 42 ~lPL~i~LRdrLgyA~t~rEar~Iv~~~~I~VdGKvr~ 79 (243)
T 3j20_E 42 SIPLLYIVRDYLGYAKTAREARKILNEGKFLVDGRVRK 79 (243)
T ss_dssp CEEHHHHHHTTSCCCSSHHHHHHHHHHCSCEETTEECC
T ss_pred ceeehhhhhhhhccccCHHHHHHHHHCCcEEECCEEec
Confidence 5557677775 45578999999999999999999654
No 23
>1y6u_A XIS, excisionase from transposon TN916; structure, DNA architectural protein, tyrosine recombinase, winged-helix protein; NMR {Enterococcus faecalis}
Probab=47.03 E-value=11 Score=27.40 Aligned_cols=30 Identities=27% Similarity=0.303 Sum_probs=23.1
Q ss_pred HHccccccHHHHHHHHHcC-C----eEECcEEecc
Q 022999 253 ASAGFKLSRSKLVNLIRYS-S----LASLVQISAK 282 (289)
Q Consensus 253 vs~~f~lSRska~~lI~~G-k----V~vn~~~~~~ 282 (289)
+|+-+|+||+++-++++.| . +++.++..-+
T Consensus 22 aAeylgIg~~~l~~L~~~~~~~~~~~~iG~~~lI~ 56 (70)
T 1y6u_A 22 ASKYFRIGENKLRRLAEENKNANWLIMNGNRIQIK 56 (70)
T ss_dssp HHHHTCSCHHHHHHHHHHCTTCSSEEEETTEEEEE
T ss_pred HHHHHCcCHHHHHHHHHcCCCCCcEEEeCCEEEEE
Confidence 5789999999999999997 2 4666664433
No 24
>1z4h_A TORI, TOR inhibition protein; winged helix, reverse turn, protein binding, DNA binding protein; NMR {Escherichia coli}
Probab=34.78 E-value=11 Score=26.38 Aligned_cols=38 Identities=5% Similarity=-0.065 Sum_probs=26.3
Q ss_pred cchHHHHHccccccHHHHHHHHHcCC----eEECcEEeccccc
Q 022999 247 LRVDALASAGFKLSRSKLVNLIRYSS----LASLVQISAKASA 285 (289)
Q Consensus 247 lRLDaVvs~~f~lSRska~~lI~~Gk----V~vn~~~~~~~~~ 285 (289)
+|++- +++.+|+||+.+-.+|+.|. |++.+...-..++
T Consensus 11 l~~~e-va~~lgvsrstiy~~~~~g~fP~piklG~~~~w~~~e 52 (66)
T 1z4h_A 11 VDLKF-IMADTGFGKTFIYDRIKSGDLPKAKVIHGRARWLYRD 52 (66)
T ss_dssp ECHHH-HHHHHSSCHHHHHHHHHHHHCCCSEESSSCEEEEHHH
T ss_pred cCHHH-HHHHHCcCHHHHHHHHHCCCCCCCEEeCCCeEEeHHH
Confidence 45655 45788999999999999982 6666554333333
No 25
>2cw1_A SN4M; lambda CRO fold, de novo protein; NMR {Synthetic} SCOP: k.46.1.1
Probab=30.36 E-value=28 Score=24.79 Aligned_cols=36 Identities=11% Similarity=0.127 Sum_probs=26.9
Q ss_pred HHHccccccHHHHHHHHHcCC-eEE----CcEEec---cccccc
Q 022999 252 LASAGFKLSRSKLVNLIRYSS-LAS----LVQISA---KASAIR 287 (289)
Q Consensus 252 Vvs~~f~lSRska~~lI~~Gk-V~v----n~~~~~---~~~~~~ 287 (289)
=+|..+|+|++-..++++.++ +.+ +|++.. ..++||
T Consensus 18 ~~A~~Lgvsq~aVS~~~~~~r~i~l~~tt~G~v~~~~~~~~e~r 61 (65)
T 2cw1_A 18 YAARALGLSQKLIEEVLKRGLPVYVETNKDGNIKVYITQDGITQ 61 (65)
T ss_dssp HHHHHSSSCHHHHHHHHHTTCCCBCEECSSSCEECEEEETTEEE
T ss_pred HHHHHhCCCHHHHHHHHHhcCCceEEEcCCceEEeecccccccc
Confidence 368899999999999999875 444 666555 445665
No 26
>2l48_A N-acetylmuramoyl-L-alanine amidase; bacillus anthracis gamma- phage endolysin, PLYG, cell WALL B domain, homodimer, ACT-type domain; NMR {Bacillus phage gamma}
Probab=28.28 E-value=59 Score=24.77 Aligned_cols=35 Identities=26% Similarity=0.487 Sum_probs=26.9
Q ss_pred CCCCCchhhHHHHHhCCCCCCccccEEEecCCeEEEEec
Q 022999 163 FQPCSHGDFLGSILGTGIAREKIGDIILQGEKGAQFLVV 201 (289)
Q Consensus 163 F~~LsHRD~LGaLmgLGI~RekiGDIiv~~~~~aqv~v~ 201 (289)
|..-.-+|++|+|..+|++ |.|++++|+-+|+...
T Consensus 27 fg~~~v~ev~~am~~~g~~----gkii~~~dGl~y~~T~ 61 (85)
T 2l48_A 27 FSPYETPDVMGALTSLKMT----ADFILQSDGLTYFISK 61 (85)
T ss_dssp BCTTTHHHHHHHHHHTTCC----EEEEECTTSCEEEEEC
T ss_pred cCHHHHHHHHHHHHHcCce----EEEEECCCceEEEEeC
Confidence 3333678999999999884 9999988766777654
No 27
>2kfs_A Conserved hypothetical regulatory protein; WHTH, DNA binding, phosphorylation, DNA-binding protein; NMR {Mycobacterium tuberculosis}
Probab=23.42 E-value=36 Score=28.47 Aligned_cols=32 Identities=13% Similarity=0.070 Sum_probs=24.6
Q ss_pred HHccccccHHHHHHHHHcCCe---EECcEEecccc
Q 022999 253 ASAGFKLSRSKLVNLIRYSSL---ASLVQISAKAS 284 (289)
Q Consensus 253 vs~~f~lSRska~~lI~~GkV---~vn~~~~~~~~ 284 (289)
+|+.+|+|+++..++|+.|++ ++++.-.-++.
T Consensus 37 VAe~LgVs~srV~~LIr~G~L~AVr~Gr~~rVP~~ 71 (148)
T 2kfs_A 37 VAELLGVPVSKVAQQLREGHLVAVRRAGGVVIPQV 71 (148)
T ss_dssp HHHHHTCCHHHHHHHHHTTSCCCEEETTEEEEEGG
T ss_pred HHHHhCCCHHHHHHHHHCCCceEEEECCEEEecHH
Confidence 578899999999999999984 67765333333
No 28
>1j9i_A GPNU1 DBD;, terminase small subunit; DNA binding domain, homodimer, viral assembly, winged helix-turn-helix, viral protein; NMR {Enterobacteria phage lambda} SCOP: a.6.1.5
Probab=20.35 E-value=43 Score=23.15 Aligned_cols=20 Identities=15% Similarity=-0.002 Sum_probs=18.4
Q ss_pred HHccccccHHHHHHHHHcCC
Q 022999 253 ASAGFKLSRSKLVNLIRYSS 272 (289)
Q Consensus 253 vs~~f~lSRska~~lI~~Gk 272 (289)
+|..+|+|++-...+++.|.
T Consensus 8 ~a~~LgvS~~Tl~rw~~~G~ 27 (68)
T 1j9i_A 8 LADIFGASIRTIQNWQEQGM 27 (68)
T ss_dssp HHHHTTCCHHHHHHHTTTTC
T ss_pred HHHHHCcCHHHHHHHHHCCC
Confidence 57889999999999999987
Done!