Query 032911
Match_columns 130
No_of_seqs 124 out of 1031
Neff 6.6
Searched_HMMs 29240
Date Mon Mar 25 11:57:56 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/032911.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/032911hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3u5c_W 40S ribosomal protein S 100.0 2.2E-52 7.6E-57 300.1 11.2 130 1-130 1-130 (130)
2 1i6u_A 30S ribosomal protein S 100.0 3E-52 1E-56 299.4 11.7 130 1-130 1-130 (130)
3 2xzm_H Ribosomal protein S8 co 100.0 2.7E-52 9.1E-57 299.7 8.5 130 1-130 1-130 (130)
4 1sei_A Ribosomal protein S8; p 100.0 1.7E-48 5.9E-53 279.9 13.4 121 2-130 1-130 (130)
5 2vqe_H 30S ribosomal protein S 100.0 1.2E-48 4.3E-53 283.0 12.0 122 2-130 1-138 (138)
6 3bbn_H Ribosomal protein S8; s 100.0 5E-48 1.7E-52 278.6 11.8 119 3-130 2-134 (134)
7 1s03_H 30S ribosomal protein S 100.0 1.4E-47 4.9E-52 274.8 13.3 119 3-130 2-129 (129)
8 3rf2_A 30S ribosomal protein S 100.0 1.9E-47 6.3E-52 284.2 11.2 123 1-130 1-168 (168)
9 2hgc_A YJCQ protein; SR346, st 59.0 3.3 0.00011 27.7 1.1 23 33-55 32-54 (102)
10 2zqe_A MUTS2 protein; alpha/be 53.1 39 0.0013 21.1 7.5 60 7-66 18-82 (83)
11 2zrr_A Mundticin KS immunity p 46.8 11 0.00038 25.8 2.2 44 4-48 54-97 (118)
12 3qd7_X Uncharacterized protein 42.6 80 0.0027 21.6 7.6 62 7-68 61-133 (137)
13 1r7j_A Conserved hypothetical 39.6 13 0.00045 23.8 1.6 43 3-49 6-52 (95)
14 2k19_A Putative piscicolin 126 37.1 9.1 0.00031 25.4 0.5 43 5-48 35-77 (98)
15 2heo_A Z-DNA binding protein 1 27.7 36 0.0012 20.1 2.1 19 31-49 39-57 (67)
16 1a6s_A GAG polyprotein; core p 27.2 22 0.00077 22.7 1.1 22 29-50 21-42 (87)
17 3f8b_A Transcriptional regulat 25.4 1.1E+02 0.0037 19.8 4.4 24 29-52 45-68 (116)
18 1xma_A Predicted transcription 24.2 1.3E+02 0.0045 20.4 4.8 25 29-53 74-98 (145)
19 3l7w_A Putative uncharacterize 24.2 1E+02 0.0034 19.6 4.0 25 29-53 38-62 (108)
20 4esb_A Transcriptional regulat 22.3 1.6E+02 0.0056 18.9 4.8 25 29-53 40-64 (115)
21 2hzt_A Putative HTH-type trans 21.5 98 0.0033 19.4 3.5 34 31-66 42-75 (107)
22 3ri2_A Transcriptional regulat 21.1 1.2E+02 0.0043 20.0 4.1 26 29-54 50-75 (123)
No 1
>3u5c_W 40S ribosomal protein S22-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3izb_H 3o30_O 3o2z_O 3u5g_W 1s1h_H 3jyv_H* 3iz6_H 2zkq_h
Probab=100.00 E-value=2.2e-52 Score=300.08 Aligned_cols=130 Identities=79% Similarity=1.274 Sum_probs=125.6
Q ss_pred CcccchHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCceeeeEEeeCCccceEEEEEcCccCCCccccccee
Q 032911 1 MVRVSVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIGEFEYVDDHRAGKIVVELNGRLNKCGVISPRFD 80 (130)
Q Consensus 1 m~~~~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~i~Lky~~~~~~~I~pRvy 80 (130)
|+.||+||||||+||||.+++|++|.++|+||++.+|+++|++||||++|++.++++++++||+|||+.+++++|+||+|
T Consensus 1 m~~~d~iad~lt~IrNA~~~~~~~v~i~P~Sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~v~Lk~r~~k~~~ISpR~y 80 (130)
T 3u5c_W 1 MTRSSVLADALNAINNAEKTGKRQVLIRPSSKVIIKFLQVMQKHGYIGEFEYIDDHRSGKIVVQLNGRLNKCGVISPRFN 80 (130)
T ss_dssp -CCCCHHHHHHHHHHHHHHTTCSEEEECSCCHHHHHHHHHHHTTTSSCCEEEECCSSSCEEEEECCSCCSCEEECSSCCB
T ss_pred CCcccHHHHHHHHhHHHHHcCCceEEEecCCHHHHHHHHHHHHCCCccceeeeccCCCceEEEEEccccCCCCeEEccee
Confidence 89999999999999999999999998779999999999999999999999999998899999999999999999999999
Q ss_pred cccceeeccccccCCCCcceEEEEECCCCcccHHHHHHcCCCcEEEEEEC
Q 032911 81 VGVKEIEGWTARLLPSRQFGYIVLTTSAGIMDHEEARRKNVGGKVLGFFY 130 (130)
Q Consensus 81 ~~~~~isk~~~r~l~~~g~Gi~IlSTskGimt~~eAr~~~lGGevLc~V~ 130 (130)
++.+|+++|..+.+|..|+|++|||||+|||||+|||++++|||+|||||
T Consensus 81 ~~~~el~kv~~g~lp~~~~Gi~IlSTs~Gimt~~eAr~~~vGGevL~~v~ 130 (130)
T 3u5c_W 81 VKIGDIEKWTANLLPARQFGYVILTTSAGIMDHEEARRKHVSGKILGFVY 130 (130)
T ss_dssp CCSSHHHHHHHHHCSCSSSCEEEEEETTEEEEHHHHHHHTCCEEEEEEEC
T ss_pred cCHHHhHHHHcCCCCCCCceEEEEEcCCCceeHHHHHHhCCCCEEEEEEC
Confidence 99999999987889999999999999999999999999999999999998
No 2
>1i6u_A 30S ribosomal protein S8P; protein-RNA interactions, ribosome, RNA, X-RAY crystallography; 2.60A {Methanocaldococcus jannaschii} SCOP: d.140.1.1
Probab=100.00 E-value=3e-52 Score=299.43 Aligned_cols=130 Identities=46% Similarity=0.859 Sum_probs=125.3
Q ss_pred CcccchHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCceeeeEEeeCCccceEEEEEcCccCCCccccccee
Q 032911 1 MVRVSVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIGEFEYVDDHRAGKIVVELNGRLNKCGVISPRFD 80 (130)
Q Consensus 1 m~~~~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~i~Lky~~~~~~~I~pRvy 80 (130)
|+++|++|||||+||||++++|.+|.+.|+||++.+|+++|++||||++|++.+++.+++|+|+|||..+++.+||||+|
T Consensus 1 M~~~d~iad~lt~IrNA~~~~~~~V~i~P~Sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~v~Lky~i~~~~~IS~R~y 80 (130)
T 1i6u_A 1 MSLMDPLANALNHISNCERVGKKVVYIKPASKLIGRVLKVMQDNGYIGEFEFIEDGRAGIFKVELIGKINKCGAIKPRFP 80 (130)
T ss_dssp -CCCCHHHHHHHHHHHHHHTTCSEEEESSCCHHHHHHHHHHHHTTSSCCEEEECCSSSCEEEEECCSCCSCEEECSSCCE
T ss_pred CCccCHHHHHHHHhHHHHHcCCCEEEEECchHHHHHHHHHHHHCCccccEEEEecCCceEEEEEEeeecccCCEEECCee
Confidence 88889999999999999999999999779999999999999999999999998888788999999999999999999999
Q ss_pred cccceeeccccccCCCCcceEEEEECCCCcccHHHHHHcCCCcEEEEEEC
Q 032911 81 VGVKEIEGWTARLLPSRQFGYIVLTTSAGIMDHEEARRKNVGGKVLGFFY 130 (130)
Q Consensus 81 ~~~~~isk~~~r~l~~~g~Gi~IlSTskGimt~~eAr~~~lGGevLc~V~ 130 (130)
++.+++++|..+.+|++|+|++|||||+|||||+|||++++|||+||+||
T Consensus 81 ~~~~~l~kv~~~~lp~~g~G~~IlSTs~Gimt~~eAr~~~vGGevL~~v~ 130 (130)
T 1i6u_A 81 VKKFGYEKFEKRYLPARDFGILIVSTTQGVMSHEEAKKRGLGGRLLAYVY 130 (130)
T ss_dssp ECTTCCHHHHHHHCSSTTCCEEEEEETTEEEEHHHHHHTTCCEEEEEEEC
T ss_pred cChhhhHHHHhccCCCCCceEEEEECCcCceeHHHHHHcCCCCEEEEEEC
Confidence 99999999988999999999999999999999999999999999999999
No 3
>2xzm_H Ribosomal protein S8 containing protein; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_H
Probab=100.00 E-value=2.7e-52 Score=299.66 Aligned_cols=130 Identities=63% Similarity=1.126 Sum_probs=125.4
Q ss_pred CcccchHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCceeeeEEeeCCccceEEEEEcCccCCCccccccee
Q 032911 1 MVRVSVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIGEFEYVDDHRAGKIVVELNGRLNKCGVISPRFD 80 (130)
Q Consensus 1 m~~~~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~i~Lky~~~~~~~I~pRvy 80 (130)
|+++|++|||||+||||++++|.+|.+.|+||++.+|+++|++||||++|++.+++.+++|+|+|||..+++.+||||+|
T Consensus 1 M~~~d~iad~lt~IrNA~~~~~~~V~i~P~Sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~v~Lky~i~~~~~IS~R~y 80 (130)
T 2xzm_H 1 MVKVNILAECLKDLVNAEKMGKKQVLLRPVSKVVLKFLRIMQKNGYIGEFEVIDDHRSKKVVVELIGRINKCGVISPRYD 80 (130)
T ss_dssp -CCCCHHHHHHHHHHHHHHHTCSEEEECSCCHHHHHHHHHHHHHTSSCCEEEECCSSSCEEEEECCSCCCCEEECTTCCB
T ss_pred CCccCHHHHHHHHhHHHHHcCCCEEEEEcchHHHHHHHHHHHHCCCcceEEEEecCCceEEEEEEecccccCcEEECcee
Confidence 88889999999999999999999999779999999999999999999999998888788999999999999999999999
Q ss_pred cccceeeccccccCCCCcceEEEEECCCCcccHHHHHHcCCCcEEEEEEC
Q 032911 81 VGVKEIEGWTARLLPSRQFGYIVLTTSAGIMDHEEARRKNVGGKVLGFFY 130 (130)
Q Consensus 81 ~~~~~isk~~~r~l~~~g~Gi~IlSTskGimt~~eAr~~~lGGevLc~V~ 130 (130)
++.+++++|..+++|++|+|++|||||+|||||+|||++++|||+||+||
T Consensus 81 ~~~~~l~kv~~~~lp~~g~Gi~IlSTs~Gimt~~eAr~~~vGGevL~~v~ 130 (130)
T 2xzm_H 81 VPLADFEKWTNNILPSRQFGNVVLTTTYGILTHEECRKRHTGGKILGFFY 130 (130)
T ss_dssp CCGGGHHHHHHHHSSSTTCCCCCEECSSCEECTTHHHHTTCCCEECEEEC
T ss_pred CCHHHhHHHHhccCCCCCceEEEEECCccceeHHHHHHcCCCCEEEEEEC
Confidence 99999999988999999999999999999999999999999999999999
No 4
>1sei_A Ribosomal protein S8; prokaryotic, rRNA-binding; 1.90A {Geobacillus stearothermophilus} SCOP: d.140.1.1
Probab=100.00 E-value=1.7e-48 Score=279.85 Aligned_cols=121 Identities=27% Similarity=0.523 Sum_probs=111.8
Q ss_pred cccchHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCceeeeEEeeCCccceEEEEEcCccCCCcccc-----
Q 032911 2 VRVSVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIGEFEYVDDHRAGKIVVELNGRLNKCGVIS----- 76 (130)
Q Consensus 2 ~~~~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~i~Lky~~~~~~~I~----- 76 (130)
+++|++|||||+||||++++|.+|.+ |+||++.+|+++|++||||++|++.++++++.|+|+|||+.+ +|+|+
T Consensus 1 ~~~d~iad~lt~IrNA~~~~~~~v~i-P~Sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~v~Lky~~~-~~vI~~i~rI 78 (130)
T 1sei_A 1 VMTDPIADMLTAIRNANMVRHEKLEV-PASKIKREIAEILKREGFIRDYEYIEDNKQGILRIFLKYGPN-ERVITGLKRI 78 (130)
T ss_dssp CCSHHHHHHHHHHHHHHHTTCSEEEE-ECCHHHHHHHHHHHHTTSEEEEEEEESSSCEEEEEEECBSSS-SBSCCCEEEC
T ss_pred CccChHHHHHHHhHHHHHcCCCEEEe-cCcHHHHHHHHHHHHCCCceeEEEEecCCccEEEEEEecCCC-CcceeeeEEE
Confidence 35799999999999999999999998 999999999999999999999999888878899999999876 69886
Q ss_pred --c--ceecccceeeccccccCCCCcceEEEEECCCCcccHHHHHHcCCCcEEEEEEC
Q 032911 77 --P--RFDVGVKEIEGWTARLLPSRQFGYIVLTTSAGIMDHEEARRKNVGGKVLGFFY 130 (130)
Q Consensus 77 --p--Rvy~~~~~isk~~~r~l~~~g~Gi~IlSTskGimt~~eAr~~~lGGevLc~V~ 130 (130)
| |+|++.++|++|. +|+|++|||||+|||||+|||++++|||+||+||
T Consensus 79 SkPg~R~y~~~~~l~~v~------~g~Gi~IlSTskGimt~~eAr~~~vGGevL~~v~ 130 (130)
T 1sei_A 79 SKPGLRVYVKAHEVPRVL------NGLGIAILSTSQGVLTDKEARQKGTGGEIIAYVI 130 (130)
T ss_dssp CBTTBCCEECGGGCCCCC------TTSCEEEEEETTEEEEHHHHHHHTCCEEEEEEEC
T ss_pred cCCCCeeEcCHHHHHHHh------CCCeEEEEECCcccccHHHHHHcCCCcEEEEEEC
Confidence 5 7777777776654 8999999999999999999999999999999999
No 5
>2vqe_H 30S ribosomal protein S8, 30S ribosomal protein S6; tRNA-binding, rRNA-binding, metal-binding, zinc-finger, translation; HET: TM2 PAR; 2.5A {Thermus thermophilus} SCOP: d.140.1.1 PDB: 1eg0_E* 1fka_H 1gix_K* 1hnw_H* 1hnx_H* 1hnz_H* 1hr0_H 1ibk_H* 1ibl_H* 1ibm_H 1j5e_H 1jgo_K* 1jgp_K* 1jgq_K* 1ml5_K* 1n32_H* 1n33_H* 1n34_H 1n36_H 1pns_H ...
Probab=100.00 E-value=1.2e-48 Score=282.98 Aligned_cols=122 Identities=30% Similarity=0.446 Sum_probs=111.6
Q ss_pred cccchHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCceeeeEEeeCCccceEEEEEcCccCC-------Ccc
Q 032911 2 VRVSVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIGEFEYVDDHRAGKIVVELNGRLNK-------CGV 74 (130)
Q Consensus 2 ~~~~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~i~Lky~~~~-------~~~ 74 (130)
+++|++|||||+||||++++|.+|.+ |+|+++.+|+++|++||||++|++.+++.++.|+|+|||+.++ +|+
T Consensus 1 m~~d~iad~ltrIrNA~~~~k~~V~i-P~Sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~v~Lky~~~~~~~~~~~~~v 79 (138)
T 2vqe_H 1 MLTDPIADMLTRIRNATRVYKESTDV-PASRFKEEILRILAREGFIKGYERVDVDGKPYLRVYLKYGPRRQGPDPRPEQV 79 (138)
T ss_dssp CCSCHHHHHHHHHHHHHHTTCSCCCC-BCCHHHHHHHHHHHHTTSSSEEEEEEETTEEEEEEECCBCCCCSSSCCCCCBS
T ss_pred CccchHHHHHHHhHHHHHcCCCEEEe-cCcHHHHHHHHHHHHcCcceeEEEEecCCceEEEEEEecCcCCccccccCCcc
Confidence 14799999999999999999999998 9999999999999999999999988877778999999996566 899
Q ss_pred cc-------c--ceecccceeeccccccCCCCcceEEEEECCCCcccHHHHHHcCCCcEEEEEEC
Q 032911 75 IS-------P--RFDVGVKEIEGWTARLLPSRQFGYIVLTTSAGIMDHEEARRKNVGGKVLGFFY 130 (130)
Q Consensus 75 I~-------p--Rvy~~~~~isk~~~r~l~~~g~Gi~IlSTskGimt~~eAr~~~lGGevLc~V~ 130 (130)
|+ | |+|++.++|++|. +|+|++|||||+|||||+|||++++|||+||+||
T Consensus 80 I~~ikriSkPg~Riy~~~~~lpkv~------~g~Gi~IlSTskGimt~~eAr~~~vGGEvLc~v~ 138 (138)
T 2vqe_H 80 IHHIRRISKPGRRVYVGVKEIPRVR------RGLGIAILSTSKGVLTDREARKLGVGGELICEVW 138 (138)
T ss_dssp CSCEEECSBTTBCCEECGGGCCCGG------GGTSEEEEEETTEEEEHHHHHHTTCCEEEEEEEC
T ss_pred ccccEEecCCCcceEeCHHHHHHHh------CCceEEEEECCCCceeHHHHHHcCCCCEEEEEEC
Confidence 97 5 7777777776554 8999999999999999999999999999999999
No 6
>3bbn_H Ribosomal protein S8; small ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea}
Probab=100.00 E-value=5e-48 Score=278.59 Aligned_cols=119 Identities=23% Similarity=0.360 Sum_probs=110.6
Q ss_pred ccchHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCceeeeEEeeC-CccceEEEEEcCccCCCcccc-----
Q 032911 3 RVSVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIGEFEYVDD-HRAGKIVVELNGRLNKCGVIS----- 76 (130)
Q Consensus 3 ~~~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~~~~~~~~-~~~~~i~i~Lky~~~~~~~I~----- 76 (130)
++|++|||||+||||++++|.+|.+ |+||++.+|+++|++||||++|++.++ +. +.|+|+||| .+++|+|+
T Consensus 2 ~~d~iad~lt~IrNA~~~~k~~V~i-P~Sk~~~~il~iL~~eGyI~~~~~~~~~~~-~~i~v~Lky-~~~~~vI~p~~~~ 78 (134)
T 3bbn_H 2 GKDTIADIITCIRNADMNRKGTVRI-VSTNITENIVKILLREGFIENARKHQERNK-YFLVLTLRH-RRNKKGPYLNTFH 78 (134)
T ss_dssp CSCHHHHHHHHHHHHHHTTCSEEEE-ECCHHHHHHTHHHHTTTSSSCEEEEESSSC-EEEEEECCB-CCCSSSCCBSCSC
T ss_pred cccHHHHHHHHhHHHHHcCCCEEEE-eCcHHHHHHHHHHHHCCcceeEEEEecCCC-cEEEEEEec-CCCCceeeccccc
Confidence 4799999999999999999999998 999999999999999999999998887 76 899999999 45679998
Q ss_pred ------c--ceecccceeeccccccCCCCcceEEEEECCCCcccHHHHHHcCCCcEEEEEEC
Q 032911 77 ------P--RFDVGVKEIEGWTARLLPSRQFGYIVLTTSAGIMDHEEARRKNVGGKVLGFFY 130 (130)
Q Consensus 77 ------p--Rvy~~~~~isk~~~r~l~~~g~Gi~IlSTskGimt~~eAr~~~lGGevLc~V~ 130 (130)
| |+|++.+++++|. +|+|++|||||+|||||+|||++++|||+||+||
T Consensus 79 ikriSkPg~Riy~~~~~lpkv~------~g~Gi~IlSTskGimt~~eAr~~~vGGevLc~v~ 134 (134)
T 3bbn_H 79 LKRVSRPGLRIYSNYQRIPRIL------GGMGIAILSTSRGIMTDREARLEGIGGEILCYIW 134 (134)
T ss_dssp EEESSBTTBCCEECSSSCCCGG------GTTSEEEEEESSSEECTTHHHHHTCCEEEEEEEC
T ss_pred cEEecCCCcceEcCHHHHHHHh------CCceEEEEECCcccccHHHHHHcCCCcEEEEEEC
Confidence 4 8888888887664 8999999999999999999999999999999999
No 7
>1s03_H 30S ribosomal protein S8; protein-RNA complex, SPC operon, transcription-RN; 2.70A {Escherichia coli} SCOP: d.140.1.1 PDB: 1p6g_H 1p87_H 2avy_H 2aw7_H 2i2p_H 2i2u_H 2qal_H* 2qan_H* 2qb9_H* 2qbb_H* 2qbd_H 2qbf_H 2qbh_H* 2qbj_H* 2qou_H* 2qow_H* 2qoy_H* 2qp0_H* 2vho_H 2vhp_H ...
Probab=100.00 E-value=1.4e-47 Score=274.75 Aligned_cols=119 Identities=24% Similarity=0.409 Sum_probs=108.7
Q ss_pred ccchHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCceeeeEEeeCCccceEEEEEcCccCCCcccc------
Q 032911 3 RVSVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIGEFEYVDDHRAGKIVVELNGRLNKCGVIS------ 76 (130)
Q Consensus 3 ~~~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~i~Lky~~~~~~~I~------ 76 (130)
++|++|||||+||||++++|.+|.+ |+||++.+|+++|++||||++|++ +++.++.|+|+|||. +++|+|+
T Consensus 2 ~~d~iad~lt~IrNA~~~~~~~v~i-P~Sk~~~~il~iL~~eGyI~~~~~-~~~~~~~i~v~Lky~-~~~~vI~~i~rIS 78 (129)
T 1s03_H 2 MQDPIADMLTRIRNGQAANKAAVTM-PSSKLKVAIANVLKEEGFIEDFKV-EGDTKPELELTLKYF-QGKAVVESIQRVS 78 (129)
T ss_dssp -CCHHHHHHHHHHHHHHTTCSEEEE-ECCHHHHHHHHHHHHTTSEEEEEE-ECSSSCEEEEEECBS-SSSBSCSCEEECS
T ss_pred CcChHHHHHHHhHHHHHcCCCEEEE-eCcHHHHHHHHHHHHCCcceeEEE-cCCCceEEEEEEecC-CCCcccccceEEc
Confidence 4799999999999999999999998 999999999999999999999998 667678999999994 5579886
Q ss_pred -c--ceecccceeeccccccCCCCcceEEEEECCCCcccHHHHHHcCCCcEEEEEEC
Q 032911 77 -P--RFDVGVKEIEGWTARLLPSRQFGYIVLTTSAGIMDHEEARRKNVGGKVLGFFY 130 (130)
Q Consensus 77 -p--Rvy~~~~~isk~~~r~l~~~g~Gi~IlSTskGimt~~eAr~~~lGGevLc~V~ 130 (130)
| |+|++.++|++|. +|+|++|||||+|||||+|||++++|||+||+||
T Consensus 79 kPg~R~y~~~~~l~kv~------~g~Gi~IlSTskGimt~~eAr~~~vGGevL~~v~ 129 (129)
T 1s03_H 79 RPGLRIYKRKDELPKVM------AGLGIAVVSTSKGVMTDRAARQAGLGGEIICYVA 129 (129)
T ss_dssp BTTBCCEECGGGSCCSC------SSSCEEEEEETTEEEEHHHHHHHTCCEEEEEEEC
T ss_pred CCCcceEcCHHHHHHHh------CCceEEEEECCcccccHHHHHHcCCCcEEEEEEC
Confidence 5 7777777776664 8999999999999999999999999999999998
No 8
>3rf2_A 30S ribosomal protein S8; RNA-binding protein, hyperthermophilic bacterium, ribosome; 2.16A {Aquifex aeolicus}
Probab=100.00 E-value=1.9e-47 Score=284.16 Aligned_cols=123 Identities=29% Similarity=0.444 Sum_probs=109.7
Q ss_pred CcccchHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCceeeeEEeeCC------------------------
Q 032911 1 MVRVSVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIGEFEYVDDH------------------------ 56 (130)
Q Consensus 1 m~~~~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~~~~~~~~~------------------------ 56 (130)
|++||+|||||||||||+++++.+|.+ |+|+++.+|+++|++||||++|++.+++
T Consensus 1 m~~~d~iad~lt~IrNA~~ar~~~v~i-P~Skl~~~i~~iL~~eGyI~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~ 79 (168)
T 3rf2_A 1 MSAVDPIADMFSAIKNAIMRRDDFLYV-PSSKLKERILDVLKKEGFIQDWEALKGEKYEEEYKKMKELAEKSPNPKMKRY 79 (168)
T ss_dssp ---CCHHHHHHHHHHHHHHTTCSEEEE-ECCHHHHHHHHHHHHHTSEEEEEECCHHHHHHHHHHHHHHHHSSCCSSSHHH
T ss_pred CCcccHHHHHHHHHHHHHHcCCCEEEe-cccHHHHHHHHHHHHCCCccceEEecCCccccccccccccccCCCccccccc
Confidence 889999999999999999999999998 9999999999999999999999998765
Q ss_pred ----------ccceEEEEEcCccC--CCcccc-------c--ceecccceeeccccccCCCCcceEEEEECCCCcccHHH
Q 032911 57 ----------RAGKIVVELNGRLN--KCGVIS-------P--RFDVGVKEIEGWTARLLPSRQFGYIVLTTSAGIMDHEE 115 (130)
Q Consensus 57 ----------~~~~i~i~Lky~~~--~~~~I~-------p--Rvy~~~~~isk~~~r~l~~~g~Gi~IlSTskGimt~~e 115 (130)
.+++|||+|||+++ ++|+|+ | |+|++.++++++. +|+|++|||||+|||||+|
T Consensus 80 ~~~~t~~n~~~~~~l~v~LKY~~~~~k~pvI~~lkrISKPg~Riy~~~~eLprv~------~GlGi~IlSTskGImt~rE 153 (168)
T 3rf2_A 80 LKQLEEYNKGTQYPIKIYLKYLDPKKRKSAITNIVKVSKGGRRVYAGVRTMPYVK------RGLGIAIVSTDAGVMTDHE 153 (168)
T ss_dssp HHHHHHTTSTTCCEEEEEECBSSTTSCSBSCSCEEECSCSSSCCEECSTTCCCSG------GGTSEEEEEETTEEEEHHH
T ss_pred ccccccccccccceEEEEEEeecCCCCCccccccEEecCCCceEEcCHHHHHHHH------cCCcEEEEEcCCcceeHHH
Confidence 57899999999643 479994 6 7777777776554 8999999999999999999
Q ss_pred HHHcCCCcEEEEEEC
Q 032911 116 ARRKNVGGKVLGFFY 130 (130)
Q Consensus 116 Ar~~~lGGevLc~V~ 130 (130)
||++++|||+||+||
T Consensus 154 Ar~~~vGGevLc~Vw 168 (168)
T 3rf2_A 154 ARRMRKGGEVIAFVW 168 (168)
T ss_dssp HHHTTCCEEEEEEEC
T ss_pred HHHhCCCCEEEEEEC
Confidence 999999999999999
No 9
>2hgc_A YJCQ protein; SR346, structure, autostructure, NESG, PSI-2, northeast structural genomics consortium, protein structure initiative; NMR {Bacillus subtilis} SCOP: a.4.5.77
Probab=59.01 E-value=3.3 Score=27.68 Aligned_cols=23 Identities=26% Similarity=0.436 Sum_probs=19.3
Q ss_pred HHHHHHHHhccCCceeeeEEeeC
Q 032911 33 VIIKFLLVMQKHGYIGEFEYVDD 55 (130)
Q Consensus 33 ~~~~il~iL~~eGyI~~~~~~~~ 55 (130)
.-..+++.|.++|||.|+.+.+.
T Consensus 32 ~~~~il~~L~d~GyI~Gv~~~~~ 54 (102)
T 2hgc_A 32 QFDDAVNFLKREGYIIGVHYSDD 54 (102)
T ss_dssp HHHHHHHHHHHHTSEECCEESSS
T ss_pred HHHHHHHHHHHCCCccceEEEeC
Confidence 44678999999999999988654
No 10
>2zqe_A MUTS2 protein; alpha/beta, ATP-binding, DNA-binding, nucleotide-binding, DN protein; 1.70A {Thermus thermophilus}
Probab=53.12 E-value=39 Score=21.08 Aligned_cols=60 Identities=13% Similarity=0.137 Sum_probs=46.5
Q ss_pred HHHHHHhhhhhhhhCccceeecC---CcHHHHHHHHHhccCCceeeeEEeeC--CccceEEEEEc
Q 032911 7 LNDALKSMYNAEKRGKRQVMIRP---SSKVIIKFLLVMQKHGYIGEFEYVDD--HRAGKIVVELN 66 (130)
Q Consensus 7 l~d~lt~IrNa~~a~~~~v~~~p---~sk~~~~il~iL~~eGyI~~~~~~~~--~~~~~i~i~Lk 66 (130)
...+-.-|..|..++.+.|.++. ...+...+-+.|.++..+..|..... +..+-..|.||
T Consensus 18 ~~~l~~fl~~a~~~g~~~v~IIHGkG~GvLr~~V~~~L~~~~~V~~f~~a~~~~GG~Gat~V~Lk 82 (83)
T 2zqe_A 18 LLEVDQALEEARALGLSTLRLLHGKGTGALRQAIREALRRDKRVESFADAPPGEGGHGVTVVALR 82 (83)
T ss_dssp HHHHHHHHHHHHHTTCSEEEEECCSTTSHHHHHHHHHHHHCTTEEEEEECCTTTTGGGEEEEEEC
T ss_pred HHHHHHHHHHHHHCCCCEEEEEECCCchHHHHHHHHHHhcCCceeEEEEcCcccCCCEEEEEEEe
Confidence 34455667889989999888843 35689999999999999999987653 34577888886
No 11
>2zrr_A Mundticin KS immunity protein; antiparallel four-helix bundle, antimicrobial protein; 1.80A {Enterococcus mundtii}
Probab=46.75 E-value=11 Score=25.83 Aligned_cols=44 Identities=20% Similarity=0.136 Sum_probs=36.5
Q ss_pred cchHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCcee
Q 032911 4 VSVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIG 48 (130)
Q Consensus 4 ~~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~ 48 (130)
..++-++|..-+|....+...|.+ --|+++.+|.++|.+.+.+=
T Consensus 54 ~~~Lk~vL~~Y~~ELk~~~tSvPf-ILSRMNldIS~vL~~n~I~L 97 (118)
T 2zrr_A 54 NESLRKVLGSYLKKLKNEGTSVPL-VLSRMNIEISNAIKKDGVSL 97 (118)
T ss_dssp SHHHHHHHHHHHHHHHHCCSCHHH-HHHHHHHHHHHHHTTTTCCC
T ss_pred cchHHHHHHHHHHHHhcCCCCchh-HHHHhhHHHHHHHHHCCccc
Confidence 356777788888888888888877 78999999999999998764
No 12
>3qd7_X Uncharacterized protein YDAL; alpha/beta/alpha fold, endonuclease, hydrolase; 2.30A {Escherichia coli}
Probab=42.56 E-value=80 Score=21.64 Aligned_cols=62 Identities=15% Similarity=0.059 Sum_probs=47.9
Q ss_pred HHHHHHhhhhhhhhCccceeecC---Cc------HHHHHHHHHhccCCceeeeEEee--CCccceEEEEEcCc
Q 032911 7 LNDALKSMYNAEKRGKRQVMIRP---SS------KVIIKFLLVMQKHGYIGEFEYVD--DHRAGKIVVELNGR 68 (130)
Q Consensus 7 l~d~lt~IrNa~~a~~~~v~~~p---~s------k~~~~il~iL~~eGyI~~~~~~~--~~~~~~i~i~Lky~ 68 (130)
...+-.-|..|..++.+.|.|+. .. .+...+-+.|.++.++..|.... ++..+-.+|.||-.
T Consensus 61 ~~~L~~fL~~a~~~g~r~V~IIHGKG~gs~~~~~vLk~~V~~wL~~~~~V~~f~~a~~~~GG~Gat~V~Lr~~ 133 (137)
T 3qd7_X 61 RKMVFSFIQQALADGLRNVLIIHGKGRDDKSHANIVRSYVARWLTEFDDVQAYCTALPHHGGSGACYVALRKT 133 (137)
T ss_dssp HHHHHHHHHHHHHTTCSEEEEECCCCSSTTSHHHHHHHHHHHHHHTSTTEEEEEECCGGGTGGGEEEEEECC-
T ss_pred HHHHHHHHHHHHHCCCCEEEEEECCCCCCCCchHHHHHHHHHHHhcCCceeEEeecCccCCCCEEEEEEEEch
Confidence 34456677889999988888743 12 79999999999999999998754 34567899999843
No 13
>1r7j_A Conserved hypothetical protein SSO10A; winged helix-turn-helix, two-stranded antiparallel coiled CO structural genomics, PSI; 1.47A {Sulfolobus solfataricus} SCOP: a.4.5.49 PDB: 1xsx_A
Probab=39.59 E-value=13 Score=23.77 Aligned_cols=43 Identities=7% Similarity=0.233 Sum_probs=29.8
Q ss_pred ccchHHHHHHhhhhhhhhCccce----eecCCcHHHHHHHHHhccCCceee
Q 032911 3 RVSVLNDALKSMYNAEKRGKRQV----MIRPSSKVIIKFLLVMQKHGYIGE 49 (130)
Q Consensus 3 ~~~~l~d~lt~IrNa~~a~~~~v----~~~p~sk~~~~il~iL~~eGyI~~ 49 (130)
.+++++|.|..|.++ .+...+ -+ + .......++.|.++|||.-
T Consensus 6 ~~eIi~~IL~~i~~~--~~~t~La~~~~l-s-~~~~~~~l~~L~~~GLI~~ 52 (95)
T 1r7j_A 6 KLEIIQAILEACKSG--SPKTRIMYGANL-S-YALTGRYIKMLMDLEIIRQ 52 (95)
T ss_dssp HHHHHHHHHHHHTTC--BCHHHHHHHHTC-C-HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHHcC--CCHHHHHHHhCc-C-HHHHHHHHHHHHHCCCeEE
Confidence 467899999999865 333222 22 3 3455678999999999983
No 14
>2k19_A Putative piscicolin 126 immunity protein; PISI, bacteriocin, immune system, antimicrobial protein; NMR {Carnobacterium maltaromaticum}
Probab=37.14 E-value=9.1 Score=25.44 Aligned_cols=43 Identities=14% Similarity=0.162 Sum_probs=33.8
Q ss_pred chHHHHHHhhhhhhhhCccceeecCCcHHHHHHHHHhccCCcee
Q 032911 5 SVLNDALKSMYNAEKRGKRQVMIRPSSKVIIKFLLVMQKHGYIG 48 (130)
Q Consensus 5 ~~l~d~lt~IrNa~~a~~~~v~~~p~sk~~~~il~iL~~eGyI~ 48 (130)
.++-++|..-++....+...|.+ --|+++.+|.++|.+.+.+=
T Consensus 35 ~~Lk~vL~~Y~~EL~~~~tSvP~-ILSRMNldiS~vl~~n~i~L 77 (98)
T 2k19_A 35 ESLKKVLENYLEELKQKSASVPL-ILSRMNLDISKAIRNDGVTL 77 (98)
T ss_dssp SSTHHHHHHHHHHHHSSSSCHHH-HHHHHHHHHHHHHHHHTCCC
T ss_pred chHHHHHHHHHHHHhcCCCcchH-HHHHhhHHHHHHHHHCCccc
Confidence 45666777777777777777776 77999999999999988653
No 15
>2heo_A Z-DNA binding protein 1; protein DLM1-Z-DNA complex, immune system-DNA complex; 1.70A {Mus musculus} PDB: 1j75_A
Probab=27.66 E-value=36 Score=20.06 Aligned_cols=19 Identities=16% Similarity=0.296 Sum_probs=15.8
Q ss_pred cHHHHHHHHHhccCCceee
Q 032911 31 SKVIIKFLLVMQKHGYIGE 49 (130)
Q Consensus 31 sk~~~~il~iL~~eGyI~~ 49 (130)
-...+.++..|.++|||..
T Consensus 39 r~tv~~~l~~L~~~G~I~~ 57 (67)
T 2heo_A 39 KKTLNQVLYRLKKEDRVSS 57 (67)
T ss_dssp HHHHHHHHHHHHHTTSEEE
T ss_pred HHHHHHHHHHHHHCCcEec
Confidence 4567789999999999864
No 16
>1a6s_A GAG polyprotein; core protein, virus structure, membrane binding, viral protein; NMR {Rous sarcoma virus - prague C} SCOP: a.61.1.4
Probab=27.16 E-value=22 Score=22.75 Aligned_cols=22 Identities=36% Similarity=0.410 Sum_probs=20.1
Q ss_pred CCcHHHHHHHHHhccCCceeee
Q 032911 29 PSSKVIIKFLLVMQKHGYIGEF 50 (130)
Q Consensus 29 p~sk~~~~il~iL~~eGyI~~~ 50 (130)
|..|-.-+.+..|.+||.+.+=
T Consensus 21 pskKeI~a~LslL~kEg~l~sP 42 (87)
T 1a6s_A 21 PSKKEIGAMLSLLQKEGLLMSP 42 (87)
T ss_dssp SCSSHHHHHHHTGGGTTCTTCG
T ss_pred CcHHHHHHHHHHHHHccCcCCh
Confidence 8999999999999999999853
No 17
>3f8b_A Transcriptional regulator, PADR-like family; winged helix turn helix, transcription regulator; 2.00A {Lactococcus lactis subsp} SCOP: a.4.5.0 PDB: 3f8c_A* 3f8f_A*
Probab=25.38 E-value=1.1e+02 Score=19.80 Aligned_cols=24 Identities=13% Similarity=0.209 Sum_probs=20.2
Q ss_pred CCcHHHHHHHHHhccCCceeeeEE
Q 032911 29 PSSKVIIKFLLVMQKHGYIGEFEY 52 (130)
Q Consensus 29 p~sk~~~~il~iL~~eGyI~~~~~ 52 (130)
+.......+|+-|.++|||+....
T Consensus 45 i~~gtly~~L~rLe~~GlI~~~~~ 68 (116)
T 3f8b_A 45 LNEATLYTIFKRLEKDGIISSYWG 68 (116)
T ss_dssp CCHHHHHHHHHHHHHTTSEEEEEE
T ss_pred CCcchHHHHHHHHHHCCCEEEEee
Confidence 556778899999999999997754
No 18
>1xma_A Predicted transcriptional regulator; southea collaboratory for structural genomics, secsg, protein struc initiative, PSI; 2.30A {Clostridium thermocellum} SCOP: a.4.5.61
Probab=24.16 E-value=1.3e+02 Score=20.37 Aligned_cols=25 Identities=16% Similarity=0.260 Sum_probs=20.5
Q ss_pred CCcHHHHHHHHHhccCCceeeeEEe
Q 032911 29 PSSKVIIKFLLVMQKHGYIGEFEYV 53 (130)
Q Consensus 29 p~sk~~~~il~iL~~eGyI~~~~~~ 53 (130)
+........|+-|.++|||......
T Consensus 74 is~gtLy~~L~rLE~~GlI~~~~~~ 98 (145)
T 1xma_A 74 IKETTLYSAFARLEKNGYIKSYYGE 98 (145)
T ss_dssp CCHHHHHHHHHHHHHTTSEEEEEEE
T ss_pred cChhHHHHHHHHHHHCCCEEEEEec
Confidence 4567778999999999999977554
No 19
>3l7w_A Putative uncharacterized protein SMU.1704; PADR, transcriptional factor, transcription; HET: MSE; 2.20A {Streptococcus mutans} SCOP: a.4.5.0
Probab=24.15 E-value=1e+02 Score=19.58 Aligned_cols=25 Identities=16% Similarity=0.352 Sum_probs=20.4
Q ss_pred CCcHHHHHHHHHhccCCceeeeEEe
Q 032911 29 PSSKVIIKFLLVMQKHGYIGEFEYV 53 (130)
Q Consensus 29 p~sk~~~~il~iL~~eGyI~~~~~~ 53 (130)
........+|+-|.++|||......
T Consensus 38 i~~~tly~~L~~Le~~GlI~~~~~~ 62 (108)
T 3l7w_A 38 IKESTLYPILKKLEKAGYLSTYTQE 62 (108)
T ss_dssp CCHHHHHHHHHHHHHTTSEEEEEEE
T ss_pred CCcChHHHHHHHHHHCCCeEEEeec
Confidence 4566788999999999999987543
No 20
>4esb_A Transcriptional regulator, PADR family; DNA binding protein, HTH fold; 2.50A {Bacillus cereus}
Probab=22.30 E-value=1.6e+02 Score=18.93 Aligned_cols=25 Identities=32% Similarity=0.190 Sum_probs=20.6
Q ss_pred CCcHHHHHHHHHhccCCceeeeEEe
Q 032911 29 PSSKVIIKFLLVMQKHGYIGEFEYV 53 (130)
Q Consensus 29 p~sk~~~~il~iL~~eGyI~~~~~~ 53 (130)
+........|+-|.++|||......
T Consensus 40 is~gtlY~~L~rLe~~GlI~~~~~~ 64 (115)
T 4esb_A 40 VSEGSIYPLLLRMQKEKLIEGTLKA 64 (115)
T ss_dssp CCHHHHHHHHHHHHHTTSEEEEEEE
T ss_pred CCcChHHHHHHHHHHCCCeEEEeee
Confidence 4567788999999999999987544
No 21
>2hzt_A Putative HTH-type transcriptional regulator YTCD; DNA-binding protein, HTH-type transcription regulators, structural genomics, PSI-2; HET: CSU MSE; 2.00A {Bacillus subtilis} SCOP: a.4.5.69
Probab=21.47 E-value=98 Score=19.41 Aligned_cols=34 Identities=24% Similarity=0.346 Sum_probs=22.9
Q ss_pred cHHHHHHHHHhccCCceeeeEEeeCCccceEEEEEc
Q 032911 31 SKVIIKFLLVMQKHGYIGEFEYVDDHRAGKIVVELN 66 (130)
Q Consensus 31 sk~~~~il~iL~~eGyI~~~~~~~~~~~~~i~i~Lk 66 (130)
....-..++.|.++|||+..... ...+...+.|-
T Consensus 42 ~~tls~~L~~Le~~GlI~r~~~~--~d~r~~~y~LT 75 (107)
T 2hzt_A 42 QKMLTQQLRELEADGVINRIVYN--QVPPKVEYELS 75 (107)
T ss_dssp HHHHHHHHHHHHHTTSEEEEEEC--SSSCEEEEEEC
T ss_pred HHHHHHHHHHHHHCCCEEEeecC--CCCCeEEEEEC
Confidence 45566788999999999976432 22445556564
No 22
>3ri2_A Transcriptional regulator, PADR-like family; PSI-biology, midwest center for structural genomics, MCSG, transcription regulator; 2.10A {Eggerthella lenta} PDB: 4ejo_A
Probab=21.12 E-value=1.2e+02 Score=19.96 Aligned_cols=26 Identities=4% Similarity=0.059 Sum_probs=21.2
Q ss_pred CCcHHHHHHHHHhccCCceeeeEEee
Q 032911 29 PSSKVIIKFLLVMQKHGYIGEFEYVD 54 (130)
Q Consensus 29 p~sk~~~~il~iL~~eGyI~~~~~~~ 54 (130)
+.......+|.-|.++|||.......
T Consensus 50 is~gtlY~~L~rLe~~GlI~~~~~~~ 75 (123)
T 3ri2_A 50 IEANTLYPLMRRLESQGLLASEWDNG 75 (123)
T ss_dssp CCHHHHHHHHHHHHHTTSEEEEEEEC
T ss_pred CCcchHHHHHHHHHHCCCEEEEeccC
Confidence 56778889999999999999875443
Done!