Query 038013
Match_columns 494
No_of_seqs 143 out of 258
Neff 3.1
Searched_HMMs 29240
Date Mon Mar 25 10:59:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038013.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/038013hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1tfi_A Transcriptional elongat 67.9 3.4 0.00012 31.1 2.7 37 147-183 9-48 (50)
2 1qyp_A RNA polymerase II; tran 67.1 2.9 9.9E-05 31.5 2.2 38 147-184 15-55 (57)
3 3h0g_I DNA-directed RNA polyme 59.3 10 0.00035 32.3 4.5 45 138-184 65-112 (113)
4 4f02_C Eukaryotic translation 50.3 4.3 0.00015 27.6 0.5 13 422-434 1-13 (27)
5 1gnf_A Transcription factor GA 44.5 14 0.00049 27.6 2.6 41 147-191 4-44 (46)
6 2fiy_A Protein FDHE homolog; F 43.6 10 0.00034 37.8 2.2 35 147-182 222-263 (309)
7 3dfx_A Trans-acting T-cell-spe 42.7 16 0.00054 29.0 2.8 43 147-193 7-49 (63)
8 1k82_A Formamidopyrimidine-DNA 40.2 9.3 0.00032 36.8 1.4 28 148-180 241-268 (268)
9 1twf_I B12.6, DNA-directed RNA 40.0 24 0.00081 30.4 3.7 47 139-187 66-115 (122)
10 3po3_S Transcription elongatio 39.9 12 0.00041 34.4 2.0 38 146-183 136-176 (178)
11 1ee8_A MUTM (FPG) protein; bet 39.8 10 0.00035 36.6 1.6 28 148-180 236-263 (266)
12 2xzf_A Formamidopyrimidine-DNA 38.9 10 0.00035 36.6 1.4 28 148-180 243-270 (271)
13 1pqv_S STP-alpha, transcriptio 38.4 14 0.00047 36.5 2.2 37 147-183 268-307 (309)
14 3u6p_A Formamidopyrimidine-DNA 37.1 9.9 0.00034 36.8 1.0 28 148-180 246-273 (273)
15 1k3x_A Endonuclease VIII; hydr 34.1 12 0.00041 35.9 1.1 28 148-180 235-262 (262)
16 4gat_A Nitrogen regulatory pro 30.5 30 0.001 27.6 2.6 46 144-193 6-51 (66)
17 3cw1_L U1 small nuclear ribonu 25.9 18 0.00061 29.8 0.6 17 171-187 2-18 (77)
18 3qt1_I DNA-directed RNA polyme 25.8 14 0.00049 32.7 0.0 38 147-184 92-132 (133)
19 2vut_I AREA, nitrogen regulato 24.3 27 0.00093 25.7 1.2 40 148-191 2-41 (43)
20 3nw0_A Non-structural maintena 21.4 16 0.00055 34.7 -0.6 38 147-185 193-230 (238)
21 2jny_A Uncharacterized BCR; st 20.8 31 0.0011 27.4 1.0 32 145-183 8-39 (67)
22 4hc9_A Trans-acting T-cell-spe 20.5 70 0.0024 27.6 3.2 44 146-193 58-101 (115)
23 2js4_A UPF0434 protein BB2007; 20.4 52 0.0018 26.3 2.3 32 145-183 6-37 (70)
24 1wii_A Hypothetical UPF0222 pr 20.2 63 0.0021 26.9 2.8 41 142-183 18-58 (85)
No 1
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=67.92 E-value=3.4 Score=31.10 Aligned_cols=37 Identities=16% Similarity=0.693 Sum_probs=27.6
Q ss_pred ccCCCCCcCCCCceeeecccCCCCCc---ccchhchhccc
Q 038013 147 ILPCPRCNSMDTKFCYYNNYNVNQPR---HFCKNCQRYWT 183 (494)
Q Consensus 147 ~~~CPRC~S~~TkfcyyNNy~~~QPR---hfCk~C~RyWT 183 (494)
...||+|...+.-|--.+......|- |.|.+|..-|.
T Consensus 9 ~~~Cp~Cg~~~a~f~q~Q~RsaDE~mT~Fy~C~~Cg~~w~ 48 (50)
T 1tfi_A 9 LFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRWK 48 (50)
T ss_dssp CSCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCEEE
T ss_pred ccCCCCCCCCEEEEEEecCcCCCCCceEEEEcCCCCCeEE
Confidence 36899999888777655555554453 89999998885
No 2
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=67.11 E-value=2.9 Score=31.48 Aligned_cols=38 Identities=18% Similarity=0.578 Sum_probs=25.2
Q ss_pred ccCCCCCcCCCCceeeecccCCCCC---cccchhchhcccc
Q 038013 147 ILPCPRCNSMDTKFCYYNNYNVNQP---RHFCKNCQRYWTA 184 (494)
Q Consensus 147 ~~~CPRC~S~~TkfcyyNNy~~~QP---RhfCk~C~RyWT~ 184 (494)
.++||+|...+..|--.+-.....| .|.|..|.--|..
T Consensus 15 ~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w~~ 55 (57)
T 1qyp_A 15 KITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS 55 (57)
T ss_dssp ECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEEC
T ss_pred EeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEecc
Confidence 4689999984444433333333334 3899999999975
No 3
>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=59.31 E-value=10 Score=32.28 Aligned_cols=45 Identities=20% Similarity=0.425 Sum_probs=27.7
Q ss_pred ccccCCCCCccCCCCCcCCCCceeeecccCCCCCc---ccchhchhcccc
Q 038013 138 EKTLKKPDKILPCPRCNSMDTKFCYYNNYNVNQPR---HFCKNCQRYWTA 184 (494)
Q Consensus 138 ~~~~~~p~~~~~CPRC~S~~TkfcyyNNy~~~QPR---hfCk~C~RyWT~ 184 (494)
+..+++ ....||+|...+..|-..+-.....|- |.|.+|.-.|..
T Consensus 65 ~~tlp~--~~~~Cp~C~~~~a~~~q~q~rsade~mt~fy~C~~C~~~w~~ 112 (113)
T 3h0g_I 65 DPTLPR--SDKECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGFAFEE 112 (113)
T ss_dssp CSSSCB--CCSCCSSSCCSCEEEECCCCSSCCCCCCCEEEESSSCCCCCC
T ss_pred cccCCC--cccCCCCCCCceEEEEEEecccCCCCCeeEEEcCCCCCEEec
Confidence 345533 337999999877554333322222222 889999999974
No 4
>4f02_C Eukaryotic translation initiation factor 4 gamma; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens}
Probab=50.30 E-value=4.3 Score=27.59 Aligned_cols=13 Identities=54% Similarity=0.923 Sum_probs=10.8
Q ss_pred cccccCCCccccc
Q 038013 422 KTLRIDDPSEAAK 434 (494)
Q Consensus 422 KTLRIDDP~EAAK 434 (494)
|||||-||+.-.|
T Consensus 1 k~irirdpnqggk 13 (27)
T 4f02_C 1 KTIRIRDPNQGGK 13 (27)
T ss_pred CcceecCccccch
Confidence 7999999987554
No 5
>1gnf_A Transcription factor GATA-1; zinc finger, transcription regulation; NMR {Mus musculus} SCOP: g.39.1.1 PDB: 1y0j_A 2l6y_A 2l6z_A
Probab=44.45 E-value=14 Score=27.58 Aligned_cols=41 Identities=20% Similarity=0.493 Sum_probs=29.9
Q ss_pred ccCCCCCcCCCCceeeecccCCCCCcccchhchhccccCCccccc
Q 038013 147 ILPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQRYWTAGGTMRNV 191 (494)
Q Consensus 147 ~~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~RyWT~GG~lRnV 191 (494)
...|-.|....|-. +-.-. ....+|-+|.-||-..|.+|-+
T Consensus 4 ~~~C~~C~tt~Tp~--WR~gp--~G~~LCNaCGl~~k~~~~~RP~ 44 (46)
T 1gnf_A 4 ARECVNCGATATPL--WRRDR--TGHYLCNACGLYHKMNGQNRPL 44 (46)
T ss_dssp SCCCTTTCCCCCSS--CBCCT--TCCCBCSHHHHHHHHTCSCCCC
T ss_pred CCCCCCcCCCCCCc--CccCC--CCCccchHHHHHHHHcCCCCCC
Confidence 45799999988753 22222 2238999999999999998743
No 6
>2fiy_A Protein FDHE homolog; FDHE protein, structural genomics, P protein structure initiative, midwest center for structural genomics, MCSG; 2.10A {Pseudomonas aeruginosa} SCOP: e.59.1.1
Probab=43.65 E-value=10 Score=37.78 Aligned_cols=35 Identities=20% Similarity=0.534 Sum_probs=24.6
Q ss_pred ccCCCCCcCCCCceeeecccC-------CCCCcccchhchhcc
Q 038013 147 ILPCPRCNSMDTKFCYYNNYN-------VNQPRHFCKNCQRYW 182 (494)
Q Consensus 147 ~~~CPRC~S~~TkfcyyNNy~-------~~QPRhfCk~C~RyW 182 (494)
...||.|... .++-||.--. ...--+.|..|+.|+
T Consensus 222 R~~C~~Cg~~-~~l~y~~~e~~~~~~~~~~~r~e~C~~C~~Yl 263 (309)
T 2fiy_A 222 RIKCSHCEES-KHLAYLSLEHDGQPAEKAVLRAETCPSCQGYL 263 (309)
T ss_dssp TTSCSSSCCC-SCCEEECCCC-CCCSTTCSEEEEEETTTTEEE
T ss_pred CcCCcCCCCC-CCeeEEEecCccccCCCcceEEEEcccccchH
Confidence 4689999998 4677765443 122238999999998
No 7
>3dfx_A Trans-acting T-cell-specific transcription factor GATA-3; activator, DNA-binding, metal-binding, nucleus; HET: DNA; 2.70A {Mus musculus} PDB: 3dfv_D* 2gat_A* 3gat_A* 1gat_A* 1gau_A*
Probab=42.67 E-value=16 Score=29.03 Aligned_cols=43 Identities=16% Similarity=0.464 Sum_probs=31.8
Q ss_pred ccCCCCCcCCCCceeeecccCCCCCcccchhchhccccCCccccccc
Q 038013 147 ILPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQRYWTAGGTMRNVPV 193 (494)
Q Consensus 147 ~~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~RyWT~GG~lRnVPv 193 (494)
...|-.|....|-. +-.-. ....+|-+|.-||-..|..|-+.+
T Consensus 7 ~~~C~~C~tt~Tp~--WR~gp--~G~~LCNACGl~~~~~~~~RP~~~ 49 (63)
T 3dfx_A 7 GTSCANCQTTTTTL--WRRNA--NGDPVCNACGLYYKLHNINRPLTM 49 (63)
T ss_dssp TCCCTTTCCSCCSS--CCCCT--TSCCCCHHHHHHHHHHSSCCCGGG
T ss_pred CCcCCCcCCCCCCc--cCCCC--CCCchhhHHHHHHHHcCCCCCcCc
Confidence 45799999988753 22221 223899999999999999887765
No 8
>1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA repair, beta sandwich, zinc finger, helix two-turns helix, hydrolase/DNA complex; HET: PED; 2.10A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8
Probab=40.24 E-value=9.3 Score=36.84 Aligned_cols=28 Identities=21% Similarity=0.617 Sum_probs=20.9
Q ss_pred cCCCCCcCCCCceeeecccCCCCCcccchhchh
Q 038013 148 LPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQR 180 (494)
Q Consensus 148 ~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~R 180 (494)
.+||||...=.|.-+ . .+.-|||..||+
T Consensus 241 ~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 268 (268)
T 1k82_A 241 EPCRVCGTPIVATKH-A----QRATFYCRQCQK 268 (268)
T ss_dssp SBCTTTCCBCEEEEE-T----TEEEEECTTTCC
T ss_pred CCCCCCCCEeeEEEE-C----CCceEECCCCCC
Confidence 589999987666543 2 355599999995
No 9
>1twf_I B12.6, DNA-directed RNA polymerase II 14.2 kDa polypepti; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: g.41.3.1 g.41.3.1 PDB: 1i3q_I 1i6h_I 1k83_I* 1nik_I 1nt9_I 1pqv_I 1r5u_I 1r9s_I* 1r9t_I* 1sfo_I* 1twa_I* 1twc_I* 1i50_I* 1twg_I* 1twh_I* 1wcm_I 1y1v_I 1y1w_I 1y1y_I 1y77_I* ...
Probab=40.01 E-value=24 Score=30.42 Aligned_cols=47 Identities=21% Similarity=0.486 Sum_probs=31.2
Q ss_pred cccCCCCCccCCCCCcCCCCceeeecccCCCCCc---ccchhchhccccCCc
Q 038013 139 KTLKKPDKILPCPRCNSMDTKFCYYNNYNVNQPR---HFCKNCQRYWTAGGT 187 (494)
Q Consensus 139 ~~~~~p~~~~~CPRC~S~~TkfcyyNNy~~~QPR---hfCk~C~RyWT~GG~ 187 (494)
..+++- ...||+|...+.-|-..+-.....|- |.|.+|.-.|.....
T Consensus 66 ~t~p~t--~~~Cp~C~~~~a~~~q~q~rsade~~t~fy~C~~C~~~w~~nn~ 115 (122)
T 1twf_I 66 PTLPRS--DRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQK 115 (122)
T ss_dssp TTSCCC--CCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECCTT
T ss_pred cccccc--CCCCCCCCCCEEEEEEecCccCCCCceEEEEeCCCCCEeccCCh
Confidence 444443 36899999876665444444433333 899999999988643
No 10
>3po3_S Transcription elongation factor S-II; RNA polymerase II, mRNA, transcription, arrest, BACKTRACKING cleavage, transferase-DNA-RNA complex; HET: DNA BRU EPE PGE; 3.30A {Saccharomyces cerevisiae} PDB: 1y1v_S 1y1y_S 3gtm_S* 1enw_A
Probab=39.94 E-value=12 Score=34.38 Aligned_cols=38 Identities=16% Similarity=0.561 Sum_probs=23.3
Q ss_pred CccCCCCCcCCCCceeeecccCCCCC---cccchhchhccc
Q 038013 146 KILPCPRCNSMDTKFCYYNNYNVNQP---RHFCKNCQRYWT 183 (494)
Q Consensus 146 ~~~~CPRC~S~~TkfcyyNNy~~~QP---RhfCk~C~RyWT 183 (494)
....||+|...+..|--.+-....-| -|.|..|..-|.
T Consensus 136 ~~~~Cp~C~~~~a~~~q~Q~rsaDE~mt~f~~C~~C~~~w~ 176 (178)
T 3po3_S 136 DRFTCGKCKEKKVSYYQLQTRSAAAPLTTFCTCEACGNRWK 176 (178)
T ss_dssp SSSCCSSSCCSCEECCCCCCSCTTSCCCCCEEETTTCCEEC
T ss_pred CCcCCCCCCCCceEEEEeecccCCCCCcEEEEcCCCCCeec
Confidence 35699999976554322222221122 388999999995
No 11
>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns helix, riken STR genomics/proteomics initiative, RSGI, structural genomics; 1.90A {Thermus thermophilus} SCOP: a.156.1.2 b.113.1.1 g.39.1.8
Probab=39.78 E-value=10 Score=36.56 Aligned_cols=28 Identities=36% Similarity=0.859 Sum_probs=20.9
Q ss_pred cCCCCCcCCCCceeeecccCCCCCcccchhchh
Q 038013 148 LPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQR 180 (494)
Q Consensus 148 ~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~R 180 (494)
.+||||...=.|.-+ . .+.-|||..||+
T Consensus 236 ~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 263 (266)
T 1ee8_A 236 LPCPACGRPVERRVV-A----GRGTHFCPTCQG 263 (266)
T ss_dssp SBCTTTCCBCEEEES-S----SCEEEECTTTTT
T ss_pred CCCCCCCCEeeEEEE-C----CCceEECCCCCC
Confidence 589999887665433 2 355699999997
No 12
>2xzf_A Formamidopyrimidine-DNA glycosylase; hydrolase-DNA complex; HET: VET; 1.80A {Lactococcus lactis subsp} PDB: 1pm5_A* 1xc8_A* 1pji_A* 2xzu_A* 3c58_A* 1tdz_A* 1nnj_A 1kfv_A 1pjj_A*
Probab=38.88 E-value=10 Score=36.58 Aligned_cols=28 Identities=32% Similarity=0.689 Sum_probs=21.0
Q ss_pred cCCCCCcCCCCceeeecccCCCCCcccchhchh
Q 038013 148 LPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQR 180 (494)
Q Consensus 148 ~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~R 180 (494)
.+||||...=.|.-+ . .+.-|||..||+
T Consensus 243 ~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 270 (271)
T 2xzf_A 243 EKCSRCGAEIQKIKV-A----GRGTHFCPVCQQ 270 (271)
T ss_dssp SBCTTTCCBCEEEEE-T----TEEEEECTTTSC
T ss_pred CCCCCCCCEeeEEEE-C----CCceEECCCCCC
Confidence 589999987666543 2 355599999996
No 13
>1pqv_S STP-alpha, transcription elongation factor S-II, DNA; mRNA cleavage, proofreading, BACKTRACKING, gene expression, multiprotein complex; 3.80A {Saccharomyces cerevisiae} SCOP: i.8.1.1 PDB: 1eo0_A
Probab=38.43 E-value=14 Score=36.51 Aligned_cols=37 Identities=16% Similarity=0.611 Sum_probs=22.9
Q ss_pred ccCCCCCcCCCCceeeecccCCCCC---cccchhchhccc
Q 038013 147 ILPCPRCNSMDTKFCYYNNYNVNQP---RHFCKNCQRYWT 183 (494)
Q Consensus 147 ~~~CPRC~S~~TkfcyyNNy~~~QP---RhfCk~C~RyWT 183 (494)
...||+|...+..|--.+...-..| -|.|..|..-|.
T Consensus 268 ~~~C~~C~~~~~~~~q~Q~rsaDe~~t~f~~C~~Cg~~w~ 307 (309)
T 1pqv_S 268 RFTCGKCKEKKVSYYQLQTRSADEPLTTFCTCEACGNRWK 307 (309)
T ss_pred cccCCCCCCCeeEEEEeecccCCCCCcEEEEeCCCCCcee
Confidence 4689999965544422222222223 289999999885
No 14
>3u6p_A Formamidopyrimidine-DNA glycosylase; DNA glycosylase, DNA repair, sequence context; HET: DNA 08Q; 1.60A {Geobacillus stearothermophilus} PDB: 3u6d_A* 3u6c_A* 3u6l_A* 3u6m_A* 3u6o_A* 3u6e_A* 3u6q_A* 3u6s_A* 3gp1_A* 3sbj_A* 2f5q_A* 2f5s_A* 3gq4_A* 3gpy_A* 2f5n_A 2f5o_A 2f5p_A 3sau_A* 3sar_A* 3sav_A* ...
Probab=37.12 E-value=9.9 Score=36.81 Aligned_cols=28 Identities=36% Similarity=0.812 Sum_probs=20.4
Q ss_pred cCCCCCcCCCCceeeecccCCCCCcccchhchh
Q 038013 148 LPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQR 180 (494)
Q Consensus 148 ~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~R 180 (494)
.+||||...=.|.-+ . .+.-|||..||+
T Consensus 246 ~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 273 (273)
T 3u6p_A 246 NPCKRCGTPIEKTVV-A----GRGTHYCPRCQR 273 (273)
T ss_dssp SBCTTTCCBCEEEEE-T----TEEEEECTTTCC
T ss_pred CCCCCCCCeEEEEEE-C----CCCeEECCCCCC
Confidence 499999887665433 2 355599999995
No 15
>1k3x_A Endonuclease VIII; hydrolase/DNA, hydrolase-DNA complex; HET: BRU PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A 2opf_A* 1q3b_A*
Probab=34.13 E-value=12 Score=35.89 Aligned_cols=28 Identities=36% Similarity=0.820 Sum_probs=20.1
Q ss_pred cCCCCCcCCCCceeeecccCCCCCcccchhchh
Q 038013 148 LPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQR 180 (494)
Q Consensus 148 ~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~R 180 (494)
.+||||...=.|.-+ . .+.-|||..||+
T Consensus 235 ~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 262 (262)
T 1k3x_A 235 EPCERCGSIIEKTTL-S----SRPFYWCPGCQH 262 (262)
T ss_dssp SBCTTTCCBCEEEEE-T----TEEEEECTTTCC
T ss_pred CCCCCCCCEeEEEEE-C----CCCeEECCCCCC
Confidence 489999887655432 2 355599999995
No 16
>4gat_A Nitrogen regulatory protein AREA; DNA binding protein, transcription factor, zinc binding domain, complex (transcription regulation/DNA); HET: DNA; NMR {Emericella nidulans} SCOP: g.39.1.1 PDB: 5gat_A* 6gat_A* 7gat_A*
Probab=30.50 E-value=30 Score=27.58 Aligned_cols=46 Identities=15% Similarity=0.451 Sum_probs=32.9
Q ss_pred CCCccCCCCCcCCCCceeeecccCCCCCcccchhchhccccCCccccccc
Q 038013 144 PDKILPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQRYWTAGGTMRNVPV 193 (494)
Q Consensus 144 p~~~~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~RyWT~GG~lRnVPv 193 (494)
+.....|-.|.+.+|-. .-.- ..-+ .+|-+|..||-..|.+|-+-.
T Consensus 6 ~~~~~~C~~C~t~~Tp~--WR~g-p~G~-~LCNaCGl~~~~~~~~RP~~~ 51 (66)
T 4gat_A 6 QNGPTTCTNCFTQTTPL--WRRN-PEGQ-PLCNACGLFLKLHGVVRPLSL 51 (66)
T ss_dssp SSSSCCCTTTCCCCCSS--CEEE-TTTE-EECHHHHHHHHHHCSCCCGGG
T ss_pred CCCCCCCCCCCCCCCCc--CCcC-CCCC-CccHHHHHHHHHcCCCCchhh
Confidence 44567899999988762 2111 1222 899999999999999876654
No 17
>3cw1_L U1 small nuclear ribonucleoprotein C; PRE-mRNA splicing, spliceosome, RNA-binding domain, SM fold, finger, RNA recognition motif, 5' splice site; 5.49A {Homo sapiens} PDB: 1uw2_A 2vrd_A
Probab=25.94 E-value=18 Score=29.83 Aligned_cols=17 Identities=29% Similarity=0.931 Sum_probs=15.2
Q ss_pred CcccchhchhccccCCc
Q 038013 171 PRHFCKNCQRYWTAGGT 187 (494)
Q Consensus 171 PRhfCk~C~RyWT~GG~ 187 (494)
|||||.-|..|.|+.-.
T Consensus 2 PkYyCdYCd~~lt~Ds~ 18 (77)
T 3cw1_L 2 PKFYCDYCDTYLTHDSP 18 (77)
T ss_pred CCcccccCCceecCCCH
Confidence 89999999999988754
No 18
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=25.80 E-value=14 Score=32.65 Aligned_cols=38 Identities=26% Similarity=0.628 Sum_probs=0.0
Q ss_pred ccCCCCCcCCCCceeeecccCCCCC---cccchhchhcccc
Q 038013 147 ILPCPRCNSMDTKFCYYNNYNVNQP---RHFCKNCQRYWTA 184 (494)
Q Consensus 147 ~~~CPRC~S~~TkfcyyNNy~~~QP---RhfCk~C~RyWT~ 184 (494)
...||+|...+.-|-..+-....-| -|.|..|.--|..
T Consensus 92 ~~~CpkCg~~~a~f~q~Q~RsaDE~mT~fy~C~~C~~~w~e 132 (133)
T 3qt1_I 92 DRECPKCHSRENVFFQLQIRSADEPMTTFYKCVNCGHRWKE 132 (133)
T ss_dssp -----------------------------------------
T ss_pred cCCCCCCCCceEEEEEEeeecCCCCCcEEEEcCCCCCEeCc
Confidence 4799999987765433333322222 2789999999975
No 19
>2vut_I AREA, nitrogen regulatory protein AREA; transcription regulation, protein-protein interactions, metal-binding, nitrate assimilation; HET: NAD; 2.3A {Emericella nidulans} SCOP: g.39.1.1 PDB: 2vus_I* 2vuu_I*
Probab=24.29 E-value=27 Score=25.68 Aligned_cols=40 Identities=18% Similarity=0.530 Sum_probs=28.8
Q ss_pred cCCCCCcCCCCceeeecccCCCCCcccchhchhccccCCccccc
Q 038013 148 LPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQRYWTAGGTMRNV 191 (494)
Q Consensus 148 ~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~RyWT~GG~lRnV 191 (494)
..|-.|...+|-. +-.- . ....+|-+|.-||-..|.+|-+
T Consensus 2 ~~C~~C~tt~Tp~--WR~g-p-~G~~LCNaCGl~~k~~~~~RP~ 41 (43)
T 2vut_I 2 TTCTNCFTQTTPL--WRRN-P-EGQPLCNACGLFLKLHGVVRPL 41 (43)
T ss_dssp CCCSSSCCCCCSC--CEEC-T-TSCEECHHHHHHHHHHSSCCCC
T ss_pred CcCCccCCCCCCc--cccC-C-CCCcccHHHHHHHHHhCCCCCC
Confidence 4688898887753 2221 1 2238999999999999998754
No 20
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Probab=21.44 E-value=16 Score=34.73 Aligned_cols=38 Identities=18% Similarity=0.510 Sum_probs=29.2
Q ss_pred ccCCCCCcCCCCceeeecccCCCCCcccchhchhccccC
Q 038013 147 ILPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQRYWTAG 185 (494)
Q Consensus 147 ~~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~RyWT~G 185 (494)
+..|+.|+..=+..|+++=. ..+...-|..|+..|...
T Consensus 193 g~~C~~C~~~~H~~C~~~~~-~~~~~~~CP~C~~~W~~~ 230 (238)
T 3nw0_A 193 GQSCETCGIRMHLPCVAKYF-QSNAEPRCPHCNDYWPHE 230 (238)
T ss_dssp CEECSSSCCEECHHHHHHHT-TTCSSCBCTTTCCBCCSC
T ss_pred CcccCccChHHHHHHHHHHH-HhCCCCCCCCCCCCCCCC
Confidence 45788888888888875543 456678899999999876
No 21
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1
Probab=20.83 E-value=31 Score=27.44 Aligned_cols=32 Identities=13% Similarity=0.226 Sum_probs=21.6
Q ss_pred CCccCCCCCcCCCCceeeecccCCCCCcccchhchhccc
Q 038013 145 DKILPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQRYWT 183 (494)
Q Consensus 145 ~~~~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~RyWT 183 (494)
-.++.||.|... .-| ....-...|+.|++-+-
T Consensus 8 LeiL~CP~ck~~---L~~----~~~~g~LvC~~c~~~YP 39 (67)
T 2jny_A 8 LEVLACPKDKGP---LRY----LESEQLLVNERLNLAYR 39 (67)
T ss_dssp TCCCBCTTTCCB---CEE----ETTTTEEEETTTTEEEE
T ss_pred HHHhCCCCCCCc---CeE----eCCCCEEEcCCCCcccc
Confidence 367899999983 222 23355688999987553
No 22
>4hc9_A Trans-acting T-cell-specific transcription factor; zinc finger, GATA transcription factor, DNA bridging, transc DNA complex; HET: DNA; 1.60A {Homo sapiens} PDB: 4hc7_A* 4hca_A* 3dfx_A* 3dfv_D* 2gat_A* 3gat_A* 1gat_A* 1gau_A* 1gnf_A 1y0j_A 2l6y_A 2l6z_A
Probab=20.46 E-value=70 Score=27.60 Aligned_cols=44 Identities=18% Similarity=0.490 Sum_probs=32.8
Q ss_pred CccCCCCCcCCCCceeeecccCCCCCcccchhchhccccCCccccccc
Q 038013 146 KILPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQRYWTAGGTMRNVPV 193 (494)
Q Consensus 146 ~~~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~RyWT~GG~lRnVPv 193 (494)
..+.|-.|....|-. .-. . ...+.+|-+|.-||-..|..|-+-+
T Consensus 58 ~~~~C~~C~t~~tp~--WRr-~-~~g~~lCNaCgl~~~~~~~~rp~~~ 101 (115)
T 4hc9_A 58 AGTSCANCQTTTTTL--WRR-N-ANGDPVCNACGLYYKLHNINRPLTM 101 (115)
T ss_dssp TTCCCTTTCCSCCSS--CEE-C-TTSCEECHHHHHHHHHHSSCCCGGG
T ss_pred ccccCCCcCCCCcce--eEE-C-CCCCCcchHHHHHHHHhCCCCCccc
Confidence 357999999988752 221 1 2236899999999999999877765
No 23
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics consortium, beta, PSI-2, protein structure initiative; NMR {Bordetella bronchiseptica RB50}
Probab=20.39 E-value=52 Score=26.27 Aligned_cols=32 Identities=22% Similarity=0.464 Sum_probs=21.8
Q ss_pred CCccCCCCCcCCCCceeeecccCCCCCcccchhchhccc
Q 038013 145 DKILPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQRYWT 183 (494)
Q Consensus 145 ~~~~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~RyWT 183 (494)
-.++.||.|... .-| ........|++|++-+-
T Consensus 6 L~iL~CP~ck~~---L~~----~~~~~~LiC~~cg~~YP 37 (70)
T 2js4_A 6 LDILVCPVCKGR---LEF----QRAQAELVCNADRLAFP 37 (70)
T ss_dssp CCCCBCTTTCCB---EEE----ETTTTEEEETTTTEEEE
T ss_pred hhheECCCCCCc---CEE----eCCCCEEEcCCCCceec
Confidence 357899999983 322 23356688999987554
No 24
>1wii_A Hypothetical UPF0222 protein MGC4549; domain of unknown function, zinc finger, metal-binding protein, structural genomics; NMR {Mus musculus} SCOP: g.41.3.4
Probab=20.22 E-value=63 Score=26.88 Aligned_cols=41 Identities=17% Similarity=0.303 Sum_probs=31.4
Q ss_pred CCCCCccCCCCCcCCCCceeeecccCCCCCcccchhchhccc
Q 038013 142 KKPDKILPCPRCNSMDTKFCYYNNYNVNQPRHFCKNCQRYWT 183 (494)
Q Consensus 142 ~~p~~~~~CPRC~S~~TkfcyyNNy~~~QPRhfCk~C~RyWT 183 (494)
.+.+....||.|+..++=-|-+.- ...-.+.-|+.|+-.+.
T Consensus 18 ~~L~t~F~CPfCnh~~sV~vkidk-~~~~g~l~C~~Cg~~~~ 58 (85)
T 1wii_A 18 GTLETQFTCPFCNHEKSCDVKMDR-ARNTGVISCTVCLEEFQ 58 (85)
T ss_dssp CCCSSCCCCTTTCCSSCEEEEEET-TTTEEEEEESSSCCEEE
T ss_pred CCCCCeEcCCCCCCCCeEEEEEEc-cCCEEEEEcccCCCeEE
Confidence 567788999999999877776653 34467788999987664
Done!