Query psy16424
Match_columns 295
No_of_seqs 234 out of 701
Neff 6.0
Searched_HMMs 29240
Date Fri Aug 16 20:56:12 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy16424.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/16424hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2cxh_A Probable BRIX-domain ri 100.0 9.7E-36 3.3E-40 267.3 18.5 144 80-225 21-169 (217)
2 1w94_A MIL, probable BRIX-doma 99.9 2.9E-23 9.9E-28 177.7 12.7 149 95-266 1-152 (156)
3 4e7p_A Response regulator; DNA 16.6 3.3E+02 0.011 20.1 6.8 62 88-149 61-122 (150)
4 4a18_B RPL39, ribosomal protei 14.1 99 0.0034 21.1 2.1 20 28-47 9-28 (52)
5 3f6c_A Positive transcription 13.9 3.4E+02 0.012 19.3 5.6 56 93-148 46-101 (134)
6 3u5e_l L46, YL40, 60S ribosoma 13.8 1E+02 0.0035 20.9 2.2 20 28-47 9-28 (51)
7 2o6n_A RH4B designed peptide; 13.5 2.4E+02 0.0083 17.0 4.4 27 5-31 6-32 (35)
8 2l2l_B Methyl-CPG-binding doma 12.8 2.5E+02 0.0084 17.7 3.5 20 21-40 15-34 (36)
9 1h4v_B Histidyl-tRNA synthetas 12.7 4.5E+02 0.015 24.0 7.1 74 94-169 329-403 (421)
10 1ffk_Y Ribosomal protein L39E; 12.6 1.1E+02 0.0038 20.6 2.0 20 27-46 6-25 (49)
No 1
>2cxh_A Probable BRIX-domain ribosomal biogenesis protein; 18S rRNA, IMP4, U3 snoRNP, ribosomal biogenesis binding, structural genomics, NPPSFA; 1.80A {Aeropyrum pernix} SCOP: c.51.1.2
Probab=100.00 E-value=9.7e-36 Score=267.30 Aligned_cols=144 Identities=20% Similarity=0.293 Sum_probs=127.5
Q ss_pred CCcccHHhhcCCCCCeEEEEeCCCCCHhHHHHHHHHHhcCCCcEeeccccchHHHHHHHHHhCCCCeEEEEEeecCCCCe
Q psy16424 80 THQDDEYRWAGIEDPKIMITTSRDPSSRLKMFVKELRLIFPNSQRMNRGNYEMKQLIHACRANDVTDFIVVHEHRGIPDT 159 (295)
Q Consensus 80 ~~~ddey~~~~~~~PKvLITtSr~pS~rl~~f~kdLr~l~Pns~~~~Rg~~~lkdlve~a~~~~~t~lii~~e~rg~p~~ 159 (295)
.+.+|++. +|..+|||||||||+||+++++|++||+.+|||+.+++||+.++++|++.|..++||++|+|+|++++|++
T Consensus 21 ~~g~~~~~-~~~~~pKvLITTSr~pS~r~r~fakeL~~~lPns~~i~Rgk~sLkeL~e~a~~~~~tdlivV~e~rg~p~~ 99 (217)
T 2cxh_A 21 MLGGKGRP-SGVGGYRILVTTSRRPSPRIRSFVKDLSATIPGAFRFTRGHYSMEELAREAIIRGADRIVVVGERRGNPGI 99 (217)
T ss_dssp -------------CCEEEEEESSSCCHHHHHHHHHHHTTSTTEEECCCTTCCHHHHHHHHHHTTEEEEEEEEEETTEEEE
T ss_pred cccCcccc-cCCCCCeEEEEcCCCCCHHHHHHHHHHHHHCCCCEEeecCCcCHHHHHHHHHhCCCCEEEEEEecCCCCcE
Confidence 44557777 68999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEeCCCC---c-eEEEEEceeEeccccCCCCCC-CCCCcEEEeeCCCCchhhHHHHHHHhcCCCCCCCC
Q psy16424 160 LVICHLPYG---P-TAYFTMSDVIMRHDIPDLGTM-SEQYPHLVFHNFKTQLGQRVMSILKYLFPVPKEDS 225 (295)
Q Consensus 160 L~I~~lP~G---P-T~~F~I~nv~l~~di~~~g~~-~~~~P~LIfnnF~t~lg~~i~~il~~LFp~p~~~~ 225 (295)
|||+|+|+| | |++|+|+|+++++||+..|++ ..++|+|+ +||++++|++++++|++|||.|..+.
T Consensus 100 L~~~hlP~G~~~P~Ta~F~I~nv~l~~ei~~~g~~~~~~rP~L~-~nF~t~~g~~i~~~f~~lFp~P~~~~ 169 (217)
T 2cxh_A 100 IRVYAVEGPERPDNIVSFIVKGVSLSRERRWGLPSLRGGEVLVA-RPLDSGVAVEFADAFVIAFHARLKPP 169 (217)
T ss_dssp EEEEECCSSSCCEEEEEEEEEEEECHHHHTCCCCCCCSCCEEEE-EESSSSTHHHHHHHHHHHHCCBSSCC
T ss_pred EEEEECCCCCCCCcEEEEEEeeEEehhhhccCCCccCCCCceEE-eeecCchHHHHHHHHHHHcCCCCCCh
Confidence 999999999 9 999999999999999999976 67999999 99999999999999999999987543
No 2
>1w94_A MIL, probable BRIX-domain ribosomal biogenesis protein; archaeal IMP4-BRIX domain, IMP4 domain; 2.0A {Methanothermobacter thermautotrophicusorganism_taxid} SCOP: c.51.1.2
Probab=99.90 E-value=2.9e-23 Score=177.71 Aligned_cols=149 Identities=19% Similarity=0.368 Sum_probs=118.1
Q ss_pred eEEEEeCCCCCHhHHHHHHHHHhcCCCcEeeccccchHHHHHHHHHhCCCCeEEEEEeecCCCCeEEEEeCCCCceEEEE
Q psy16424 95 KIMITTSRDPSSRLKMFVKELRLIFPNSQRMNRGNYEMKQLIHACRANDVTDFIVVHEHRGIPDTLVICHLPYGPTAYFT 174 (295)
Q Consensus 95 KvLITtSr~pS~rl~~f~kdLr~l~Pns~~~~Rg~~~lkdlve~a~~~~~t~lii~~e~rg~p~~L~I~~lP~GPT~~F~ 174 (295)
|++||||++||+++++|+++|..++ |+.+++||+.++++|++.|... +++|+|++|+|++|.|+|+|+|||++|+
T Consensus 1 kilITTSr~Ps~~l~~fakeLa~~l-n~~~v~Rgk~sl~~L~~~~~~~----~iVV~e~rg~P~~l~i~hlp~gpt~~f~ 75 (156)
T 1w94_A 1 HMLLTTSRKPSQRTRSFSQRLSRIM-GWRYINRGKMSLRDVLIEARGP----VAVVSERHGNPARITFLDERGGERGYIL 75 (156)
T ss_dssp CCEEEECSSCCHHHHHHHHHHHHHH-TCEECCCTTCCHHHHHHHHSSC----EEEEEEETTEEEEEEEECTTSCEEEEEE
T ss_pred CEEEECCCCCCHHHHHHHHHHHHHh-CCEEEeeCCcCHHHHHHhcCCC----EEEEEcCCCCCCeEEEEeCCCCCEEEEE
Confidence 6899999999999999999999999 9999999999999999988554 9999999999999999999999999999
Q ss_pred EceeEeccccCCCCCCCCCCcEEEeeCCCCchhhHHHHHHHhcCCCCCCCCCeEEEEeecCCe---EEEEEeeeeecCCc
Q psy16424 175 MSDVIMRHDIPDLGTMSEQYPHLVFHNFKTQLGQRVMSILKYLFPVPKEDSKRIVTFANHDDY---ISFRHHNYKRDGKD 251 (295)
Q Consensus 175 I~nv~l~~di~~~g~~~~~~P~LIfnnF~t~lg~~i~~il~~LFp~p~~~~rRVv~F~n~~d~---I~FRHy~y~~~~~~ 251 (295)
+ |+++++|++... |..|...+.++.++.+.++|. ||..+..+++|++|..++++ |.|-- ..+.
T Consensus 76 ~-nv~l~~~~~~~~------~~~v~~~~~~~~~~~l~~~~~--~~~~~~~~~~~~~i~~~~~~~~~i~f~~----~~~~- 141 (156)
T 1w94_A 76 F-NPSFEMKKPELA------DKAVRVSSCPPGSEGLCNLMG--LEVDESSSRDAWSIRTDEEYAWVMELMD----ARGT- 141 (156)
T ss_dssp E-EEEECSSCCCCS------SCCCEESCCCTTCHHHHHHHT--CEECCSCCTTEEEEECCSSSSEEEEEEC----TTSS-
T ss_pred E-ceEEcccCcccC------CceEEEecCChhHHHHHHHHC--CCccCCCCceEEEEEeCCCcEEEEEEEc----CCCC-
Confidence 8 999999987432 444666677887766666554 24334556789999866655 33322 1112
Q ss_pred eeEEEeccceeEEEE
Q psy16424 252 IELKEVGPRFQLKLY 266 (295)
Q Consensus 252 v~L~EIGPRf~LkL~ 266 (295)
.+||++-.+=+
T Consensus 142 ----~~Gp~i~ik~~ 152 (156)
T 1w94_A 142 ----PAGFKLLIRDF 152 (156)
T ss_dssp ----EEEEEEEEEEE
T ss_pred ----ccCCEEEEEEe
Confidence 46988766543
No 3
>4e7p_A Response regulator; DNA binding, cytosol, transcription regulator; 1.89A {Streptococcus pneumoniae} PDB: 4e7o_A
Probab=16.64 E-value=3.3e+02 Score=20.11 Aligned_cols=62 Identities=10% Similarity=0.045 Sum_probs=39.5
Q ss_pred hcCCCCCeEEEEeCCCCCHhHHHHHHHHHhcCCCcEeeccccchHHHHHHHHHhCCCCeEEE
Q psy16424 88 WAGIEDPKIMITTSRDPSSRLKMFVKELRLIFPNSQRMNRGNYEMKQLIHACRANDVTDFIV 149 (295)
Q Consensus 88 ~~~~~~PKvLITtSr~pS~rl~~f~kdLr~l~Pns~~~~Rg~~~lkdlve~a~~~~~t~lii 149 (295)
......|-++|+--.-|......+++.|+...|+...+-=....-.+....|...|+.+++.
T Consensus 61 ~l~~~~~dlii~D~~l~~~~g~~~~~~l~~~~~~~~ii~ls~~~~~~~~~~~~~~g~~~~l~ 122 (150)
T 4e7p_A 61 LLEKESVDIAILDVEMPVKTGLEVLEWIRSEKLETKVVVVTTFKRAGYFERAVKAGVDAYVL 122 (150)
T ss_dssp HHTTSCCSEEEECSSCSSSCHHHHHHHHHHTTCSCEEEEEESCCCHHHHHHHHHTTCSEEEE
T ss_pred HhhccCCCEEEEeCCCCCCcHHHHHHHHHHhCCCCeEEEEeCCCCHHHHHHHHHCCCcEEEe
Confidence 33445688888877777777788888888877776544322222234455566677777653
No 4
>4a18_B RPL39, ribosomal protein L37; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_B 4a1b_B 4a1d_B
Probab=14.09 E-value=99 Score=21.09 Aligned_cols=20 Identities=20% Similarity=0.458 Sum_probs=17.6
Q ss_pred HHHHHHHhhcCCCCCCcchh
Q psy16424 28 KKDRLRKSLDGNKKIPTDLK 47 (295)
Q Consensus 28 ~k~~~~~~l~~~~~~p~~~~ 47 (295)
.|.+|..|+..|.+||.-+.
T Consensus 9 ~K~rLaK~~kqNr~iP~Wv~ 28 (52)
T 4a18_B 9 MKKRFGRKIKQNRPLPNWYR 28 (52)
T ss_dssp HHHHHHHHHHTTSCCCTTGG
T ss_pred HHHHHHHHHhccCCCCceEE
Confidence 57899999999999998863
No 5
>3f6c_A Positive transcription regulator EVGA; structural genomics, PSI-2, protein structure initiative, PO transcription regulator EVGA; 1.45A {Escherichia coli k-12}
Probab=13.91 E-value=3.4e+02 Score=19.30 Aligned_cols=56 Identities=14% Similarity=0.115 Sum_probs=32.5
Q ss_pred CCeEEEEeCCCCCHhHHHHHHHHHhcCCCcEeeccccchHHHHHHHHHhCCCCeEE
Q psy16424 93 DPKIMITTSRDPSSRLKMFVKELRLIFPNSQRMNRGNYEMKQLIHACRANDVTDFI 148 (295)
Q Consensus 93 ~PKvLITtSr~pS~rl~~f~kdLr~l~Pns~~~~Rg~~~lkdlve~a~~~~~t~li 148 (295)
.|-++|+-..-|......+++.++...|+...+-=....-.+....|...|+.+++
T Consensus 46 ~~dlii~d~~l~~~~g~~~~~~l~~~~~~~~ii~~s~~~~~~~~~~~~~~g~~~~l 101 (134)
T 3f6c_A 46 KPDIVIIDVDIPGVNGIQVLETLRKRQYSGIIIIVSAKNDHFYGKHCADAGANGFV 101 (134)
T ss_dssp CCSEEEEETTCSSSCHHHHHHHHHHTTCCSEEEEEECC---CTHHHHHHTTCSEEE
T ss_pred CCCEEEEecCCCCCChHHHHHHHHhcCCCCeEEEEeCCCChHHHHHHHHhCCCEEE
Confidence 47888887777777778888888887776553321111111233344555666554
No 6
>3u5e_l L46, YL40, 60S ribosomal protein L39; translation, ribosome, ribosomal R ribosomal protein, STM1, eukaryotic ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_O 2ww9_O 3izc_o 3izs_o 2wwb_O 3o5h_e 3o58_e 3u5i_l 4b6a_l 3jyw_1
Probab=13.78 E-value=1e+02 Score=20.90 Aligned_cols=20 Identities=20% Similarity=0.421 Sum_probs=17.6
Q ss_pred HHHHHHHhhcCCCCCCcchh
Q psy16424 28 KKDRLRKSLDGNKKIPTDLK 47 (295)
Q Consensus 28 ~k~~~~~~l~~~~~~p~~~~ 47 (295)
.|.+|..|+..|.+||.=+.
T Consensus 9 ~K~rLaK~~kqNr~iP~Wv~ 28 (51)
T 3u5e_l 9 IKQKMAKAKKQNRPLPQWIR 28 (51)
T ss_dssp HHHHHHHHHHTCSCCCGGGG
T ss_pred HHHHHHHHHhccCCCCceEE
Confidence 57899999999999998874
No 7
>2o6n_A RH4B designed peptide; right-handed, tetramer, de novo protein; HET: CGU; 1.10A {Synthetic} SCOP: k.17.1.1 PDB: 1tgg_A*
Probab=13.51 E-value=2.4e+02 Score=17.05 Aligned_cols=27 Identities=33% Similarity=0.426 Sum_probs=17.5
Q ss_pred hHhhhHHHHHHHhHHHHHHHHHHHHHH
Q psy16424 5 QARLRREYLYRKSLEEKQRAIQEKKDR 31 (295)
Q Consensus 5 ~~r~rre~l~~k~~e~~~~~~~~~k~~ 31 (295)
|++.---||.+|+.|+--.++...|+.
T Consensus 6 qakkeiaylikkakeeileeikkakqe 32 (35)
T 2o6n_A 6 QAKKEIAYLIKKAKEEILEEIKKAKQE 32 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555688888888766666554443
No 8
>2l2l_B Methyl-CPG-binding domain protein 2; DNA methylation, coiled-coil, NURD, MBD2, P66alpha, transfer; NMR {Homo sapiens}
Probab=12.80 E-value=2.5e+02 Score=17.68 Aligned_cols=20 Identities=15% Similarity=0.385 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHhhcCCC
Q psy16424 21 KQRAIQEKKDRLRKSLDGNK 40 (295)
Q Consensus 21 ~~~~~~~~k~~~~~~l~~~~ 40 (295)
++...+.-+++|.+||..+.
T Consensus 15 QE~rV~~aR~rL~eaL~ad~ 34 (36)
T 2l2l_B 15 QEERVQQVRKKLEEALMADI 34 (36)
T ss_dssp HHHHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHHHHHccc
Confidence 44445556889999997653
No 9
>1h4v_B Histidyl-tRNA synthetase; class IIA aminoacyl-tRNA synthetase, ATP + L-histidine tRNA(His)-> AMP + PPI + L-histidyl-tRNA(His); 2.4A {Thermus thermophilus} SCOP: c.51.1.1 d.104.1.1 PDB: 1ady_A* 1adj_A
Probab=12.68 E-value=4.5e+02 Score=24.05 Aligned_cols=74 Identities=8% Similarity=0.023 Sum_probs=47.6
Q ss_pred CeEEEEeCC-CCCHhHHHHHHHHHhcCCCcEeeccccchHHHHHHHHHhCCCCeEEEEEeecCCCCeEEEEeCCCCc
Q psy16424 94 PKIMITTSR-DPSSRLKMFVKELRLIFPNSQRMNRGNYEMKQLIHACRANDVTDFIVVHEHRGIPDTLVICHLPYGP 169 (295)
Q Consensus 94 PKvLITtSr-~pS~rl~~f~kdLr~l~Pns~~~~Rg~~~lkdlve~a~~~~~t~lii~~e~rg~p~~L~I~~lP~GP 169 (295)
+.|+|+... ........+++.|+.- -.+....+ +.+++.-...|...|+..+|++.+..-....+.|-.+-.|-
T Consensus 329 ~~v~i~~~~~~~~~~a~~l~~~Lr~~-i~v~~d~~-~~~~~~~~~~a~~~g~p~~iivG~~e~~~~~v~vk~~~~~~ 403 (421)
T 1h4v_B 329 PDLYLIPLTEEAVAEAFYLAEALRPR-LRAEYALA-PRKPAKGLEEALKRGAAFAGFLGEDELRAGEVTLKRLATGE 403 (421)
T ss_pred CeEEEEECChHHHHHHHHHHHHHHhc-CEEEEecC-CCCHHHHHHHHHhCCCCEEEEECchHhhcCcEEEEECCCCC
Confidence 367776543 3334556778888875 23333334 35788888999999999999998753223455555555553
No 10
>1ffk_Y Ribosomal protein L39E; ribosome assembly, RNA-RNA, protein-RNA, protein-protein; 2.40A {Haloarcula marismortui} SCOP: a.137.1.1
Probab=12.59 E-value=1.1e+02 Score=20.57 Aligned_cols=20 Identities=25% Similarity=0.351 Sum_probs=17.3
Q ss_pred HHHHHHHHhhcCCCCCCcch
Q psy16424 27 EKKDRLRKSLDGNKKIPTDL 46 (295)
Q Consensus 27 ~~k~~~~~~l~~~~~~p~~~ 46 (295)
-.|.+|..++..|.+||.=+
T Consensus 6 ~~K~rLaK~~kQNrpiP~Wv 25 (49)
T 1ffk_Y 6 ATKKRKAKLDNQNSRVPAYV 25 (49)
T ss_pred HHHHHHHHHHhccCCCCcEE
Confidence 35889999999999999876
Done!