Query 044692
Match_columns 61
No_of_seqs 103 out of 218
Neff 3.6
Searched_HMMs 29240
Date Mon Mar 25 09:53:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/044692.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/044692hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3iz5_j 60S ribosomal protein L 100.0 4.6E-35 1.6E-39 190.6 3.0 57 1-61 23-111 (111)
2 3izc_j 60S ribosomal protein R 100.0 4.3E-35 1.5E-39 189.8 2.8 57 1-61 19-107 (107)
3 4a18_H RPL35A; ribosome, eukar 100.0 1.6E-33 5.5E-38 183.9 2.1 57 1-61 26-113 (113)
4 1sqr_A 50S ribosomal protein L 100.0 6.8E-30 2.3E-34 162.7 3.6 53 1-57 13-89 (95)
5 3j21_c 50S ribosomal protein L 99.9 1.3E-28 4.5E-33 154.7 3.3 50 1-54 13-86 (87)
6 2dyi_A Probable 16S rRNA-proce 54.6 2.7 9.1E-05 27.1 0.1 18 6-23 49-66 (162)
7 2qgg_A 16S rRNA-processing pro 52.8 3 0.0001 27.3 0.1 18 6-23 64-81 (182)
8 3h9n_A Ribosome maturation fac 51.5 3.4 0.00012 26.9 0.2 18 6-23 55-72 (177)
9 2f1l_A 16S rRNA processing pro 50.7 3.4 0.00011 27.4 0.1 18 6-23 73-90 (187)
10 3kxt_A Chromatin protein CREN7 50.0 10 0.00036 21.7 2.1 15 24-38 26-40 (56)
11 1wb1_A Translation elongation 43.5 10 0.00035 27.6 1.7 28 24-58 452-479 (482)
12 2lfe_A E3 ubiquitin-protein li 31.2 18 0.00061 24.0 1.2 11 24-34 119-129 (138)
13 1xk5_A Snurportin-1; protein-R 29.9 30 0.001 23.6 2.2 20 24-43 45-64 (204)
14 2yww_A Aspartate carbamoyltran 20.8 48 0.0016 21.9 1.8 36 8-43 54-102 (149)
No 1
>3iz5_j 60S ribosomal protein L35A (L35AE); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins, ribosome; 5.50A {Triticum aestivum} PDB: 3izr_j
Probab=100.00 E-value=4.6e-35 Score=190.61 Aligned_cols=57 Identities=79% Similarity=1.211 Sum_probs=49.2
Q ss_pred CCccccCCeeEEEecCcCCCCCC--------------------------------CCCCCcEEEEEecCCCCCCccccCC
Q 044692 1 SKSNQYPNTSLIHIEGVNTKEEV--------------------------------PHGNSGVVRAKFKSNLPPSPWYLNH 48 (61)
Q Consensus 1 ~~~nQ~~~taLlkiegV~~k~~a--------------------------------~HGnsGvvrAkFk~nLPp~a~~~~~ 48 (61)
|++||+|||||||||||++++|| +|||||+|||||++||||+| |
T Consensus 23 g~~nQ~~~taLlKIeGV~~~~~a~fylGKrvayvykak~~~~g~k~R~iwGKVtR~HGnsGvVrAkF~~nLP~kA----~ 98 (111)
T 3iz5_j 23 SKSNQYENTSLLQIEGVNTKEEVGWYAGKRIAYVYKAKTKSNDSTIRCIWGKVTRPHGNSGVVRAKFRSNLPPTS----M 98 (111)
T ss_dssp CCSTTCCCEEEEEESSCSTTHHHHTTSCCCCEECCCCCSSSCCCCSCCEECEEEEESSSSSCEEEECSSCCSTTC----C
T ss_pred ccCCCCCCeEEEEEcCcCCHHHHHhhcCcEEEEEEeccccCCCceEEEEEEEEEeeeCCCCEEEEEeCCCCChHH----c
Confidence 78999999999999999999998 99999999999999999999 9
Q ss_pred CCeEEEEEeecCC
Q 044692 49 GDRVRVVMYPGNI 61 (61)
Q Consensus 49 g~~VrV~lYPs~i 61 (61)
|++||||||||+|
T Consensus 99 G~~VrVmLyps~i 111 (111)
T 3iz5_j 99 GKKVRVFMYPSSI 111 (111)
T ss_dssp SSCBCC-------
T ss_pred CCEEEEEEecCCC
Confidence 9999999999997
No 2
>3izc_j 60S ribosomal protein RPL33 (L35AE); eukaryotic ribosome,homology modeling,de novo modeling,ribos proteins,novel ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_j 3u5e_f 3u5i_f 4b6a_f
Probab=100.00 E-value=4.3e-35 Score=189.81 Aligned_cols=57 Identities=56% Similarity=0.922 Sum_probs=49.2
Q ss_pred CCccccCCeeEEEecCcCCCCCC--------------------------------CCCCCcEEEEEecCCCCCCccccCC
Q 044692 1 SKSNQYPNTSLIHIEGVNTKEEV--------------------------------PHGNSGVVRAKFKSNLPPSPWYLNH 48 (61)
Q Consensus 1 ~~~nQ~~~taLlkiegV~~k~~a--------------------------------~HGnsGvvrAkFk~nLPp~a~~~~~ 48 (61)
|++||+|||||||||||++++|| +|||||+|||||++||||+| |
T Consensus 19 g~~nQ~~~taLlKIeGV~~~~~a~fylGKrvayvykak~~~~g~k~RviwGKVtR~HGnsGvVrAkF~~nLP~kA----~ 94 (107)
T 3izc_j 19 SKRVNNPNVSLIKIEGVATPQDAQFYLGKRIAYVYRASKEVRGSKIRVMWGKVTRTHGNSGVVRATFRNNLPAKT----F 94 (107)
T ss_dssp CCSTTCCCEEEEEESSCSTTHHHHTTCCCCCCCCCCCCSSSCCCCSCCCCCCEEECSSSSSCEEECCCSCCSTTC----C
T ss_pred ccCCCCCCeEEEEEcCcCCHHHHHhhcCCEEEEEEecCcccCCceEEEEEEEEEeeeCCCCeEEEEeCCCCChHH----c
Confidence 78999999999999999999998 99999999999999999999 9
Q ss_pred CCeEEEEEeecCC
Q 044692 49 GDRVRVVMYPGNI 61 (61)
Q Consensus 49 g~~VrV~lYPs~i 61 (61)
|++||||||||+|
T Consensus 95 G~~VrVmLyps~i 107 (107)
T 3izc_j 95 GASVRIFLYPSNI 107 (107)
T ss_dssp SSCBCC-------
T ss_pred CCeEEEEEecCCC
Confidence 9999999999997
No 3
>4a18_H RPL35A; ribosome, eukaryotic initiation factor 6, EIF6, transla large ribosomal subunit, rRNA; 3.52A {Tetrahymena thermophila} PDB: 4a19_H 4a1b_H 4a1d_H
Probab=99.97 E-value=1.6e-33 Score=183.90 Aligned_cols=57 Identities=47% Similarity=0.821 Sum_probs=55.1
Q ss_pred CCccccCCeeEEEecCcCCCCCC-------------------------------CCCCCcEEEEEecCCCCCCccccCCC
Q 044692 1 SKSNQYPNTSLIHIEGVNTKEEV-------------------------------PHGNSGVVRAKFKSNLPPSPWYLNHG 49 (61)
Q Consensus 1 ~~~nQ~~~taLlkiegV~~k~~a-------------------------------~HGnsGvvrAkFk~nLPp~a~~~~~g 49 (61)
|++||+|||||||||||++++|| +|||||+|||||++||||+| ||
T Consensus 26 g~~nQ~~~taLlKIeGV~~~~~a~fylGKrvayvykak~~~g~k~RviwGKVtR~HGnsGvVrAkF~~nLP~kA----~G 101 (113)
T 4a18_H 26 SKHTQNSNQALLKLQNVNTKEDVAFYQGKRVVYIYKGQKKNGSNYRTIWGRIGKAHGNNGVAVARFAHNLPPQA----IG 101 (113)
T ss_dssp ETTEEEEEEEEEEETTCCSHHHHHTTTTCEEEEEEEEEEETTEEEEEEEEEEEEEETTTTEEEEEESSCCCGGG----GG
T ss_pred ccCCCCCCeEEEEEcCcCCHHHHHhhcCCeEEEEEecCCCCCCeEEEEEEEEEeeeCCCCeEEEEeCCCCChHH----cC
Confidence 68999999999999999999998 99999999999999999999 99
Q ss_pred CeEEEEEeecCC
Q 044692 50 DRVRVVMYPGNI 61 (61)
Q Consensus 50 ~~VrV~lYPs~i 61 (61)
++||||||||+.
T Consensus 102 ~~VrVmLyPs~~ 113 (113)
T 4a18_H 102 SVLRVMLYPNRA 113 (113)
T ss_dssp SEEEEECCCCCC
T ss_pred CeEEEEEecCCC
Confidence 999999999973
No 4
>1sqr_A 50S ribosomal protein L35AE; PFR48, structure, autostructure, northeast structural genomics consortium, beta-barrel; NMR {Pyrococcus furiosus} SCOP: b.43.3.3 PDB: 2lp6_A
Probab=99.96 E-value=6.8e-30 Score=162.71 Aligned_cols=53 Identities=43% Similarity=0.634 Sum_probs=50.2
Q ss_pred CCccccCCeeEEEecCcCCCCCC------------------------CCCCCcEEEEEecCCCCCCccccCCCCeEEEEE
Q 044692 1 SKSNQYPNTSLIHIEGVNTKEEV------------------------PHGNSGVVRAKFKSNLPPSPWYLNHGDRVRVVM 56 (61)
Q Consensus 1 ~~~nQ~~~taLlkiegV~~k~~a------------------------~HGnsGvvrAkFk~nLPp~a~~~~~g~~VrV~l 56 (61)
|++||+|||||||||||++++|| +|||||+|||||++||||+| ||++|||||
T Consensus 13 g~~nQ~~~~aLlkIegV~~k~~a~fYlGKrvayvyka~rviwGKVtR~HGnsGvVrAkF~~nLP~kA----~G~~VrVml 88 (95)
T 1sqr_A 13 SKENQHNNVMIIKPLDVNSREEASKLIGRLVLWKSPSGKILKGKIVRVHGTKGAVRARFEKGLPGQA----LGDYVEIVL 88 (95)
T ss_dssp CSSSSSCCEEEEEESCCCCHHHHHHHTTCEEEECCSTTCCEEEEEEEESSSSSCEEEECSSCCSSSC----TTCEEECC-
T ss_pred ccCcCCCceEEEEEcCCCCHHHHHhhcCCeEEEEECCCCEEEEEEEeeeCCCCEEEEEeCCCCChHH----cCCEEEEEE
Confidence 78999999999999999999999 99999999999999999999 999999998
Q ss_pred e
Q 044692 57 Y 57 (61)
Q Consensus 57 Y 57 (61)
-
T Consensus 89 ~ 89 (95)
T 1sqr_A 89 E 89 (95)
T ss_dssp -
T ss_pred e
Confidence 4
No 5
>3j21_c 50S ribosomal protein L35AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus} PDB: 1sqr_A 2lp6_A
Probab=99.94 E-value=1.3e-28 Score=154.70 Aligned_cols=50 Identities=44% Similarity=0.648 Sum_probs=48.9
Q ss_pred CCccccCCeeEEEecCcCCCCCC------------------------CCCCCcEEEEEecCCCCCCccccCCCCeEEE
Q 044692 1 SKSNQYPNTSLIHIEGVNTKEEV------------------------PHGNSGVVRAKFKSNLPPSPWYLNHGDRVRV 54 (61)
Q Consensus 1 ~~~nQ~~~taLlkiegV~~k~~a------------------------~HGnsGvvrAkFk~nLPp~a~~~~~g~~VrV 54 (61)
|++||+|||||||||||++++|| +|||||+|||||++||||+| ||++|||
T Consensus 13 g~~nQ~~~taLlkieGV~~~~~a~fylGKrvayv~~~g~~iwGKVtr~HGnsGvVrAkF~~nLP~~a----~G~~Vri 86 (87)
T 3j21_c 13 SKENQHNNVMIIKPLDVNSREEASKLIGRLVLWKSPSGKILKGKIVRVHGTKGAVRARFEKGLPGQA----LGDYVEI 86 (87)
T ss_dssp CSSCCCTTCEEEEESSCCSHHHHGGGTTCEEEECCSSSCCEEEEEEEECCSSSCEEEEESSCCCSSC----SCCEECC
T ss_pred ccCcCCCCeEEEEEcCcCCHHHHHhhcCceEEEEeCCCCEEEEEEEeeeCCCCeEEEEeCCCCChHH----cCCeEEe
Confidence 78999999999999999999999 99999999999999999999 9999997
No 6
>2dyi_A Probable 16S rRNA-processing protein RIMM; ribosomal protein S19, PRC-barrel, STRU genomics, NPPSFA; 2.00A {Thermus thermophilus} PDB: 3a1p_A 2dog_A
Probab=54.65 E-value=2.7 Score=27.09 Aligned_cols=18 Identities=17% Similarity=0.374 Sum_probs=15.8
Q ss_pred cCCeeEEEecCcCCCCCC
Q 044692 6 YPNTSLIHIEGVNTKEEV 23 (61)
Q Consensus 6 ~~~taLlkiegV~~k~~a 23 (61)
+.+..|+|++||+|+++|
T Consensus 49 ~~~~~ivkf~gi~~r~~A 66 (162)
T 2dyi_A 49 VGEELVVHLAGVTDRTLA 66 (162)
T ss_dssp ETTEEEEEETTCCSHHHH
T ss_pred ECCEEEEEEcCCCCHHHH
Confidence 456789999999999988
No 7
>2qgg_A 16S rRNA-processing protein RIMM; X-RAY, NESG, ASR73, structural genomics, PSI-2, protein structure initiative; 2.40A {Acinetobacter calcoaceticus}
Probab=52.81 E-value=3 Score=27.28 Aligned_cols=18 Identities=11% Similarity=0.285 Sum_probs=15.7
Q ss_pred cCCeeEEEecCcCCCCCC
Q 044692 6 YPNTSLIHIEGVNTKEEV 23 (61)
Q Consensus 6 ~~~taLlkiegV~~k~~a 23 (61)
+.+..|+|++||+++++|
T Consensus 64 ~~~~~ivkf~gi~dr~~A 81 (182)
T 2qgg_A 64 HGKGLVVSLKGVSDRTGA 81 (182)
T ss_dssp ETTEEEEEETTCCSHHHH
T ss_pred cCCEEEEEECCCCCHHHH
Confidence 456789999999999988
No 8
>3h9n_A Ribosome maturation factor RIMM; structural genomics, PSI-2, protein structure initiative, northeast structural genomics consortium, NESG; 2.70A {Haemophilus influenzae}
Probab=51.45 E-value=3.4 Score=26.88 Aligned_cols=18 Identities=17% Similarity=0.469 Sum_probs=15.7
Q ss_pred cCCeeEEEecCcCCCCCC
Q 044692 6 YPNTSLIHIEGVNTKEEV 23 (61)
Q Consensus 6 ~~~taLlkiegV~~k~~a 23 (61)
+.+..|+|++||+++++|
T Consensus 55 ~~~~~lvkf~gi~dr~~A 72 (177)
T 3h9n_A 55 HNHEIIVKLKGVDDREAA 72 (177)
T ss_dssp SSSCEEEEESSCCSHHHH
T ss_pred eCCEEEEEEcCCCCHHHH
Confidence 456789999999999988
No 9
>2f1l_A 16S rRNA processing protein; structural genomics, joint CENT structural genomics, JCSG, protein structure initiative, PS unknown function; HET: UNL; 2.46A {Pseudomonas aeruginosa} SCOP: b.41.1.4 b.43.3.4
Probab=50.68 E-value=3.4 Score=27.36 Aligned_cols=18 Identities=17% Similarity=0.337 Sum_probs=15.7
Q ss_pred cCCeeEEEecCcCCCCCC
Q 044692 6 YPNTSLIHIEGVNTKEEV 23 (61)
Q Consensus 6 ~~~taLlkiegV~~k~~a 23 (61)
+.+..|+|++||+++++|
T Consensus 73 ~~~~~ivkf~gi~dr~~A 90 (187)
T 2f1l_A 73 HGKVLAAKLKGLDDREEA 90 (187)
T ss_dssp ETTEEEEEETTCCSHHHH
T ss_pred ECCEEEEEEeCCCCHHHH
Confidence 456789999999999988
No 10
>3kxt_A Chromatin protein CREN7; protein-DNA complex, crenarchaea chromatin protein, minor-GR binding, methylation; 1.60A {Sulfolobus solfataricus} PDB: 2jtm_A 3lwh_A* 3lwi_A*
Probab=49.97 E-value=10 Score=21.74 Aligned_cols=15 Identities=40% Similarity=0.651 Sum_probs=14.0
Q ss_pred CCCCCcEEEEEecCC
Q 044692 24 PHGNSGVVRAKFKSN 38 (61)
Q Consensus 24 ~HGnsGvvrAkFk~n 38 (61)
|||..||+.+-|+.-
T Consensus 26 P~GrkGVkIgLFk~P 40 (56)
T 3kxt_A 26 PKGRKGVKIGLFKDP 40 (56)
T ss_dssp CTTSCCEEEEEEECT
T ss_pred CCCCCceEEEEEECC
Confidence 999999999999964
No 11
>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*
Probab=43.49 E-value=10 Score=27.58 Aligned_cols=28 Identities=21% Similarity=0.386 Sum_probs=22.9
Q ss_pred CCCCCcEEEEEecCCCCCCccccCCCCeEEEEEee
Q 044692 24 PHGNSGVVRAKFKSNLPPSPWYLNHGDRVRVVMYP 58 (61)
Q Consensus 24 ~HGnsGvvrAkFk~nLPp~a~~~~~g~~VrV~lYP 58 (61)
+.|.+|.+|+.|...|.++. .|-.-+|.
T Consensus 452 ~fg~~G~~~~~f~~~~~~~d-------~v~~~~~~ 479 (482)
T 1wb1_A 452 TFGTKGLLTAEFSGNVENRD-------KVILNRLR 479 (482)
T ss_dssp CBTTTTBBCCCBSSCCCSSC-------EEEEECCC
T ss_pred cCCCCceEEEEecCCCCCCC-------eeeeehhh
Confidence 88999999999999988776 55555554
No 12
>2lfe_A E3 ubiquitin-protein ligase HECW2; structural genomics, northeast structural genomics consortiu SGC; NMR {Homo sapiens}
Probab=31.20 E-value=18 Score=23.98 Aligned_cols=11 Identities=55% Similarity=0.745 Sum_probs=10.1
Q ss_pred CCCCCcEEEEE
Q 044692 24 PHGNSGVVRAK 34 (61)
Q Consensus 24 ~HGnsGvvrAk 34 (61)
-||.+|.+||-
T Consensus 119 Yhg~SgaLRAt 129 (138)
T 2lfe_A 119 YHGISGALRAT 129 (138)
T ss_dssp EETTTTEEEEE
T ss_pred ecCcccceeec
Confidence 89999999995
No 13
>1xk5_A Snurportin-1; protein-RNA-complex, transport protein; HET: TPG; 2.40A {Homo sapiens}
Probab=29.90 E-value=30 Score=23.60 Aligned_cols=20 Identities=30% Similarity=0.363 Sum_probs=16.9
Q ss_pred CCCCCcEEEEEecCCCCCCc
Q 044692 24 PHGNSGVVRAKFKSNLPPSP 43 (61)
Q Consensus 24 ~HGnsGvvrAkFk~nLPp~a 43 (61)
+.-.+|....+|+++||+..
T Consensus 45 ~~~k~G~~~~~F~S~LPgG~ 64 (204)
T 1xk5_A 45 AYTKSGYCVNRFSSLLPGGN 64 (204)
T ss_dssp EECTTSCEEEEECCSSSSSC
T ss_pred EECCCCcEEEEEcccCCCCC
Confidence 45568999999999999975
No 14
>2yww_A Aspartate carbamoyltransferase regulatory chain; ATP complex, structural genomics, NPPSFA; HET: ATP; 2.00A {Methanocaldococcus jannaschii}
Probab=20.81 E-value=48 Score=21.86 Aligned_cols=36 Identities=33% Similarity=0.628 Sum_probs=26.5
Q ss_pred CeeEEEecCcC-CCCCC-------CCC-----CCcEEEEEecCCCCCCc
Q 044692 8 NTSLIHIEGVN-TKEEV-------PHG-----NSGVVRAKFKSNLPPSP 43 (61)
Q Consensus 8 ~taLlkiegV~-~k~~a-------~HG-----nsGvvrAkFk~nLPp~a 43 (61)
.--+|||||.. +.+|+ |+- ..|.|.-||+-.||..-
T Consensus 54 ~KDIIKIe~~~l~~~e~~~LaliaP~aTvNiI~d~~VveK~~~~lP~~I 102 (149)
T 2yww_A 54 KKDILKIEGIELKKEDVDKISLISPDVTINIIRNGKVVEKLKPQIPDEI 102 (149)
T ss_dssp EEEEEEEETCCCCHHHHHHHHHHCTTCEEEEEETTEEEEEECCCCCSEE
T ss_pred cCCEEEECCcccChhhhheeEEECCCCEEEEeeCCEEEEeccCCCcHHh
Confidence 34589999987 33444 443 38999999999999764
Done!