Query 001786
Match_columns 1013
No_of_seqs 339 out of 1137
Neff 3.8
Searched_HMMs 29240
Date Tue Mar 26 15:48:09 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/001786.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1084-1088//hhsearch_pdb/001786hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1rq8_A Conserved hypothetical 1.0 1 1 188.4 12.9 96 593-693 1-96 (104)
2 1jo0_A Hypothetical protein HI 1.0 1 1 184.1 13.1 89 593-685 2-90 (98)
3 1rq8_A Conserved hypothetical 1.0 1 1 182.4 13.3 89 179-267 1-89 (104)
4 1jo0_A Hypothetical protein HI 1.0 1 1 182.1 12.5 90 178-267 1-90 (98)
5 3ka5_A Ribosome-associated pro 1.0 1 1 17.1 6.2 49 222-270 1-52 (65)
6 3lyv_A Ribosome-associated fac 1.0 1 1 16.7 3.4 49 222-270 2-53 (66)
7 3k2t_A LMO2511 protein; lister 1.0 1 1 16.3 3.7 48 222-269 1-51 (57)
8 2zkr_v 60S ribosomal protein L 1.0 1 1 15.8 0.0 57 648-713 49-111 (123)
9 4a17_U RPL35, 60S ribosomal pr 1.0 1 1 15.3 1.8 17 679-696 73-89 (124)
10 1ylf_A RRF2 family protein; st 1.0 1 1 15.1 -1.1 52 60-113 39-90 (149)
No 1
>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1
Probab=1.00 E-value=1 Score=188.43 Aligned_cols=96 Identities=23% Similarity=0.382 Sum_probs=61.3
Q ss_pred CCCHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEEECC
Q ss_conf 99999999999612477745870567888779999999986055287992589999999999999989399899622126
Q 001786 593 GITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVN 672 (1013)
Q Consensus 593 ~LT~eERk~LRkiGhklkpvV~IGK~GVtdgVIe~Ih~alk~rELVKVkv~~~~~ed~keiA~~Le~~SGgiLVqv~kv~ 672 (1013)
|||++||+|||++||+++|+|+||++|||++|+.+|++||++||||||+|++++.++++++|+.|++.+||++||+
T Consensus 1 mLt~kqr~~LR~~ah~Lkpvv~IGK~GlTe~vi~ei~~aL~~hELIKVkvl~~~~~d~~e~a~~la~~t~a~vVq~---- 76 (104)
T 1rq8_A 1 MLTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKELAETLSEATRSELVQV---- 76 (104)
T ss_dssp CCCHHHHHHHHHHTTSSCCSCEECSSSCCHHHHHHHHHHHHHSSEEEEEECCCCHHHHHHHHHHHHHHHTEEEEEE----
T ss_pred CCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHCCEEEEE----
T ss_conf 9798999999997468998699778879999999999999978947999807987789999999999869999999----
Q ss_pred CCCEEEEECCCCCCCCCCCCC
Q ss_conf 573999971699999986787
Q 001786 673 KGYAIILYRGKNYERPACLRP 693 (1013)
Q Consensus 673 IG~tIILYRgKNY~rP~~l~P 693 (1013)
||+++||||++. ..|...+|
T Consensus 77 IG~~~VLYR~~~-~~~~i~~~ 96 (104)
T 1rq8_A 77 IGSMIVIYRESK-ENKEIELP 96 (104)
T ss_dssp ETTEEEEEECCC-SCCSCCCC
T ss_pred ECCEEEEEECCC-CCCCEECC
T ss_conf 999999995788-78852345
No 2
>1jo0_A Hypothetical protein HI1333; structural genomics, YHBY_HAEI structure 2 function project, S2F, unknown function; 1.37A {Haemophilus influenzae} SCOP: d.68.4.1 PDB: 1ln4_A
Probab=1.00 E-value=1 Score=184.07 Aligned_cols=89 Identities=17% Similarity=0.336 Sum_probs=56.0
Q ss_pred CCCHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEEECC
Q ss_conf 99999999999612477745870567888779999999986055287992589999999999999989399899622126
Q 001786 593 GITEEERYMLRKVGLRMKAFLLMGRRGVFDGTVENMHLHWKHRELVKIISKQRKIEAALQEARTLEVESGGILVAVERVN 672 (1013)
Q Consensus 593 ~LT~eERk~LRkiGhklkpvV~IGK~GVtdgVIe~Ih~alk~rELVKVkv~~~~~ed~keiA~~Le~~SGgiLVqv~kv~ 672 (1013)
.||++||+|||++||+++|+|+||++|||++|+.++++||++||||||+|.+++++++++++++|++.+||++||+
T Consensus 2 ~Lt~kqr~~Lr~~ah~l~pvv~IGk~GlT~~vi~ei~~aL~~~ELIKVkvl~~~~~~~~e~a~~la~~t~a~~Vq~---- 77 (98)
T 1jo0_A 2 TLSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLIINAIVRETKAAQVQT---- 77 (98)
T ss_dssp CCCHHHHHHHHHHHTTBCCSEEECTTCSCHHHHHHHHHHHHHHSEEEEEETTCCHHHHHHHHHHHHHHHCCEEEEE----
T ss_pred CCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEEECCCHHHHHHHHHHHHHHHCCEEEEE----
T ss_conf 8998999999997547998699778779999999999999977927999817987789999999999969999999----
Q ss_pred CCCEEEEECCCCC
Q ss_conf 5739999716999
Q 001786 673 KGYAIILYRGKNY 685 (1013)
Q Consensus 673 IG~tIILYRgKNY 685 (1013)
||+++||||++..
T Consensus 78 IG~~~vLyR~~~~ 90 (98)
T 1jo0_A 78 IGHILVLYRPSEE 90 (98)
T ss_dssp ETTEEEEECCCSS
T ss_pred ECCEEEEECCCCC
T ss_conf 9999999806998
No 3
>1rq8_A Conserved hypothetical protein; structural genomics, SAV1595, YHBY, UPF0044, unknown function; NMR {Staphylococcus aureus} SCOP: d.68.4.1
Probab=1.00 E-value=1 Score=182.42 Aligned_cols=89 Identities=28% Similarity=0.413 Sum_probs=86.9
Q ss_pred CCCHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEECCE
Q ss_conf 69999999998401499880883799998999999999998488187997278625499999999998599799898859
Q 001786 179 KLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRSGSK 258 (1013)
Q Consensus 179 tLT~kElr~LRklA~~Lkp~V~IGK~GLTe~VIeeIh~~WkkrELVKIKv~g~~~~DmkevAE~LE~kTGG~VV~riG~t 258 (1013)
+||++|+++||++||+|+|+|+|||+|+|++|+++|+++|++||||||+|++++..|++++|++|+++|||.+||++|++
T Consensus 1 mLt~kqr~~LR~~ah~Lkpvv~IGK~GlTe~vi~ei~~aL~~hELIKVkvl~~~~~d~~e~a~~la~~t~a~vVq~IG~~ 80 (104)
T 1rq8_A 1 MLTGKQKRYLRSLAHNIDPIFQIGKGGINENMIKQIDDTLENRELIKVHVLQNNFDDKKELAETLSEATRSELVQVIGSM 80 (104)
T ss_dssp CCCHHHHHHHHHHTTSSCCSCEECSSSCCHHHHHHHHHHHHHSSEEEEEECCCCHHHHHHHHHHHHHHHTEEEEEEETTE
T ss_pred CCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHCCEEEEEECCE
T ss_conf 97989999999974689986997788799999999999999789479998079877899999999998699999999999
Q ss_pred EEEEECCCC
Q ss_conf 999824899
Q 001786 259 IILYRGADY 267 (1013)
Q Consensus 259 iVLYRGknY 267 (1013)
+||||++..
T Consensus 81 ~VLYR~~~~ 89 (104)
T 1rq8_A 81 IVIYRESKE 89 (104)
T ss_dssp EEEEECCCS
T ss_pred EEEEECCCC
T ss_conf 999957887
No 4
>1jo0_A Hypothetical protein HI1333; structural genomics, YHBY_HAEI structure 2 function project, S2F, unknown function; 1.37A {Haemophilus influenzae} SCOP: d.68.4.1 PDB: 1ln4_A
Probab=1.00 E-value=1 Score=182.06 Aligned_cols=90 Identities=26% Similarity=0.364 Sum_probs=87.2
Q ss_pred CCCCHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEECC
Q ss_conf 26999999999840149988088379999899999999999848818799727862549999999999859979989885
Q 001786 178 LKLSGKELRRLRTLGIGLRKKLKIGKAGITEGIVNGIHERWRHAEVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRSGS 257 (1013)
Q Consensus 178 ltLT~kElr~LRklA~~Lkp~V~IGK~GLTe~VIeeIh~~WkkrELVKIKv~g~~~~DmkevAE~LE~kTGG~VV~riG~ 257 (1013)
..||++|+++||++||+++|+|+|||+|+|++|+++|+++|++||||||+|++++.+|++++|++|+++|||.+||++|+
T Consensus 1 ~~Lt~kqr~~Lr~~ah~l~pvv~IGk~GlT~~vi~ei~~aL~~~ELIKVkvl~~~~~~~~e~a~~la~~t~a~~Vq~IG~ 80 (98)
T 1jo0_A 1 TTLSTKQKQFLKGLAHHLNPVVMLGGNGLTEGVLAEIENALNHHELIKVKVAGADRETKQLIINAIVRETKAAQVQTIGH 80 (98)
T ss_dssp CCCCHHHHHHHHHHHTTBCCSEEECTTCSCHHHHHHHHHHHHHHSEEEEEETTCCHHHHHHHHHHHHHHHCCEEEEEETT
T ss_pred CCCCHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHHCCEEEEEEECCCHHHHHHHHHHHHHHHCCEEEEEECC
T ss_conf 98998999999997547998699778779999999999999977927999817987789999999999969999999999
Q ss_pred EEEEEECCCC
Q ss_conf 9999824899
Q 001786 258 KIILYRGADY 267 (1013)
Q Consensus 258 tiVLYRGknY 267 (1013)
++||||++..
T Consensus 81 ~~vLyR~~~~ 90 (98)
T 1jo0_A 81 ILVLYRPSEE 90 (98)
T ss_dssp EEEEECCCSS
T ss_pred EEEEECCCCC
T ss_conf 9999806998
No 5
>3ka5_A Ribosome-associated protein Y (PSRP-1); structural genomics, PSI-2, protein structure initiative; 1.80A {Clostridium acetobutylicum}
Probab=1.00 E-value=1 Score=17.14 Aligned_cols=49 Identities=16% Similarity=0.213 Sum_probs=39.4
Q ss_pred CEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEE---CCEEEEEECCCCCCC
Q ss_conf 8187997278625499999999998599799898---859999824899899
Q 001786 222 EVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRS---GSKIILYRGADYKYP 270 (1013)
Q Consensus 222 ELVKIKv~g~~~~DmkevAE~LE~kTGG~VV~ri---G~tiVLYRGknY~~P 270 (1013)
++|+.|-......+.+++..+++..-.--+|-+. |..-|+||+++.++-
T Consensus 1 ~iVr~K~~~~kpMsveEAv~qmel~gh~F~vF~n~etg~~nVVYRR~dG~yG 52 (65)
T 3ka5_A 1 EIVKTKRFAIKPMSEEEAVLEMELLGHNFFVFQNGDSNEVNVVYKRKDGNYG 52 (65)
T ss_dssp CEEEEECSCCSCBCHHHHHHHHHHHTCSEEEEEETTTTEEEEEEECTTSCEE
T ss_pred CEEEEEEECCCCCCHHHHHHHHHHCCCCEEEEEECCCCCEEEEEEECCCCEE
T ss_conf 9599986057989999999998707993999981789979899996899799
No 6
>3lyv_A Ribosome-associated factor Y; ribosomal protein S30AE family, structural genomics, PSI-2, structure initiative; 2.70A {Streptococcus pyogenes}
Probab=1.00 E-value=1 Score=16.69 Aligned_cols=49 Identities=20% Similarity=0.306 Sum_probs=36.6
Q ss_pred CEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEE---CCEEEEEECCCCCCC
Q ss_conf 8187997278625499999999998599799898---859999824899899
Q 001786 222 EVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRS---GSKIILYRGADYKYP 270 (1013)
Q Consensus 222 ELVKIKv~g~~~~DmkevAE~LE~kTGG~VV~ri---G~tiVLYRGknY~~P 270 (1013)
++|+.|-......+.+++..+++-.-.--+|-+. |..-|+||+++..+-
T Consensus 2 ~iVr~K~~~~kpMsveEAv~qMel~gh~F~vF~n~etg~~nVVYRR~dG~yG 53 (66)
T 3lyv_A 2 QVVRTKNVTLKPMDVEEARLQMELLGHDFFIYTDSEDGATNILYRREDGNLG 53 (66)
T ss_dssp CCCCCCCCCCCEECHHHHHHHHHTTTCSEEEEEETTTCSEEEEEECTTSSEE
T ss_pred EEEEEEECCCCCCCHHHHHHHHHCCCCCEEEEEECCCCCEEEEEEECCCCEE
T ss_conf 1799987057989999999998707993999981789989899997899799
No 7
>3k2t_A LMO2511 protein; listeria monocytogenes,binding, structural genomics, PSI-2, protein structure initiative; 2.40A {Listeria monocytogenes}
Probab=1.00 E-value=1 Score=16.27 Aligned_cols=48 Identities=19% Similarity=0.230 Sum_probs=33.4
Q ss_pred CEEEEEECCCCHHHHHHHHHHHHHHHCCEEEEEE---CCEEEEEECCCCCC
Q ss_conf 8187997278625499999999998599799898---85999982489989
Q 001786 222 EVVKIVCEDLCRLNMKRTHDSLERKTGGLVVWRS---GSKIILYRGADYKY 269 (1013)
Q Consensus 222 ELVKIKv~g~~~~DmkevAE~LE~kTGG~VV~ri---G~tiVLYRGknY~~ 269 (1013)
++|+.|-......+.+++..+++..-.--+|-+. |..-|+||.++.++
T Consensus 1 ~ivr~K~~~~kpmsveEAv~qmel~gh~F~vF~n~~t~~~nVvYrR~dG~y 51 (57)
T 3k2t_A 1 EIVRTKQFSLKPMDSEEAVLQMNLLGHSFYVYTDAETNGTNIVYSRKDGKY 51 (57)
T ss_dssp CCCCCCC---CCBCHHHHHHHHHHHTCSEEEEEBSSSCCEEEEEECTTSCE
T ss_pred CEEEEEECCCCCCCHHHHHHHHHHCCCCEEEEECCCCCCEEEEEEECCCCE
T ss_conf 938998626798999999999872799599998078898989999679979
No 8
>2zkr_v 60S ribosomal protein L35; protein-RNA complex, 60S ribosomal subunit, ribosomal protein/RNA complex; 8.70A {Canis familiaris}
Probab=1.00 E-value=1 Score=15.82 Aligned_cols=57 Identities=32% Similarity=0.391 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHCCEEEEEEECCCCCEEEEECCCCCCCCCCCCCCCC------CCHHHHHHHHHHHHHHH
Q ss_conf 9999999999989399899622126573999971699999986787632------55899989759999977
Q 001786 648 EAALQEARTLEVESGGILVAVERVNKGYAIILYRGKNYERPACLRPKTL------LTKREAMKRSLEAQRRQ 713 (1013)
Q Consensus 648 ed~keiA~~Le~~SGgiLVqv~kv~IG~tIILYRgKNY~rP~~l~P~~l------LtKrkAl~rs~e~qr~~ 713 (1013)
.-+++||..+.....-..- ..--+|+|+.|. |..++|+-+ |||.++-.+..-.|+++
T Consensus 49 ~vRrdIARI~Tvl~er~~~--------~lr~~yk~kk~~-p~dlr~k~tra~rr~Lt~~~~~~kt~k~~~k~ 111 (123)
T 2zkr_v 49 VVRKSIARVLTVINQTQKE--------NLRKFYKGKKYK-PLDLRPKKTRAMRRRLNKHEENLKTKKQQRKE 111 (123)
T ss_dssp HHHHHHHHHHHHHHHC--------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHH--------HHHHHHCCCCCC-CCCCCHHHHHHHHHHCCHHHHHHCCHHHHHHH
T ss_conf 9999999999999999999--------999998389878-75434377899998728787705139999999
No 9
>4a17_U RPL35, 60S ribosomal protein L21; eukaryotic ribosome, ribosome, eukaryotic initiation factor 60S, translation, large ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB: 4a1a_U 4a1c_U 4a1e_U
Probab=1.00 E-value=1 Score=15.29 Aligned_cols=17 Identities=29% Similarity=0.598 Sum_probs=7.6
Q ss_pred EECCCCCCCCCCCCCCCC
Q ss_conf 971699999986787632
Q 001786 679 LYRGKNYERPACLRPKTL 696 (1013)
Q Consensus 679 LYRgKNY~rP~~l~P~~l 696 (1013)
+|.|+.| -|..++|+-+
T Consensus 73 ~yk~kk~-~P~dlr~kkt 89 (124)
T 4a17_U 73 QFKGKSL-KPLDIRVKKT 89 (124)
T ss_dssp HHTTCSS-CCTTTSCCSC
T ss_pred HHCCCCC-CCCCCCCHHH
T ss_conf 9769988-8744471678
No 10
>1ylf_A RRF2 family protein; structural genomics, transcription regulator, P protein structure initiative; 2.50A {Bacillus cereus atcc 14579} SCOP: a.4.5.55
Probab=1.00 E-value=1 Score=15.10 Aligned_cols=52 Identities=12% Similarity=0.049 Sum_probs=35.3
Q ss_pred CCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCC
Q ss_conf 247987279999999871597546888899899998777889987401118999
Q 001786 60 VQNDTTSAIQRIADKLRSLGIVEQTTSKDDTLNPEPETRATDNAGEIFIPLPHR 113 (1013)
Q Consensus 60 ~~~~~~s~~~rI~~kLr~~G~~~~~~~~~~~~~~~~~~~~~~~~~~if~~~~~~ 113 (1013)
-...+.+.+++|+.+|++.||++.... .- .-.....+..-+.+||+...+|.
T Consensus 39 ~~~i~~~~l~kil~~L~~~Glv~s~rG-~G-Gy~L~~~p~~Itl~dVi~a~e~~ 90 (149)
T 1ylf_A 39 SVNTNPVVIRKIMSYLKQAGFVYVNRG-PG-GAGLLKDLHEITLLDVYHAVNVV 90 (149)
T ss_dssp HHTSCHHHHHHHHHHHHHTTSEEEC----C-CEEESSCGGGCBHHHHHHHHCC-
T ss_pred HHCCCHHHHHHHHHHHHHCCCEEECCC-CC-CEEECCCHHHCCHHHHHHHHCCC
T ss_conf 889099999999999998892797067-87-13767894669499999997244
Done!