Query 037259
Match_columns 107
No_of_seqs 136 out of 976
Neff 5.0
Searched_HMMs 29240
Date Mon Mar 25 17:42:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/037259.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/037259hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1gcc_A Ethylene responsive ele 99.9 4.9E-25 1.7E-29 140.3 6.0 51 1-51 11-62 (63)
2 1u3e_M HNH homing endonuclease 91.3 0.033 1.1E-06 39.7 -0.3 27 3-32 119-145 (174)
3 1x60_A Sporulation-specific N- 67.2 4.8 0.00016 24.3 2.9 33 5-37 36-68 (79)
4 1uta_A FTSN, MSGA, cell divisi 66.2 7 0.00024 23.9 3.6 33 5-37 36-68 (81)
5 3jtz_A Integrase; four strande 56.3 15 0.00052 23.4 4.0 37 4-40 38-76 (88)
6 3p5t_L Cleavage and polyadenyl 52.4 15 0.00052 22.1 3.3 26 9-34 37-64 (90)
7 1z1b_A Integrase; protein-DNA 49.4 21 0.00073 26.0 4.3 35 2-40 22-56 (356)
8 2ftc_I Mitochondrial ribosomal 44.8 43 0.0015 22.7 5.0 36 4-41 80-115 (118)
9 1x4e_A RNA binding motif, sing 43.0 17 0.00057 21.4 2.4 31 20-50 52-83 (85)
10 3ju0_A Phage integrase; four s 33.6 43 0.0015 22.1 3.5 37 4-40 38-76 (108)
11 3r8s_M 50S ribosomal protein L 28.6 84 0.0029 21.8 4.4 35 4-41 92-126 (136)
12 2cpz_A CUG triplet repeat RNA- 28.5 33 0.0011 21.3 2.1 15 20-34 72-86 (115)
13 2eoc_A Poly [ADP-ribose] polym 26.7 78 0.0027 21.2 3.9 32 20-51 80-113 (124)
14 4esq_A Serine/threonine protei 24.6 48 0.0016 23.5 2.6 24 18-41 89-112 (194)
15 2qfj_A FBP-interacting repress 23.9 17 0.00057 24.6 0.0 16 19-34 171-186 (216)
16 2div_A TRNA selenocysteine ass 23.4 88 0.003 18.6 3.4 14 20-33 57-70 (99)
17 3bbo_O Ribosomal protein L16; 21.7 49 0.0017 22.9 2.1 36 4-42 93-128 (135)
18 3bs9_A Nucleolysin TIA-1 isofo 21.6 94 0.0032 17.8 3.2 13 21-33 54-66 (87)
No 1
>1gcc_A Ethylene responsive element binding factor 1; transcription factor, protein-DNA complex, ethylene inducible; HET: DNA; NMR {Arabidopsis thaliana} SCOP: d.10.1.2 PDB: 2gcc_A 3gcc_A
Probab=99.91 E-value=4.9e-25 Score=140.33 Aligned_cols=51 Identities=47% Similarity=0.637 Sum_probs=48.9
Q ss_pred CCceEEEEeCCC-CCeEEeecCCCCHHHHHHHHHHHHHHhcCCCCCCCCCCC
Q 037259 1 MGKWASEIVDPK-KGVRVCLGTFDIVEEVARSYAEAAKRNRYNMAKLDFADL 51 (107)
Q Consensus 1 wGKW~AeIr~~~-~~kr~~LGtFdT~eEAA~AYD~aA~~~~G~~a~~NFp~~ 51 (107)
||||+|+|++|. +|+++|||||+|+||||+|||.++++++|.++.+|||.+
T Consensus 11 ~gkw~A~I~~~~~~g~r~~LGtf~T~eeAA~AyD~Aa~~~~G~~a~~NFp~~ 62 (63)
T 1gcc_A 11 WGKFAAEIRDPAKNGARVWLGTFETAEDAALAYDRAAFRMRGSRALLNFPLR 62 (63)
T ss_dssp TTEEEEEEEETTTTSEEEEEEEESSHHHHHHHHHHHHHHHHSSCCCCSSCTT
T ss_pred CCcEEEEEccccCCCeEEEeeeCCCHHHHHHHHHHHHHHhcCcccccCCCCc
Confidence 899999999987 489999999999999999999999999999999999986
No 2
>1u3e_M HNH homing endonuclease; HNH catalytic motif, helix-turn-helix DNA binding domain, PR complex, DNA binding protein-DNA complex; 2.92A {Bacillus phage SPO1} SCOP: d.4.1.3 d.285.1.1
Probab=91.30 E-value=0.033 Score=39.73 Aligned_cols=27 Identities=7% Similarity=-0.092 Sum_probs=22.6
Q ss_pred ceEEEEeCCCCCeEEeecCCCCHHHHHHHH
Q 037259 3 KWASEIVDPKKGVRVCLGTFDIVEEVARSY 32 (107)
Q Consensus 3 KW~AeIr~~~~~kr~~LGtFdT~eEAA~AY 32 (107)
+|.+.|. .+ +.++||.|+|.+|||++|
T Consensus 119 k~~~vi~--~~-~~~~~~~f~s~~eAa~~~ 145 (174)
T 1u3e_M 119 NQKPIIV--IS-PDGIEKEYPSTKCACEEL 145 (174)
T ss_dssp TCCCEEE--EC-TTSCEEEESCHHHHHHHH
T ss_pred CCceEEE--Ec-CCceEEeeCCHHHHHHHH
Confidence 5888887 44 567899999999999996
No 3
>1x60_A Sporulation-specific N-acetylmuramoyl-L-alanine amidase; CWLC, CWLCR, peptidoglycan, cell WALL lytic amidase, tandem repeats, hydrolase; NMR {Bacillus subtilis}
Probab=67.18 E-value=4.8 Score=24.33 Aligned_cols=33 Identities=18% Similarity=0.160 Sum_probs=23.1
Q ss_pred EEEEeCCCCCeEEeecCCCCHHHHHHHHHHHHH
Q 037259 5 ASEIVDPKKGVRVCLGTFDIVEEVARSYAEAAK 37 (107)
Q Consensus 5 ~AeIr~~~~~kr~~LGtFdT~eEAA~AYD~aA~ 37 (107)
.+.|.....--||.+|.|.+.+||..+-+....
T Consensus 36 ~~~i~~~~~~yRV~vGpf~~~~~A~~~~~~L~~ 68 (79)
T 1x60_A 36 DSIVLLKDGLYKVQIGAFSSKDNADTLAARAKN 68 (79)
T ss_dssp CEEEEEETTEEEEEEEEESSHHHHHHHHHHHHH
T ss_pred CeEEecCCcEEEEEECCcCCHHHHHHHHHHHHH
Confidence 345543334568999999999999888665443
No 4
>1uta_A FTSN, MSGA, cell division protein FTSN; bacterial cell division protein, RNP domain, transmembrane, inner membrane, repeat; NMR {Escherichia coli} SCOP: d.58.52.1
Probab=66.21 E-value=7 Score=23.91 Aligned_cols=33 Identities=18% Similarity=0.147 Sum_probs=24.2
Q ss_pred EEEEeCCCCCeEEeecCCCCHHHHHHHHHHHHH
Q 037259 5 ASEIVDPKKGVRVCLGTFDIVEEVARSYAEAAK 37 (107)
Q Consensus 5 ~AeIr~~~~~kr~~LGtFdT~eEAA~AYD~aA~ 37 (107)
.+.|.....--||.+|.|.+.+||..+-++...
T Consensus 36 ~a~i~~~~~~yRV~vGpf~s~~~A~~~~~~L~~ 68 (81)
T 1uta_A 36 DSKITTNNGWNRVVIGPVKGKENADSTLNRLKM 68 (81)
T ss_dssp CEEEEECSSSEEEEESSCBTTTHHHHHHHHHHH
T ss_pred CeEEEeCCcEEEEEECCcCCHHHHHHHHHHHHH
Confidence 455664445679999999999999888655444
No 5
>3jtz_A Integrase; four stranded beta-sheet, DNA binding protein; 1.30A {Yersinia pestis} PDB: 3rmp_A
Probab=56.29 E-value=15 Score=23.39 Aligned_cols=37 Identities=16% Similarity=0.247 Sum_probs=25.9
Q ss_pred eEEEEeCCCCCeEEeecCCC--CHHHHHHHHHHHHHHhc
Q 037259 4 WASEIVDPKKGVRVCLGTFD--IVEEVARSYAEAAKRNR 40 (107)
Q Consensus 4 W~AeIr~~~~~kr~~LGtFd--T~eEAA~AYD~aA~~~~ 40 (107)
|.-+.+...+.+++-||.|+ |..||...-+++...+.
T Consensus 38 w~~ryr~~Gk~~~~~LG~yp~~sL~~AR~~a~~~r~~l~ 76 (88)
T 3jtz_A 38 WYLKYRISGKESRIALGAYPAISLSDARQQREGIRKMLA 76 (88)
T ss_dssp EEEEEEETTEEEEEEEEETTTSCHHHHHHHHHHHHHHHT
T ss_pred EEEEEEeCCeEEEEEeECCCCCCHHHHHHHHHHHHHHHH
Confidence 77777643345667889998 58888887777666554
No 6
>3p5t_L Cleavage and polyadenylation specificity factor S; RRM domain, poly(A) site recognition, RNA, nuclear, RNA BIND protein; 2.70A {Homo sapiens} PDB: 3p6y_C
Probab=52.36 E-value=15 Score=22.06 Aligned_cols=26 Identities=8% Similarity=-0.084 Sum_probs=15.7
Q ss_pred eCCCCCeEEe--ecCCCCHHHHHHHHHH
Q 037259 9 VDPKKGVRVC--LGTFDIVEEVARSYAE 34 (107)
Q Consensus 9 r~~~~~kr~~--LGtFdT~eEAA~AYD~ 34 (107)
+++.+|+..- .=+|.+.++|.+|.+.
T Consensus 37 ~~~~~g~~kG~afV~f~~~~~a~~Ai~~ 64 (90)
T 3p5t_L 37 ENRANGQSKGFALVGVGSEASSKKLMDL 64 (90)
T ss_dssp ECTTTCCEEEEEEECC-CHHHHHHHHHH
T ss_pred ecCCCCccCcEEEEEECCHHHHHHHHHH
Confidence 4444554333 3389999999988653
No 7
>1z1b_A Integrase; protein-DNA complex, DNA binding protein/DNA complex; HET: PTR; 3.80A {Enterobacteria phage lambda} SCOP: d.10.1.4 d.163.1.1 PDB: 1z1g_A 1kjk_A 2wcc_3*
Probab=49.41 E-value=21 Score=25.97 Aligned_cols=35 Identities=14% Similarity=0.028 Sum_probs=25.1
Q ss_pred CceEEEEeCCCCCeEEeecCCCCHHHHHHHHHHHHHHhc
Q 037259 2 GKWASEIVDPKKGVRVCLGTFDIVEEVARSYAEAAKRNR 40 (107)
Q Consensus 2 GKW~AeIr~~~~~kr~~LGtFdT~eEAA~AYD~aA~~~~ 40 (107)
|.|.-+.+ .+|+++.+|. |..||..........+.
T Consensus 22 g~~~~r~~--~~gk~~~~g~--t~~eA~~~a~~~~~~~~ 56 (356)
T 1z1b_A 22 GYYCYRDP--RTGKEFGLGR--DRRIAITEAIQANIELF 56 (356)
T ss_dssp TEEEEECT--TTCCEEEEES--CHHHHHHHHHHHHHHHH
T ss_pred CeEEEEee--cCCeEEECCC--CHHHHHHHHHHHHHHHh
Confidence 46776554 6889999996 88888877666555443
No 8
>2ftc_I Mitochondrial ribosomal protein L16, 39S ribosomal protein L13, mitochondrial; mitochondrial ribosome, large ribosomal subunit, ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_I
Probab=44.79 E-value=43 Score=22.66 Aligned_cols=36 Identities=17% Similarity=0.174 Sum_probs=27.9
Q ss_pred eEEEEeCCCCCeEEeecCCCCHHHHHHHHHHHHHHhcC
Q 037259 4 WASEIVDPKKGVRVCLGTFDIVEEVARSYAEAAKRNRY 41 (107)
Q Consensus 4 W~AeIr~~~~~kr~~LGtFdT~eEAA~AYD~aA~~~~G 41 (107)
|+|.|+ .+..-+-++...+++.|..|...|+.+|-.
T Consensus 80 wva~Vk--~G~ilfEi~g~~~~~~a~eAlr~a~~KlP~ 115 (118)
T 2ftc_I 80 YVTPVK--AGRLVVEMGGRCEFEEVQGFLDQVAHKLPF 115 (118)
T ss_pred EEEEEC--CCCEEEEEeccCCHHHHHHHHHHHHhhCCC
Confidence 999998 444445566568899999999999988754
No 9
>1x4e_A RNA binding motif, single-stranded interacting protein 2; structural genomics, RRM domain, NPPSFA; NMR {Homo sapiens} SCOP: d.58.7.1
Probab=42.98 E-value=17 Score=21.36 Aligned_cols=31 Identities=19% Similarity=0.126 Sum_probs=21.4
Q ss_pred cCCCCHHHHHHHHHH-HHHHhcCCCCCCCCCC
Q 037259 20 GTFDIVEEVARSYAE-AAKRNRYNMAKLDFAD 50 (107)
Q Consensus 20 GtFdT~eEAA~AYD~-aA~~~~G~~a~~NFp~ 50 (107)
=.|.+.++|..|... --..+.|...+..+|.
T Consensus 52 V~f~~~~~a~~A~~~l~g~~~~g~~~~~~~~~ 83 (85)
T 1x4e_A 52 VDFDSPSAAQKAVTALKASGVQAQMAKQSGPS 83 (85)
T ss_dssp EEESCHHHHHHHHHHHHHHTCCEESCCSSCCC
T ss_pred EEECCHHHHHHHHHHhcCCeEeeEEEeecCCC
Confidence 379999999999863 3344566666666554
No 10
>3ju0_A Phage integrase; four stranded beta-sheet, DNA binding protein; 1.60A {Pectobacterium atrosepticum}
Probab=33.65 E-value=43 Score=22.08 Aligned_cols=37 Identities=22% Similarity=0.244 Sum_probs=25.0
Q ss_pred eEEEEeCCCCCeEEeecCCC--CHHHHHHHHHHHHHHhc
Q 037259 4 WASEIVDPKKGVRVCLGTFD--IVEEVARSYAEAAKRNR 40 (107)
Q Consensus 4 W~AeIr~~~~~kr~~LGtFd--T~eEAA~AYD~aA~~~~ 40 (107)
|.-+.+.....+++-||.|+ |..||...-+.+...+.
T Consensus 38 w~~rYr~~GK~~~~~LG~yp~~SLa~AR~~a~~~r~~l~ 76 (108)
T 3ju0_A 38 WRLSYRFEKKQRLLALGVYPAVSLADARQRRDEAKKLLA 76 (108)
T ss_dssp EEEEEEETTEEEEEEEEEETTSCHHHHHHHHHHHHHHHH
T ss_pred EEEEEEEcCceEEEecCCCCCCCHHHHHHHHHHHHHHHH
Confidence 77676633344567889998 47888877766666553
No 11
>3r8s_M 50S ribosomal protein L16; protein biosynthesis, RNA, tRNA, transfer RNA, 23S ribosomal subunit, ribosome recycling factor, RRF, ribosome; 3.00A {Escherichia coli} PDB: 1p85_K 1p86_K 1vs8_M 1vs6_M 2aw4_M 2awb_M 1vt2_M 2i2v_M 2j28_M 2i2t_M* 2qao_M* 2qba_M* 2qbc_M* 2qbe_M 2qbg_M 2qbi_M* 2qbk_M* 2qov_M 2qox_M 2qoz_M* ...
Probab=28.62 E-value=84 Score=21.77 Aligned_cols=35 Identities=17% Similarity=0.097 Sum_probs=26.9
Q ss_pred eEEEEeCCCCCeEEeecCCCCHHHHHHHHHHHHHHhcC
Q 037259 4 WASEIVDPKKGVRVCLGTFDIVEEVARSYAEAAKRNRY 41 (107)
Q Consensus 4 W~AeIr~~~~~kr~~LGtFdT~eEAA~AYD~aA~~~~G 41 (107)
|+|.|. .+..-+-++. .+++.|..|...|+.+|-.
T Consensus 92 wva~Vk--~G~ilfEi~g-~~~~~A~eAlr~a~~KLP~ 126 (136)
T 3r8s_M 92 WVALIQ--PGKVLYEMDG-VPEELAREAFKLAAAKLPI 126 (136)
T ss_dssp EEEEEC--TTCEEEEEES-SCHHHHHHHHHHHHTTCSS
T ss_pred EEEEEC--CCCEEEEEeC-CCHHHHHHHHHHHHhcCCC
Confidence 999998 4444455655 4899999999999887754
No 12
>2cpz_A CUG triplet repeat RNA-binding protein 1; RRM domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: d.58.7.1 PDB: 2rq4_A 2rqc_A
Probab=28.53 E-value=33 Score=21.32 Aligned_cols=15 Identities=7% Similarity=0.034 Sum_probs=12.5
Q ss_pred cCCCCHHHHHHHHHH
Q 037259 20 GTFDIVEEVARSYAE 34 (107)
Q Consensus 20 GtFdT~eEAA~AYD~ 34 (107)
=+|.+.++|.+|.+.
T Consensus 72 V~f~~~~~a~~A~~~ 86 (115)
T 2cpz_A 72 VSYDNPVSAQAAIQS 86 (115)
T ss_dssp EECSSHHHHHHHHHH
T ss_pred EEECCHHHHHHHHHH
Confidence 379999999998754
No 13
>2eoc_A Poly [ADP-ribose] polymerase 3; anti-parallel beta-sheet, cell cycle control, DNA damage, transcription, NAD+, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=26.73 E-value=78 Score=21.16 Aligned_cols=32 Identities=13% Similarity=0.286 Sum_probs=22.6
Q ss_pred cCCCCHHHHHHHHHHHHHHhcCCC--CCCCCCCC
Q 037259 20 GTFDIVEEVARSYAEAAKRNRYNM--AKLDFADL 51 (107)
Q Consensus 20 GtFdT~eEAA~AYD~aA~~~~G~~--a~~NFp~~ 51 (107)
=.|++.++|..++++..+.-.|.. .+.||...
T Consensus 80 ~~~~s~~~A~~~F~k~f~~Ktgn~w~~r~~f~~~ 113 (124)
T 2eoc_A 80 NHFTRLEDAKKDFEKKFREKTKNNWAERDHFVSH 113 (124)
T ss_dssp EEESSHHHHHHHHHHHHHHHHSSCSTTGGGCCCC
T ss_pred ecCCCHHHHHHHHHHHHHHHHcCCcccccCcccC
Confidence 367899999999988777665532 34566544
No 14
>4esq_A Serine/threonine protein kinase; receptor kinase, membrane, transferase; HET: BTB; 1.70A {Mycobacterium tuberculosis}
Probab=24.62 E-value=48 Score=23.46 Aligned_cols=24 Identities=8% Similarity=0.119 Sum_probs=21.2
Q ss_pred eecCCCCHHHHHHHHHHHHHHhcC
Q 037259 18 CLGTFDIVEEVARSYAEAAKRNRY 41 (107)
Q Consensus 18 ~LGtFdT~eEAA~AYD~aA~~~~G 41 (107)
-++.|.|+++|.++|+..+.+.++
T Consensus 89 aVv~fps~~~A~~~f~~~~~~w~~ 112 (194)
T 4esq_A 89 AVVAFPTADKARAFVQTSADKWKN 112 (194)
T ss_dssp EEEECSSHHHHHHHHHHHHHHHHT
T ss_pred EEEEeCCHHHHHHHHHHHHHHHhh
Confidence 358999999999999999988875
No 15
>2qfj_A FBP-interacting repressor; protein-DNA complex; HET: DNA; 2.10A {Homo sapiens} PDB: 3uwt_A 2kxf_A 2kxh_A
Probab=23.86 E-value=17 Score=24.65 Aligned_cols=16 Identities=0% Similarity=0.104 Sum_probs=12.8
Q ss_pred ecCCCCHHHHHHHHHH
Q 037259 19 LGTFDIVEEVARSYAE 34 (107)
Q Consensus 19 LGtFdT~eEAA~AYD~ 34 (107)
+=.|.+.++|.+|...
T Consensus 171 fV~F~~~~~A~~A~~~ 186 (216)
T 2qfj_A 171 FIEYEKAQSSQDAVSS 186 (216)
T ss_dssp EEEESSHHHHHHHHHH
T ss_pred EEEecCHHHHHHHHHH
Confidence 3479999999998753
No 16
>2div_A TRNA selenocysteine associated protein; structural genomics, RRM domain, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=23.41 E-value=88 Score=18.55 Aligned_cols=14 Identities=7% Similarity=0.081 Sum_probs=11.7
Q ss_pred cCCCCHHHHHHHHH
Q 037259 20 GTFDIVEEVARSYA 33 (107)
Q Consensus 20 GtFdT~eEAA~AYD 33 (107)
=+|.+.++|.+|.+
T Consensus 57 V~f~~~~~a~~A~~ 70 (99)
T 2div_A 57 VEFADLATAEKCLH 70 (99)
T ss_dssp EECSCHHHHHHHHH
T ss_pred EEeCCHHHHHHHHH
Confidence 38999999998864
No 17
>3bbo_O Ribosomal protein L16; large ribosomal subunit, spinach chloroplast ribosome, ribonucleoprotein particle, macromolecular complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.2
Probab=21.69 E-value=49 Score=22.93 Aligned_cols=36 Identities=14% Similarity=0.111 Sum_probs=27.6
Q ss_pred eEEEEeCCCCCeEEeecCCCCHHHHHHHHHHHHHHhcCC
Q 037259 4 WASEIVDPKKGVRVCLGTFDIVEEVARSYAEAAKRNRYN 42 (107)
Q Consensus 4 W~AeIr~~~~~kr~~LGtFdT~eEAA~AYD~aA~~~~G~ 42 (107)
|+|.|+ .+..-+-++. .+++.|..|...|+.+|-..
T Consensus 93 wva~Vk--~G~ilfEi~g-v~~~~A~eAlr~a~~KLP~~ 128 (135)
T 3bbo_O 93 WVAVVK--PGRILYEISG-VAENIARRAVAIAASKMPIR 128 (135)
T ss_dssp CCCCCC--TTCEEEEECS-SCTTHHHHHHHHHHHHCSSC
T ss_pred EEEEEC--CCCEEEEEec-CCHHHHHHHHHHHHhhCCCc
Confidence 888887 3444445666 88999999999999988653
No 18
>3bs9_A Nucleolysin TIA-1 isoform P40; RNA recognition motif, RRM, RNA binding domain, RBD, RNA splicing, apoptosis, phosphoprotein, RNA-binding; 1.95A {Homo sapiens}
Probab=21.58 E-value=94 Score=17.82 Aligned_cols=13 Identities=8% Similarity=-0.036 Sum_probs=11.4
Q ss_pred CCCCHHHHHHHHH
Q 037259 21 TFDIVEEVARSYA 33 (107)
Q Consensus 21 tFdT~eEAA~AYD 33 (107)
.|.+.++|..|.+
T Consensus 54 ~f~~~~~A~~A~~ 66 (87)
T 3bs9_A 54 SFFNKWDAENAIQ 66 (87)
T ss_dssp EESSHHHHHHHHH
T ss_pred EECCHHHHHHHHH
Confidence 7999999998865
Done!