Query 001593
Match_columns 1048
No_of_seqs 188 out of 190
Neff 2.2
Searched_HMMs 29240
Date Tue Mar 26 16:31:09 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/001593.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_891-895//hhsearch_pdb/001593hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1h2v_Z 20 kDa nuclear CAP bind 1.0 1 1 50.6 -0.7 42 657-698 46-89 (156)
2 3q2s_C Cleavage and polyadenyl 1.0 1 1 50.5 -0.4 43 656-698 74-120 (229)
3 2j8a_A Histone-lysine N-methyl 1.0 1 1 43.5 -1.6 42 658-699 14-57 (136)
4 3pgw_S U1-70K; protein-RNA com 1.0 1 1 42.9 3.9 42 657-698 109-152 (437)
5 2lxi_A RNA-binding protein 10; 1.0 1 1 42.0 -0.2 42 657-698 8-52 (91)
6 2lkz_A RNA-binding protein 5; 1.0 1 1 41.2 0.9 42 657-698 16-61 (95)
7 2m2b_A RNA-binding protein 10; 1.0 1 1 39.9 1.0 44 656-699 29-76 (131)
8 3s8s_A Histone-lysine N-methyl 1.0 1 1 39.8 -1.6 42 657-698 13-56 (110)
9 4fxv_A ELAV-like protein 1; RN 1.0 1 1 39.8 -1.8 42 657-698 26-69 (99)
10 1s79_A Lupus LA protein; RRM, 1.0 1 1 39.4 -0.4 41 657-698 18-60 (103)
No 1
>1h2v_Z 20 kDa nuclear CAP binding protein; CAP-binding-complex, RNP domain, MIF4G domain, RNA maturation, RNA export, nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP: d.58.7.1 PDB: 1h2u_X* 1h2t_Z 1n52_B* 1n54_B 3fex_B 3fey_B 1h6k_X
Probab=1.00 E-value=1 Score=50.59 Aligned_cols=42 Identities=10% Similarity=-0.126 Sum_probs=39.0
Q ss_pred CCCCCCCCCCCCC--CCCCCCEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf 8988876445346--55687301106899888878888877789
Q 001593 657 SGSDDANQESSWG--KKQGNWNSGSRDGHQESSWGKKSDWNSRS 698 (1048)
Q Consensus 657 SLSFDANEDSVWe--se~GSI~SVRIPTDqESG~pKGFGYv~~~ 698 (1048)
-|+++++++.|.+ ++||.|..|+|+.+++++..|+|+||.+.
T Consensus 46 nlp~~~t~~~l~~~F~~~G~i~~v~i~~~~~~~~~~g~afV~f~ 89 (156)
T 1h2v_Z 46 NLSFYTTEEQIYELFSKSGDIKKIIMGLDKMKKTACGFCFVEYY 89 (156)
T ss_dssp SCCTTCCHHHHHHHHGGGSCEEEEEEEECTTTCCEEEEEEEEES
T ss_pred CCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCCCEEEEEEEC
T ss_conf 99998899999999983398689998754899954408999979
No 2
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25, CFIM68, CPSF5, CPSF6, CPSF, 3' END processing, processing, cleavage factor; 2.90A {Homo sapiens} PDB: 3q2t_C
Probab=1.00 E-value=1 Score=50.47 Aligned_cols=43 Identities=7% Similarity=-0.193 Sum_probs=39.6
Q ss_pred CCCCCCCCCCCCCC--CCCC--CCEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf 88988876445346--5568--7301106899888878888877789
Q 001593 656 NSGSDDANQESSWG--KKQG--NWNSGSRDGHQESSWGKKSDWNSRS 698 (1048)
Q Consensus 656 nSLSFDANEDSVWe--se~G--SI~SVRIPTDqESG~pKGFGYv~~~ 698 (1048)
.-|+++++++.|.+ ++|| .|..|+|+.|++|+..|+|+||++.
T Consensus 74 gnL~~~~te~~L~~~F~~~G~~~v~~v~i~~d~~tg~skGfaFV~f~ 120 (229)
T 3q2s_C 74 GNLTWWTTDEDLTEAVHSLGVNDILEIKFFENRANGQSKGFALVGVG 120 (229)
T ss_dssp ESCCTTCCHHHHHHHHHTTTCCCEEEEEEEECTTTCCEEEEEEEEES
T ss_pred ECCCCCCCHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCEEEEEEEC
T ss_conf 59899899999999999878963589998754899950538999979
No 3
>2j8a_A Histone-lysine N-methyltransferase, H3 lysine-4 specific; histone methyltransferase, RRM fold, telomere, nuclear protein; 3.0A {Saccharomyces cerevisiae}
Probab=1.00 E-value=1 Score=43.46 Aligned_cols=42 Identities=12% Similarity=-0.058 Sum_probs=39.1
Q ss_pred CCCCCCCCCCCC--CCCCCCEEEECCCCCCCCCCCCCCCCCCCC
Q ss_conf 988876445346--556873011068998888788888777899
Q 001593 658 GSDDANQESSWG--KKQGNWNSGSRDGHQESSWGKKSDWNSRSE 699 (1048)
Q Consensus 658 LSFDANEDSVWe--se~GSI~SVRIPTDqESG~pKGFGYv~~~~ 699 (1048)
-++.++++.|.+ ++||+|.++++.+||+|+.++||++|...+
T Consensus 14 ~~~~tte~~Lk~~Fs~fGeV~~~~li~Dp~Tg~slGfgfVef~d 57 (136)
T 2j8a_A 14 TTTNIQDISIKNYFKKYGEISHFEAFNDPNSALPLHVYLIKYAS 57 (136)
T ss_dssp CCCCCCHHHHHHHHHTTSCCSEEEEEECTTTCCEEEEEEEECC-
T ss_pred CCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCEEEEEEEEECC
T ss_conf 99988999999999864982799987669988442189999788
No 4
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Probab=1.00 E-value=1 Score=42.87 Aligned_cols=42 Identities=7% Similarity=-0.118 Sum_probs=39.1
Q ss_pred CCCCCCCCCCCCC--CCCCCCEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf 8988876445346--55687301106899888878888877789
Q 001593 657 SGSDDANQESSWG--KKQGNWNSGSRDGHQESSWGKKSDWNSRS 698 (1048)
Q Consensus 657 SLSFDANEDSVWe--se~GSI~SVRIPTDqESG~pKGFGYv~~~ 698 (1048)
-|+++++++.|.+ .+||.|..|.|+.|+.++.+++|+||.+.
T Consensus 109 nL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~aFV~F~ 152 (437)
T 3pgw_S 109 RVNYDTTESKLRREFEVYGPIKRIHMVYSKRSGKPRGYAFIEYE 152 (437)
T ss_pred CCCCCCCHHHHHHHHHHCCCEEEEEEECCCCCCCCCCEEEEEEC
T ss_conf 89998999999999987098648774115888973515888623
No 5
>2lxi_A RNA-binding protein 10; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=41.98 Aligned_cols=42 Identities=12% Similarity=0.049 Sum_probs=39.1
Q ss_pred CCCCCCCCCCCCC--CCCC-CCEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf 8988876445346--5568-7301106899888878888877789
Q 001593 657 SGSDDANQESSWG--KKQG-NWNSGSRDGHQESSWGKKSDWNSRS 698 (1048)
Q Consensus 657 SLSFDANEDSVWe--se~G-SI~SVRIPTDqESG~pKGFGYv~~~ 698 (1048)
-|+++++|+.|.+ ++|| .|.+|+|+.|++|+.+|+|+||.+.
T Consensus 8 nLp~~~te~~l~~~F~~~G~~v~~v~i~~d~~t~~~rg~aFV~F~ 52 (91)
T 2lxi_A 8 MLPQAATEDDIRGQLQSHGVQAREVRLMRNKSSGQSRGFAFVEFS 52 (91)
T ss_dssp TCCSSCCHHHHHHHHHHHTCCCSBCCSSSCSSSCCCSSEEEEECS
T ss_pred CCCCCCCHHHHHHHHHHHCCEEEEEEEEECCCCCCCCCEEEEEEC
T ss_conf 999999999999899874987589999854999985752899964
No 6
>2lkz_A RNA-binding protein 5; RRM; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=41.22 Aligned_cols=42 Identities=7% Similarity=-0.104 Sum_probs=38.2
Q ss_pred CCCCCCCCCCCCC--CCCC--CCEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf 8988876445346--5568--7301106899888878888877789
Q 001593 657 SGSDDANQESSWG--KKQG--NWNSGSRDGHQESSWGKKSDWNSRS 698 (1048)
Q Consensus 657 SLSFDANEDSVWe--se~G--SI~SVRIPTDqESG~pKGFGYv~~~ 698 (1048)
-|+++++++.|.+ ++|| .+..|+|+.|+.|+.+|||+||.+.
T Consensus 16 nL~~~~tee~L~~~F~~~G~i~v~~v~i~~d~~tg~srG~aFV~f~ 61 (95)
T 2lkz_A 16 NIAPHTVVDSIMTALSPYASLAVNNIRLIKDKQTQQNRGFAFVQLS 61 (95)
T ss_dssp SCCTTCCHHHHHHHSTTTCCCCGGGEECCCCSSSSSCSSEEEEECS
T ss_pred CCCCCCCHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCEEEEEEEC
T ss_conf 8998689999999998628960899999852899977657699989
No 7
>2m2b_A RNA-binding protein 10; T-cell, JCSG, MPP, PSI-biology; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=39.88 Aligned_cols=44 Identities=9% Similarity=-0.005 Sum_probs=39.6
Q ss_pred CCCCCCCCCCCCCC--CCCCCCEE--EECCCCCCCCCCCCCCCCCCCC
Q ss_conf 88988876445346--55687301--1068998888788888777899
Q 001593 656 NSGSDDANQESSWG--KKQGNWNS--GSRDGHQESSWGKKSDWNSRSE 699 (1048)
Q Consensus 656 nSLSFDANEDSVWe--se~GSI~S--VRIPTDqESG~pKGFGYv~~~~ 699 (1048)
.-|+++++++.|.+ .+||.|.. |+|+.|++|+..|||+||.+..
T Consensus 29 ~nL~~~~te~~L~~~F~~~G~v~~~~v~i~~d~~tg~~rG~aFV~f~~ 76 (131)
T 2m2b_A 29 RNLNPHSTMDSILGALAPYAVLSSSNVRVIKDKQTQLNRGFAFIQLST 76 (131)
T ss_dssp CSCCTTCCSHHHHHHHGGGCCCCTTTEECCBCSSSSSBCSCEEEECCH
T ss_pred ECCCCCCCHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCEEEEEEECC
T ss_conf 298988999999999997498342468998769999866589999888
No 8
>3s8s_A Histone-lysine N-methyltransferase SETD1A; chromatin modification, transcription regulation, structural genomics, structural genomics consortium; 1.30A {Homo sapiens}
Probab=1.00 E-value=1 Score=39.83 Aligned_cols=42 Identities=10% Similarity=-0.135 Sum_probs=39.2
Q ss_pred CCCCCCCCCCCCC--CCCCCCEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf 8988876445346--55687301106899888878888877789
Q 001593 657 SGSDDANQESSWG--KKQGNWNSGSRDGHQESSWGKKSDWNSRS 698 (1048)
Q Consensus 657 SLSFDANEDSVWe--se~GSI~SVRIPTDqESG~pKGFGYv~~~ 698 (1048)
-|+++++++.|.+ ++||.|..|+|+.|++|+..|||+||.+.
T Consensus 13 nL~~~~te~~L~~~F~~~G~i~~v~i~~d~~tg~~rG~aFV~f~ 56 (110)
T 3s8s_A 13 RLNDNVRETFLKDMCRKYGEVEEVEILLHPRTRKHLGLARVLFT 56 (110)
T ss_dssp SCCTTCCHHHHHHHHTTTSCEEEEEEEECTTTCCEEEEEEEEES
T ss_pred CCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCEEEEEEEEEC
T ss_conf 99999999999999985697448999777999946069999989
No 9
>4fxv_A ELAV-like protein 1; RNA recognition motif, putative RNA-binding domain, transcri structural genomics, joint center for structural genomics; 1.90A {Homo sapiens}
Probab=1.00 E-value=1 Score=39.83 Aligned_cols=42 Identities=7% Similarity=-0.038 Sum_probs=39.1
Q ss_pred CCCCCCCCCCCCC--CCCCCCEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf 8988876445346--55687301106899888878888877789
Q 001593 657 SGSDDANQESSWG--KKQGNWNSGSRDGHQESSWGKKSDWNSRS 698 (1048)
Q Consensus 657 SLSFDANEDSVWe--se~GSI~SVRIPTDqESG~pKGFGYv~~~ 698 (1048)
-|+++++++.|.+ ++||.|.+|+|+.|++|+.+|+|+||.+.
T Consensus 26 nLp~~~te~~L~~~F~~~G~I~~v~i~~d~~tg~~kG~afV~f~ 69 (99)
T 4fxv_A 26 YLPQNMTQDELRSLFSSIGEVESAKLIRDKVAGHSLGYGFVNYV 69 (99)
T ss_dssp SCCTTCCHHHHHHHHHTTSCEEEEEEEECSSSCCEEEEEEEEES
T ss_pred CCCCCCCHHHHHHHHHHCCCEEEEEEEECCCCCCCCCCEEEEEC
T ss_conf 99998999999999971498888675453888950621899987
No 10
>1s79_A Lupus LA protein; RRM, alpha/beta, RNA binding protein, translation; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=1.00 E-value=1 Score=39.45 Aligned_cols=41 Identities=12% Similarity=-0.117 Sum_probs=38.2
Q ss_pred CCCCCCCCCCCCC--CCCCCCEEEECCCCCCCCCCCCCCCCCCC
Q ss_conf 8988876445346--55687301106899888878888877789
Q 001593 657 SGSDDANQESSWG--KKQGNWNSGSRDGHQESSWGKKSDWNSRS 698 (1048)
Q Consensus 657 SLSFDANEDSVWe--se~GSI~SVRIPTDqESG~pKGFGYv~~~ 698 (1048)
-|+++++++.|.+ ++||.|.+|+||.|++ +.+|||+||.+.
T Consensus 18 ~Lp~~~te~~L~~~F~~~G~v~~v~i~~d~~-g~~rG~aFV~F~ 60 (103)
T 1s79_A 18 GFPTDATLDDIKEWLEDKGQVLNIQMRRTLH-KAFKGSIFVVFD 60 (103)
T ss_dssp CCCTTCCHHHHHHHHHTSSCEEEEEEECCCT-TSCCCEEEEEES
T ss_pred CCCCCCCHHHHHHHHHHCCCEEEEEEEECCC-CCCCCEEEEEEC
T ss_conf 9999999999999986169889999998899-987558999988
Done!