Query 034541
Match_columns 92
No_of_seqs 116 out of 765
Neff 4.6
Searched_HMMs 29240
Date Mon Mar 25 05:53:43 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034541.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/034541hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3j20_T 30S ribosomal protein S 100.0 4.5E-46 1.5E-50 263.2 3.7 87 2-92 46-132 (132)
2 3iz6_R 40S ribosomal protein S 100.0 1.6E-47 5.5E-52 276.1 -12.6 91 2-92 64-154 (154)
3 3u5c_P 40S ribosomal protein S 100.0 4.6E-44 1.6E-48 255.4 5.0 88 2-92 55-142 (142)
4 2xzm_S RPS15E; ribosome, trans 100.0 5.3E-43 1.8E-47 250.4 5.0 85 2-86 60-144 (144)
5 3bbn_S Ribosomal protein S19; 100.0 2.4E-37 8.3E-42 207.2 4.5 76 2-81 14-89 (92)
6 3a1p_B 30S ribosomal protein S 100.0 4.4E-37 1.5E-41 206.4 3.9 74 2-79 14-87 (93)
7 3i1m_S 30S ribosomal protein S 100.0 1E-36 3.5E-41 204.3 3.5 72 2-77 14-85 (92)
8 3r8n_S 30S ribosomal protein S 100.0 8.7E-36 3E-40 195.0 2.3 67 2-72 12-78 (79)
9 1pcf_A P15, transcriptional co 22.8 80 0.0027 19.0 3.0 31 38-71 10-40 (66)
10 3ed7_A Tsase, TS, thymidylate 22.0 1.7E+02 0.0058 22.4 5.4 55 16-70 154-234 (295)
No 1
>3j20_T 30S ribosomal protein S19P; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=100.00 E-value=4.5e-46 Score=263.19 Aligned_cols=87 Identities=57% Similarity=0.929 Sum_probs=67.5
Q ss_pred hHHHHHHHHhhhCCCCCCCCceEeeccCceecccccccEEEEecCcceeeeccCCCcceeeeeEEeeeEecccCCCCCCC
Q 034541 2 ALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIG 81 (92)
Q Consensus 2 ~ll~k~~k~~~~~~~~~k~~~ikt~sR~s~IlP~~vg~~~~VyNGk~f~~v~I~~eMIG~klGEFa~Trk~~~h~k~G~g 81 (92)
.||++++++++++ ++++|+||||+|+|+|+|||++|+|||||+|++|+|+|||||||||||++||+++.|++||+|
T Consensus 46 ~LlkKi~k~~~~~----~~~~ikT~sR~s~IlP~mVG~ti~VyNGK~f~~V~It~eMVGhkLGEFa~Trk~~~H~~pGig 121 (132)
T 3j20_T 46 KLLRKIRLAKKGK----YKKPIRTHCRDMIILPEMVGLTIYVHNGKEFVPVEIKPEMIGHYLGEFAPTRKKVEHGAPGVG 121 (132)
T ss_dssp HHHHHHHHHSSSS----CCCCEEECCCSCBCCGGGTTCEEEEECSSSEEEEECCGGGTTSBGGGTSCSSCCCCCC-----
T ss_pred HHHHHHHHHHhcc----CCcceEecccCCEeChHHCCcEEEEECCCeeeeeecccCccceeeeeeeeEeccCcCCCCCcC
Confidence 5899999998653 578999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccceecC
Q 034541 82 ATHSSRFIPLK 92 (92)
Q Consensus 82 at~ss~f~plk 92 (92)
||+||+|+|||
T Consensus 122 AT~sS~fiplK 132 (132)
T 3j20_T 122 ATRSSMFVAVK 132 (132)
T ss_dssp -----------
T ss_pred cccccccccCC
Confidence 99999999997
No 2
>3iz6_R 40S ribosomal protein S15 (S19P); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 2zkq_s
Probab=100.00 E-value=1.6e-47 Score=276.15 Aligned_cols=91 Identities=96% Similarity=1.471 Sum_probs=81.4
Q ss_pred hHHHHHHHHhhhCCCCCCCCceEeeccCceecccccccEEEEecCcceeeeccCCCcceeeeeEEeeeEecccCCCCCCC
Q 034541 2 ALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIG 81 (92)
Q Consensus 2 ~ll~k~~k~~~~~~~~~k~~~ikt~sR~s~IlP~~vg~~~~VyNGk~f~~v~I~~eMIG~klGEFa~Trk~~~h~k~G~g 81 (92)
.||+++|+|++++++++++++|+||||+|+|+|+|||++|+|||||+|++|+|+|||||||||||++||+++.|++||+|
T Consensus 64 ~Llkklrkak~~~~~~~k~~~IkT~sR~s~IlPemVG~ti~VyNGK~f~~V~It~eMVGhkLGEFa~Trk~~~HgkpGiG 143 (154)
T 3iz6_R 64 ALIKKLRKAKKDAPAGEKPEPVRTHLRNMIIVPEMIGSIVGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIG 143 (154)
T ss_dssp CCCSSCCSCCCSHHHHHTHHHHHTCSCSCCCCCCCCCCCCGGGTTCCCEEESSSSEEECCCCSSCCSSCGGGTTSSHHHH
T ss_pred HHHHHHHHhhhccCcccCCceeeecccCCEECHHHCCcEEEEEcCcceeeEEeccCccceeeeeeeeeeccCcCCCCCCC
Confidence 57888999987777778889999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccceecC
Q 034541 82 ATHSSRFIPLK 92 (92)
Q Consensus 82 at~ss~f~plk 92 (92)
||+||+|+|||
T Consensus 144 AT~SS~FiPlK 154 (154)
T 3iz6_R 144 ATHSSRFIPLK 154 (154)
T ss_dssp HTTCC------
T ss_pred cccccccccCC
Confidence 99999999997
No 3
>3u5c_P 40S ribosomal protein S15; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_R 3o30_I 3o2z_I 3u5g_P 1s1h_S 3jyv_S*
Probab=100.00 E-value=4.6e-44 Score=255.42 Aligned_cols=88 Identities=73% Similarity=1.257 Sum_probs=75.7
Q ss_pred hHHHHHHHHhhhCCCCCCCCceEeeccCceecccccccEEEEecCcceeeeccCCCcceeeeeEEeeeEecccCCCCCCC
Q 034541 2 ALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIG 81 (92)
Q Consensus 2 ~ll~k~~k~~~~~~~~~k~~~ikt~sR~s~IlP~~vg~~~~VyNGk~f~~v~I~~eMIG~klGEFa~Trk~~~h~k~G~g 81 (92)
.||+++|+|++++++++++++|+||||+|+|+|+|||++|+|||||+|++|+|+||||||||||||+||+++.|++||+
T Consensus 55 ~Ll~klrkak~~~~~~~k~~~ikT~sR~s~IlP~mVG~ti~VyNGK~f~~V~It~eMVGhkLGEFa~Trk~~~Hg~~gi- 133 (142)
T 3u5c_P 55 GFMKKLRAAKLAAPENEKPAPVRTHMRNMIIVPEMIGSVVGIYNGKAFNQVEIRPEMLGHYLGEFSITYTPVRHGRAGA- 133 (142)
T ss_dssp HHHHHHHHHHHHSCSSSCCCCEEECCTTCBCCGGGTTCEEEEESSSSEEEEECCGGGTTSBGGGGSCCSCCCCCSCC---
T ss_pred HHHHHHHHHhhhcCcccCCcceEeeccCCEeChhHCCCEEEEEcCCeeEEEecccCccceeeeeeeeEecccccCCCCc-
Confidence 6999999999999989999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccceecC
Q 034541 82 ATHSSRFIPLK 92 (92)
Q Consensus 82 at~ss~f~plk 92 (92)
+||+|+|||
T Consensus 134 --~SS~fiplK 142 (142)
T 3u5c_P 134 --TTSRFIPLK 142 (142)
T ss_dssp -----------
T ss_pred --cccccccCC
Confidence 999999997
No 4
>2xzm_S RPS15E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_S 3j0o_S 3j0l_S 3j0p_S 3j0q_S
Probab=100.00 E-value=5.3e-43 Score=250.40 Aligned_cols=85 Identities=51% Similarity=1.019 Sum_probs=73.5
Q ss_pred hHHHHHHHHhhhCCCCCCCCceEeeccCceecccccccEEEEecCcceeeeccCCCcceeeeeEEeeeEecccCCCCCCC
Q 034541 2 ALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIG 81 (92)
Q Consensus 2 ~ll~k~~k~~~~~~~~~k~~~ikt~sR~s~IlP~~vg~~~~VyNGk~f~~v~I~~eMIG~klGEFa~Trk~~~h~k~G~g 81 (92)
.||++++++++++++++++++|+||||+|+|+|+|||++|+|||||+|++|+|+|||||||||||++||++++|++||+|
T Consensus 60 ~LLkKi~k~~~~~~~~~k~~vIKTwsR~stIlPemVG~ti~VyNGK~fvpV~IteeMVGHKLGEFa~TRk~~~H~~pGig 139 (144)
T 2xzm_S 60 KFVNKVRRSKEKCPAGEKPVPVKTHYRSMIVIPELVGGIVGVYNGKEFVNVEVKFDMIGKYLAEFAMTYKPTTHGKTGAA 139 (144)
T ss_dssp HHHHHHHHHHHHSCTTTCCCCEEECCTTCBCCGGGTTCEEEEECSSSEEEEECCGGGTTSBGGGGSCCSCCCCCCC----
T ss_pred HHHHHHHHHhhhhhccCCCceEEEeccCcCcCHhHCCcEEEEecCCeeeeeeecccccceeeeceeeecccCccCCCCcC
Confidence 58999999998877788889999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccc
Q 034541 82 ATHSS 86 (92)
Q Consensus 82 at~ss 86 (92)
||+||
T Consensus 140 at~s~ 144 (144)
T 2xzm_S 140 GGKGK 144 (144)
T ss_dssp -----
T ss_pred cccCC
Confidence 99997
No 5
>3bbn_S Ribosomal protein S19; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Probab=100.00 E-value=2.4e-37 Score=207.21 Aligned_cols=76 Identities=29% Similarity=0.468 Sum_probs=68.9
Q ss_pred hHHHHHHHHhhhCCCCCCCCceEeeccCceecccccccEEEEecCcceeeeccCCCcceeeeeEEeeeEecccCCCCCCC
Q 034541 2 ALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIG 81 (92)
Q Consensus 2 ~ll~k~~k~~~~~~~~~k~~~ikt~sR~s~IlP~~vg~~~~VyNGk~f~~v~I~~eMIG~klGEFa~Trk~~~h~k~G~g 81 (92)
.||++++++++. + ++++|+||||+|+|+|+|||++|+|||||+|++|+|+||||||||||||+||+++.|++.+-.
T Consensus 14 ~Llkki~~~~~~---~-~~~~ikT~sR~stIlPemVG~ti~VhNGK~fv~V~It~~MVGhkLGEFa~Trk~~~H~~~~~~ 89 (92)
T 3bbn_S 14 HLLRKIEKLNKK---A-EKEIIVTWSRASTIIPTMIGHTIAIHNGREHLPIYITDRMVGHKLGEFAPTLNFRGHAKNDNK 89 (92)
T ss_dssp HHHHHHHTTTTT---T-CCCCEEECCCSCCCCTTCTTCCEEEECSSCEEEECCCSSCSSCCSTTTSCSSCCSSSCCCCCC
T ss_pred HHHHHHHHHHhc---C-CCcceEEEecCcccChhhcCcEEEEecCceEEEEEEeccccceEecceeeeecccccCCCccc
Confidence 589999988752 3 368999999999999999999999999999999999999999999999999999999876543
No 6
>3a1p_B 30S ribosomal protein S19; RIMM N-terminal domain, PRC-barrel domain, beta barrels, ribosome, 30S ribosomal subunit, ribosome biogenesis; 2.30A {Thermus thermophilus} PDB: 1fka_S 1gix_V* 1hnw_S* 1hnx_S* 1hnz_S* 1hr0_S 1ibk_S* 1ibl_S* 1ibm_S 1jgo_V* 1jgp_V* 1jgq_V* 1ml5_V* 1xmo_S* 1xmq_S* 1xnq_S* 1xnr_S* 1yl4_V 2b64_S* 2b9m_S* ...
Probab=100.00 E-value=4.4e-37 Score=206.36 Aligned_cols=74 Identities=35% Similarity=0.550 Sum_probs=68.0
Q ss_pred hHHHHHHHHhhhCCCCCCCCceEeeccCceecccccccEEEEecCcceeeeccCCCcceeeeeEEeeeEecccCCCCC
Q 034541 2 ALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPG 79 (92)
Q Consensus 2 ~ll~k~~k~~~~~~~~~k~~~ikt~sR~s~IlP~~vg~~~~VyNGk~f~~v~I~~eMIG~klGEFa~Trk~~~h~k~G 79 (92)
.||++++++++. .++++|+||||+|+|+|+|||++|+|||||+|++|+|+||||||||||||+||+++.|++.+
T Consensus 14 ~Llkki~~~~~~----~~~~~ikT~sR~stIlP~mVG~ti~VhNGK~fv~V~It~eMVGhkLGEFa~Trk~~~H~~~~ 87 (93)
T 3a1p_B 14 HLLEKVLELNAK----GEKRLIKTWSRRSTIVPEMVGHTIAVYNGKQHVPVYITENMVGHKLGEFAPTRTYRGHGKEA 87 (93)
T ss_dssp HHHHHHHHHHHH----TCCCCEEECCSSSBCCGGGTTCEEEEECSSSEEEEECCGGGTTSBGGGGCCCSCCCCTTGGG
T ss_pred HHHHHHHHHHhc----CCCcceEEEecCcCcChhhcCcEEEEecCceEEEEEeccCccceeecceeeeecccccCccc
Confidence 589999998864 24689999999999999999999999999999999999999999999999999999997643
No 7
>3i1m_S 30S ribosomal protein S19; ribosome structure, protein-RNA complex, ribonucleoprotein, ribosomal protein, RNA-binding, rRNA-binding, antibiotic resistance; 3.19A {Escherichia coli k-12} PDB: 1vs7_S* 3e1a_L 3e1c_L 1vs5_S 3i1o_S 3i1q_S 3i1s_S 3i1z_S 3i21_S 3izv_W* 3izw_W* 3kc4_S 3or9_S 3ora_S 3sfs_S* 3uoq_S* 4gaq_S* 4gas_S* 2qal_S* 1p6g_S ...
Probab=100.00 E-value=1e-36 Score=204.26 Aligned_cols=72 Identities=38% Similarity=0.528 Sum_probs=64.0
Q ss_pred hHHHHHHHHhhhCCCCCCCCceEeeccCceecccccccEEEEecCcceeeeccCCCcceeeeeEEeeeEecccCCC
Q 034541 2 ALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGR 77 (92)
Q Consensus 2 ~ll~k~~k~~~~~~~~~k~~~ikt~sR~s~IlP~~vg~~~~VyNGk~f~~v~I~~eMIG~klGEFa~Trk~~~h~k 77 (92)
.||++++++++. .++++|+||||+|+|+|+|||++|+|||||+|++|+|+||||||||||||+||+++.|++
T Consensus 14 ~Llkki~k~~~~----~~~~~ikT~sR~stIlP~mVG~ti~VyNGK~fv~V~It~~MVGhkLGEFa~TRk~~~H~~ 85 (92)
T 3i1m_S 14 HLLKKVEKAVES----GDKKPLRTWSRRSTIFPNMIGLTIAVHNGRQHVPVFVTDEMVGHKLGEFAPTRTYRGHAA 85 (92)
T ss_dssp HHHHHHHHHHHT----CCCSCCEECCTTCBCCGGGSSCCCEEECSSSEEECCCCTTCCSSBGGGSSCCCCCC----
T ss_pred HHHHHHHHHHhc----CCCcceEEecCCCEechHHCCCEEEEEcCceEEEEEeecCeeeeEeeeeeeEecccccCc
Confidence 589999998864 246899999999999999999999999999999999999999999999999999999987
No 8
>3r8n_S 30S ribosomal protein S19; protein biosynthesis, RNA, tRNA, transfer RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia coli} PDB: 2ykr_S 3fih_S* 3j18_S* 2wwl_S 3oar_S 3oaq_S 3ofb_S 3ofa_S 3ofp_S 3ofx_S 3ofy_S 3ofo_S 3r8o_S 4a2i_S 4gd1_S 4gd2_S 2gy9_S 2gyb_S
Probab=100.00 E-value=8.7e-36 Score=195.01 Aligned_cols=67 Identities=39% Similarity=0.553 Sum_probs=61.9
Q ss_pred hHHHHHHHHhhhCCCCCCCCceEeeccCceecccccccEEEEecCcceeeeccCCCcceeeeeEEeeeEec
Q 034541 2 ALIKKLRKAKREAPPGEKPEPVRTHLRNMIIVPEMIGSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKP 72 (92)
Q Consensus 2 ~ll~k~~k~~~~~~~~~k~~~ikt~sR~s~IlP~~vg~~~~VyNGk~f~~v~I~~eMIG~klGEFa~Trk~ 72 (92)
.||++++++++. .++++|+||||+|+|+|+|||++|+|||||+|++|+|+||||||||||||+||++
T Consensus 12 ~Llkki~k~~~~----~~~~~ikT~sR~stIlP~mVG~ti~VyNGk~f~~V~It~~MVGhkLGEFa~TR~~ 78 (79)
T 3r8n_S 12 HLLKKVEKAVES----GDKKPLRTWSRRSTIFPNMIGLTIAVHNGRQHVPVFVTDEMVGHKLGEFAPTRTY 78 (79)
T ss_dssp HHHHHHGGGTTS----CCCSCEECCCTTSBCCSTTTTCCEEEECSSSEECCCCCTTCCSSBTTTTSCSSCC
T ss_pred HHHHHHHHHHhc----CCCcceEEecCCCEECHHHCCCEEEEECCCeeEEEEeccCeeceEeeeeeeEeec
Confidence 588999888753 2468999999999999999999999999999999999999999999999999986
No 9
>1pcf_A P15, transcriptional coactivator PC4; transcriptional cofactor, ssDNA binding, nuclear protein; 1.74A {Homo sapiens} SCOP: d.18.1.1 PDB: 2c62_A 2phe_A
Probab=22.84 E-value=80 Score=19.02 Aligned_cols=31 Identities=13% Similarity=0.081 Sum_probs=21.5
Q ss_pred ccEEEEecCcceeeeccCCCcceeeeeEEeeeEe
Q 034541 38 GSIIGVYNGKTFNQVEIKPEMIGHYLAEFSISYK 71 (92)
Q Consensus 38 g~~~~VyNGk~f~~v~I~~eMIG~klGEFa~Trk 71 (92)
-.++.-|+|+.|+.|.- .-. -+-||.-|++|
T Consensus 10 rvtv~~fkG~~~VdIRe--~Y~-~kdG~~~PgkK 40 (66)
T 1pcf_A 10 YVSVRDFKGKVLIDIRE--YWM-DPEGEMKPGRK 40 (66)
T ss_dssp EEEEEEETTEEEEEEEE--EEE-CTTSCEEEEEE
T ss_pred EEEEEEeCCCEEEEEEE--EEE-CCCCcCCCCcc
Confidence 46788999999998743 111 12388888876
No 10
>3ed7_A Tsase, TS, thymidylate synthase; transferase, methyltransferase, nucleotide biosynthesis; 1.56A {Homo sapiens} SCOP: d.117.1.1 PDB: 3ebu_A* 1hvy_A* 1ypv_A* 1hw3_A* 2onb_A* 3eaw_X* 3gg5_A 3gh0_A 3ef9_A 3edw_X 3ejl_A* 3gh2_X* 4gyh_A 4h1i_A 2rd8_A* 2rda_A 3h9k_A* 3hb8_A* 3ob7_A* 1ju6_A* ...
Probab=22.00 E-value=1.7e+02 Score=22.37 Aligned_cols=55 Identities=15% Similarity=0.075 Sum_probs=39.2
Q ss_pred CCCCCCceEeec----cCceecccccccEEEEecCcceeeeccC----------------------CCcceeeeeEEeee
Q 034541 16 PGEKPEPVRTHL----RNMIIVPEMIGSIIGVYNGKTFNQVEIK----------------------PEMIGHYLAEFSIS 69 (92)
Q Consensus 16 ~~~k~~~ikt~s----R~s~IlP~~vg~~~~VyNGk~f~~v~I~----------------------~eMIG~klGEFa~T 69 (92)
|..+.-++..|. -.+...|......|.|-||+=...+... .+..|.+.|||.-|
T Consensus 154 P~sRR~ivsaWnp~dl~~maLpPCh~~~qF~V~~gkLs~~lyqRS~D~~lG~PfNiasyalL~~miA~~~gl~~G~~~h~ 233 (295)
T 3ed7_A 154 PDDRRIIMCAWNPRDLPLMALPPCHALCQFYVVNSELSCQLYQRSGDMGLGVPFNIASYALLTYMIAHITGLKPGDFIHT 233 (295)
T ss_dssp TTCSCCEEEECCGGGTTTSSSCCCSEEEEEEEETTEEEEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTCEEEEEEEE
T ss_pred CCCceeEEEecCHhHhhcCCCCCceEEEEEEEeCCEEEEEEEeehhhhHHhhhhhHHHHHHHHHHHHHHhCCeeeEEEEE
Confidence 345556777775 3477889999999999999876555432 23358999999865
Q ss_pred E
Q 034541 70 Y 70 (92)
Q Consensus 70 r 70 (92)
-
T Consensus 234 ~ 234 (295)
T 3ed7_A 234 L 234 (295)
T ss_dssp E
T ss_pred E
Confidence 3
Done!