Query 024952
Match_columns 260
No_of_seqs 189 out of 278
Neff 3.1
Searched_HMMs 29240
Date Mon Mar 25 17:21:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024952.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/024952hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2kcp_A 30S ribosomal protein S 100.0 1.4E-32 4.8E-37 218.4 6.4 71 175-260 19-89 (98)
2 2kco_A 30S ribosomal protein S 100.0 1.6E-31 5.3E-36 221.8 5.1 79 167-260 42-127 (133)
3 3j20_J 30S ribosomal protein S 100.0 3.4E-31 1.2E-35 218.1 1.2 69 175-259 57-125 (127)
4 2xzm_2 40S ribosomal protein S 99.9 2.5E-26 8.6E-31 201.9 3.5 85 175-259 65-191 (208)
5 3u5c_I RP19, S14, YS9, 40S rib 99.9 1.8E-26 6E-31 202.1 0.6 85 175-259 57-184 (200)
6 3j21_c 50S ribosomal protein L 22.4 53 0.0018 25.4 2.6 25 230-257 46-70 (87)
7 3gs9_A Protein GP18; NP_465809 15.0 1.8E+02 0.0063 26.0 4.8 32 178-209 285-316 (342)
8 2krs_A Probable enterotoxin; a 11.7 2.7E+02 0.0091 19.4 3.9 47 196-256 10-56 (74)
9 4ffu_A Oxidase; structural gen 10.4 6.4E+02 0.022 20.1 7.0 23 185-207 118-140 (176)
10 1m2z_B Nuclear receptor coacti 8.8 56 0.0019 20.4 -0.5 17 83-99 8-24 (26)
No 1
>2kcp_A 30S ribosomal protein S8E; RPS8E, beta, NESG, ribonucleoprotein, structural genomics, PSI-2; NMR {Methanothermobacter thermautotrophicusstr} PDB: 2kcy_A
Probab=99.97 E-value=1.4e-32 Score=218.37 Aligned_cols=71 Identities=34% Similarity=0.482 Sum_probs=67.5
Q ss_pred cceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecceeeEEccCCCCceee
Q 024952 175 GLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWGKYAQVTNNPENDGCI 254 (260)
Q Consensus 175 aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwGkYAqVTSRPGQDG~i 254 (260)
+||+++|||+||++++|++++|++|+||||||+|+|+|||||||||++| .|+ |+|||||||||||
T Consensus 19 alr~~~aNv~~~~~~~t~k~~Ii~Vv~NpsN~~yvR~n~ltKGaII~~d---------~Gk------A~VTSRPGQdG~v 83 (98)
T 2kcp_A 19 LASDTRINVVDPETGKVEIAEIRNVVENTANPHFVRRNIITRGAVVETN---------LGN------VRVTSRPGQDGVI 83 (98)
T ss_dssp TTSCCCEEEECTTTCCEEEECEEESSCSCSSCTTCCSSCCCTTCEEEES---------SSE------EEECSCTTGGGSC
T ss_pred EEEeeeEEEEecccCeEEEEEEEEEEECCCChHHeecccEEeeeEEEec---------CcE------EEEecCCCCccEE
Confidence 7999999999999999999999999999999999999999999999955 444 9999999999999
Q ss_pred eeEEcC
Q 024952 255 NAVLLV 260 (260)
Q Consensus 255 NavLLv 260 (260)
|||||+
T Consensus 84 navlL~ 89 (98)
T 2kcp_A 84 NGVLIR 89 (98)
T ss_dssp EEEEEC
T ss_pred EEEEEe
Confidence 999985
No 2
>2kco_A 30S ribosomal protein S8E; ribosomal protein of unknown function, ribonucleoprotein, PSI-2, protein structure initiative; NMR {Sulfolobus solfataricus P2}
Probab=99.97 E-value=1.6e-31 Score=221.83 Aligned_cols=79 Identities=32% Similarity=0.423 Sum_probs=72.6
Q ss_pred ccccccccc-------ceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecc
Q 024952 167 YERFIRPSG-------LRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWG 239 (260)
Q Consensus 167 ~erfirp~a-------LR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwG 239 (260)
--+++|.+| ||+++|||+||++++|++++|++|+||||||+|+|+|||||||||++| +|
T Consensus 42 ~~~~vR~rGGN~K~r~lr~~~~nv~~~~~~~t~k~~I~~Vv~Npsn~~yvR~n~itKGaII~~~---lG----------- 107 (133)
T 2kco_A 42 IRIKDRTLGGNFKVRLKYTTTANVLDPATNTAKKVKILEILETPANKELARRGIIIRGAKIRTE---AG----------- 107 (133)
T ss_dssp HHHHHHTCCCCCCCCCCCCCEEEEEETTTTEEEEEEEEEECSCCTTHHHHTTTCCCTTCEEEES---SS-----------
T ss_pred EEEEEeccCCceeeeEeeeeeEEEEecccCeEEEEEEEEEEECCCChhheecccEeeeeEEEEe---Cc-----------
Confidence 345677765 999999999999999999999999999999999999999999999955 55
Q ss_pred eeeEEccCCCCceeeeeEEcC
Q 024952 240 KYAQVTNNPENDGCINAVLLV 260 (260)
Q Consensus 240 kYAqVTSRPGQDG~iNavLLv 260 (260)
||+||||||||||||||||.
T Consensus 108 -~A~VtSRPGQdG~vnavlle 127 (133)
T 2kco_A 108 -LAVVTSRPGQDGVINAVLLK 127 (133)
T ss_dssp -EEEEEEEECTTSBEEEEECS
T ss_pred -eEEEecCCCCcceEEEEEEe
Confidence 59999999999999999984
No 3
>3j20_J 30S ribosomal protein S8E; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=99.96 E-value=3.4e-31 Score=218.14 Aligned_cols=69 Identities=38% Similarity=0.513 Sum_probs=67.0
Q ss_pred cceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecceeeEEccCCCCceee
Q 024952 175 GLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWGKYAQVTNNPENDGCI 254 (260)
Q Consensus 175 aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwGkYAqVTSRPGQDG~i 254 (260)
+||+++|||+| ++++|++++|++|+||||||+|+|+|+|||||||+ ||+|+ |+|||||||||||
T Consensus 57 alr~~~aNvs~-s~~~t~k~~Ii~Vv~NpsN~~yvR~n~itKGaIIe---te~G~------------a~vtsrPgqdG~v 120 (127)
T 3j20_J 57 LTAAAYANVFD-KSGKGRKVRIIRVIENPANRQFARRNIITKGAIIE---TEIGK------------AKVTSRPGQDGVV 120 (127)
T ss_dssp EEEESBCCCCC-SSCCCCCCBBCCCCCCSSCSHHHHHTCCCSSCEEE---BSSSE------------EEECSCSSSSCCC
T ss_pred EEEeccceEEe-ecCCEEEEEEEEEEECCCChhheEeccEecceEEE---EcCce------------EEEecCCccCceE
Confidence 69999999999 99999999999999999999999999999999999 77776 9999999999999
Q ss_pred eeEEc
Q 024952 255 NAVLL 259 (260)
Q Consensus 255 NavLL 259 (260)
|||||
T Consensus 121 Navll 125 (127)
T 3j20_J 121 NAILL 125 (127)
T ss_dssp CEEEC
T ss_pred EEEEe
Confidence 99998
No 4
>2xzm_2 40S ribosomal protein S8; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB: 2xzn_2
Probab=99.92 E-value=2.5e-26 Score=201.89 Aligned_cols=85 Identities=20% Similarity=0.249 Sum_probs=74.7
Q ss_pred cceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEccccccc---------------ccC-------
Q 024952 175 GLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGL---------------VTP------- 232 (260)
Q Consensus 175 aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~---------------vT~------- 232 (260)
+||++.|||+||+.+.|.+++|++|+||||||||+|+|||||||||++|++||-. .+.
T Consensus 65 alrl~~gNfsw~se~~trK~kIl~VvyN~sNnelvRtntLtKgAIV~tDa~Pfrqwye~hy~~~lg~kk~~~~~~~~k~s 144 (208)
T 2xzm_2 65 ALRLCEGNFSWGSENITRKTKILDVKYNATNNELVRTKTLVKNSIVEIDSTPFREWYKLHYGIDLGLKKDRTVLGNKEKS 144 (208)
T ss_dssp EEEESEEEEEETTTTEEEEEEEEEECCCSSCSHHHHTTCCCTTCEEEEESHHHHHHHHHHHSBCCSSGGGCBCCCSCCSS
T ss_pred eeecceeEEEecCCCeEEEEEEEEEEecCcchHHHhhcccccccEEEccCchhHHHHHHhcCcccccccccccccchhhh
Confidence 7999999999999999999999999999999999999999999999999998641 000
Q ss_pred --------------CCceec-----c-eeeEEccCCCCceeeeeEEc
Q 024952 233 --------------AGKVVW-----G-KYAQVTNNPENDGCINAVLL 259 (260)
Q Consensus 233 --------------~Gkvvw-----G-kYAqVTSRPGQDG~iNavLL 259 (260)
..+.+. | +||+|||||||.|.+||+||
T Consensus 145 ~~~~kk~~r~~~~~~~~~l~eqf~~GrllA~isSRPGQ~GradGyiL 191 (208)
T 2xzm_2 145 RHVQKRVKRTKAQALEKNIEEQFVSQRILACITSRPGQSGRADGYIL 191 (208)
T ss_dssp TTHHHHHHHTTTCCCCHHHHHHHHHSEEEEEECSCHHHHSCCEEEEC
T ss_pred HHHHHHHHHhhhccccHHHHHHHhhCcEEEEEecCCCCcccccEEEE
Confidence 122233 6 99999999999999999998
No 5
>3u5c_I RP19, S14, YS9, 40S ribosomal protein S8-A; translation, ribosome, ribosomal, ribosomal R ribosomal protein, eukaryotic ribosome, RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB: 3u5g_I
Probab=99.91 E-value=1.8e-26 Score=202.05 Aligned_cols=85 Identities=20% Similarity=0.368 Sum_probs=73.5
Q ss_pred cceeeeEEEEcCCCCeEEEEEeeeeeeCCCCCCceeeccceeceEEEEccccccc---------c---------------
Q 024952 175 GLRFTKAHVTHPELKCTFNLEIIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGL---------V--------------- 230 (260)
Q Consensus 175 aLR~~kANVt~Pelk~T~klkIi~VkkNPSNneyvR~niITKGTIIEVnvSeLG~---------v--------------- 230 (260)
+||++.|||+||++++|++++|++|+||||||+|+|+|||||||||++|+|||-. +
T Consensus 57 alr~d~~N~s~~se~~tkK~kI~~Vv~N~sNne~vRrn~LtKGaII~tDatPfrqwy~~hy~~~lg~kk~~~~~~~~k~s 136 (200)
T 3u5c_I 57 ALRIETGNFSWASEGISKKTRIAGVVYHPSNNELVRTNTLTKAAIVQIDATPFRQWFEAHYGQTLGKKKNVKEEETVAKS 136 (200)
T ss_dssp ESSBCEEEEEEGGGTEEEEEECCEEEECSSCHHHHHTTCBCTTCEEECCCHHHHHHHHHHSSCCSCCC-----------C
T ss_pred eEeeceeEEEeCCCCeEEEEeEEEEEEcCCChHhhhccceecceEEEccCchhhHHHHhhhCcccccccccchhhhhhhh
Confidence 7999999999999999999999999999999999999999999999999996441 0
Q ss_pred ----------cCCCce---ec-----c-eeeEEccCCCCceeeeeEEc
Q 024952 231 ----------TPAGKV---VW-----G-KYAQVTNNPENDGCINAVLL 259 (260)
Q Consensus 231 ----------T~~Gkv---vw-----G-kYAqVTSRPGQDG~iNavLL 259 (260)
....++ +- | +||+|||||||.|.+||+||
T Consensus 137 ~~~~~k~~~r~~~~~i~~~leeqf~~GrllA~isSRPGQ~GradGyiL 184 (200)
T 3u5c_I 137 KNAERKWAARAASAKIESSVESQFSAGRLYACISSRPGQSGRCDGYIL 184 (200)
T ss_dssp SHHHHHHHHSCSSCCCCHHHHHHHHTTCCEEEECSCHHHHSCCCEEEC
T ss_pred HHHHHHHHHHHhhCCcCHHHHHHHhhCcEEEEEecCCCCccccceeEE
Confidence 001111 11 6 99999999999999999998
No 6
>3j21_c 50S ribosomal protein L35AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} PDB: 1sqr_A 2lp6_A
Probab=22.37 E-value=53 Score=25.42 Aligned_cols=25 Identities=24% Similarity=0.521 Sum_probs=19.4
Q ss_pred ccCCCceecceeeEEccCCCCceeeeeE
Q 024952 230 VTPAGKVVWGKYAQVTNNPENDGCINAV 257 (260)
Q Consensus 230 vT~~GkvvwGkYAqVTSRPGQDG~iNav 257 (260)
++..|+++|| .||--.|+.|.|-|.
T Consensus 46 v~~~g~~iwG---KVtr~HGnsGvVrAk 70 (87)
T 3j21_c 46 KSPSGKILKG---KIVRVHGTKGAVRAR 70 (87)
T ss_dssp CCSSSCCEEE---EEEEECCSSSCEEEE
T ss_pred EeCCCCEEEE---EEEeeeCCCCeEEEE
Confidence 5678888988 577778888888664
No 7
>3gs9_A Protein GP18; NP_465809.1, structural genomics center for structural genomics, JCSG, protein structure INI PSI-2; HET: MLY MSE; 1.70A {Listeria monocytogenes egd-e}
Probab=15.01 E-value=1.8e+02 Score=26.00 Aligned_cols=32 Identities=9% Similarity=0.001 Sum_probs=27.5
Q ss_pred eeeEEEEcCCCCeEEEEEeeeeeeCCCCCCce
Q 024952 178 FTKAHVTHPELKCTFNLEIIGVKKNPNGPMYT 209 (260)
Q Consensus 178 ~~kANVt~Pelk~T~klkIi~VkkNPSNneyv 209 (260)
-+..+|.|..++....++|+++.++|.++.+.
T Consensus 285 GD~V~v~~~~lgi~~~~RIv~~~~~~~~~~~~ 316 (342)
T 3gs9_A 285 GDYVLFIYEPLGIDYDVQIVAYXXYPFTIXAP 316 (342)
T ss_dssp TCEEEEEETTTTEEEEEEEEEEEECTTSSCCC
T ss_pred CCEEEEEecCCCceeEEEEEEEeccCCCCCCc
Confidence 36778999999999999999999999766443
No 8
>2krs_A Probable enterotoxin; all beta, SH3, ENTD, CPF_0587, CPE0606, structural genomics, PSI-2, protein structure initiative; NMR {Clostridium perfringens}
Probab=11.71 E-value=2.7e+02 Score=19.35 Aligned_cols=47 Identities=13% Similarity=0.306 Sum_probs=32.4
Q ss_pred eeeeeeCCCCCCceeeccceeceEEEEcccccccccCCCceecceeeEEccCCCCceeeee
Q 024952 196 IIGVKKNPNGPMYTSLGVITKGTIIEVNVSELGLVTPAGKVVWGKYAQVTNNPENDGCINA 256 (260)
Q Consensus 196 Ii~VkkNPSNneyvR~niITKGTIIEVnvSeLG~vT~~GkvvwGkYAqVTSRPGQDG~iNa 256 (260)
-++|..-|+. .+.-.+.|.+|+.++|--.. | -+.+|... |+.|-|.+
T Consensus 10 ~lnvRs~P~~-~~~vi~~l~~G~~v~v~~~~-------~-----~W~kV~~~-g~~GwV~~ 56 (74)
T 2krs_A 10 ALNMRSGPGS-NYGVIGTLRNNDKVEIIKEV-------D-----GWYEIRFN-GKVGYASK 56 (74)
T ss_dssp EEEEESSSST-TTCEEEEEETTCEEEEEEEE-------T-----TEEEEEET-TEEEEECS
T ss_pred CEEEEcCCCC-CChHHEEECCCCEEEEEEEe-------C-----CEEEEEEC-CeEEEEEh
Confidence 5677777864 57788999999999964321 1 25667664 77787754
No 9
>4ffu_A Oxidase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgrc, PS biology; HET: MSE; 1.80A {Sinorhizobium meliloti}
Probab=10.39 E-value=6.4e+02 Score=20.05 Aligned_cols=23 Identities=17% Similarity=0.213 Sum_probs=16.9
Q ss_pred cCCCCeEEEEEeeeeeeCCCCCC
Q 024952 185 HPELKCTFNLEIIGVKKNPNGPM 207 (260)
Q Consensus 185 ~Pelk~T~klkIi~VkkNPSNne 207 (260)
.|..-.+..+.|.++....+.+.
T Consensus 118 ~~GDtL~~~~~v~~~~~~~s~~~ 140 (176)
T 4ffu_A 118 HIGDTIRTRVTIAAKEDDPKRPG 140 (176)
T ss_dssp CTTCEEEEEEEEEEEEECTTCTT
T ss_pred cCCCEEEEEEEEEEEEecccCCC
Confidence 35666788889999888766543
No 10
>1m2z_B Nuclear receptor coactivator 2; glucocorticoid receptor, dexamethasone, TIF2, dimer interface, hormone binding pocket, charge clamp; HET: BOG DEX; 2.50A {Homo sapiens} PDB: 3gn8_C*
Probab=8.83 E-value=56 Score=20.40 Aligned_cols=17 Identities=41% Similarity=0.616 Sum_probs=12.1
Q ss_pred CCCCCceeecccCccch
Q 024952 83 EGAVPAYLLDRENTTRA 99 (260)
Q Consensus 83 ~~a~p~ylldr~~~~~a 99 (260)
+.++-.||||++..+.+
T Consensus 8 ~~~LLryLLdkdd~~~~ 24 (26)
T 1m2z_B 8 ENALLRYLLDKDDTXXX 24 (26)
T ss_dssp SCHHHHHHTSCCCC---
T ss_pred hHHHHHHHHccCccccc
Confidence 67899999999876543
Done!