Query 021641
Match_columns 309
No_of_seqs 136 out of 251
Neff 3.2
Searched_HMMs 29240
Date Mon Mar 25 07:06:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021641.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/021641hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1qyp_A RNA polymerase II; tran 83.4 1 3.6E-05 31.8 3.5 41 44-84 12-55 (57)
2 1tfi_A Transcriptional elongat 81.8 1 3.4E-05 32.0 2.9 36 48-83 10-48 (50)
3 3h0g_I DNA-directed RNA polyme 78.8 1.7 5.7E-05 35.0 3.6 41 44-84 69-112 (113)
4 1twf_I B12.6, DNA-directed RNA 72.9 3.1 0.00011 33.8 3.7 43 44-86 69-114 (122)
5 3po3_S Transcription elongatio 60.6 4.7 0.00016 34.9 2.7 37 47-83 137-176 (178)
6 2fiy_A Protein FDHE homolog; F 60.6 3.4 0.00012 38.7 1.9 35 48-83 223-264 (309)
7 3nw0_A Non-structural maintena 58.6 1.8 6.1E-05 38.8 -0.4 38 47-85 193-230 (238)
8 1pqv_S STP-alpha, transcriptio 56.8 5.3 0.00018 37.1 2.5 37 47-83 268-307 (309)
9 3qt1_I DNA-directed RNA polyme 56.2 2.4 8.1E-05 35.4 0.0 38 47-84 92-132 (133)
10 1gnf_A Transcription factor GA 43.3 13 0.00044 26.1 2.1 40 48-91 5-44 (46)
11 1k82_A Formamidopyrimidine-DNA 41.7 9 0.00031 34.7 1.4 28 48-80 241-268 (268)
12 1ee8_A MUTM (FPG) protein; bet 41.1 9.8 0.00034 34.5 1.6 28 48-80 236-263 (266)
13 3u6p_A Formamidopyrimidine-DNA 40.2 9.7 0.00033 34.6 1.4 28 48-80 246-273 (273)
14 2xzf_A Formamidopyrimidine-DNA 40.1 9.8 0.00034 34.4 1.4 28 48-80 243-270 (271)
15 3cw1_L U1 small nuclear ribonu 38.8 8.5 0.00029 29.8 0.7 17 71-87 2-18 (77)
16 1k3x_A Endonuclease VIII; hydr 32.2 14 0.00048 33.3 1.1 28 48-80 235-262 (262)
17 1pft_A TFIIB, PFTFIIBN; N-term 30.9 25 0.00084 23.9 1.9 32 47-84 5-36 (50)
18 3dfx_A Trans-acting T-cell-spe 30.2 36 0.0012 25.3 2.9 43 48-94 8-50 (63)
19 4gat_A Nitrogen regulatory pro 27.6 38 0.0013 25.3 2.6 42 48-93 10-51 (66)
20 2k2d_A Ring finger and CHY zin 27.1 23 0.00078 27.1 1.3 12 48-59 56-67 (79)
21 2akl_A PHNA-like protein PA012 25.8 36 0.0012 29.2 2.4 31 48-86 28-58 (138)
22 1dvp_A HRS, hepatocyte growth 24.5 39 0.0013 29.1 2.5 37 39-84 153-189 (220)
23 2gmg_A Hypothetical protein PF 23.2 43 0.0015 27.3 2.4 12 48-59 85-96 (105)
24 2pk7_A Uncharacterized protein 21.7 41 0.0014 25.1 1.8 29 47-82 8-36 (69)
25 2jny_A Uncharacterized BCR; st 21.7 32 0.0011 25.7 1.2 29 47-82 10-38 (67)
26 3zyq_A Hepatocyte growth facto 21.7 52 0.0018 28.8 2.8 39 38-85 155-193 (226)
No 1
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=83.42 E-value=1 Score=31.83 Aligned_cols=41 Identities=22% Similarity=0.711 Sum_probs=26.6
Q ss_pred CccCCCCCCCCCCCcceeeeccccCCCC---ccccccccccccc
Q 021641 44 PQEQLNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWTE 84 (309)
Q Consensus 44 p~~~~~CPRC~S~~TKfcyyNNy~~~QP---R~fCk~CrRyWT~ 84 (309)
|.-.++||+|...+..|--.+-.+...| .|.|..|.--|+.
T Consensus 12 ~~~~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w~~ 55 (57)
T 1qyp_A 12 PTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS 55 (57)
T ss_dssp CEEECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEEC
T ss_pred CceEeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEecc
Confidence 3334789999984444333333334444 3999999999976
No 2
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=81.75 E-value=1 Score=31.96 Aligned_cols=36 Identities=22% Similarity=0.697 Sum_probs=27.1
Q ss_pred CCCCCCCCCCcceeeeccccCCCCc---ccccccccccc
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWT 83 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyWT 83 (309)
..||+|...+..|--.+..+...|- |.|..|..-|.
T Consensus 10 ~~Cp~Cg~~~a~f~q~Q~RsaDE~mT~Fy~C~~Cg~~w~ 48 (50)
T 1tfi_A 10 FTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRWK 48 (50)
T ss_dssp SCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCEEE
T ss_pred cCCCCCCCCEEEEEEecCcCCCCCceEEEEcCCCCCeEE
Confidence 7899999887776555555555453 89999998885
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=78.76 E-value=1.7 Score=34.97 Aligned_cols=41 Identities=24% Similarity=0.564 Sum_probs=26.2
Q ss_pred CccCCCCCCCCCCCcceeeeccccCCCCc---cccccccccccc
Q 021641 44 PQEQLNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWTE 84 (309)
Q Consensus 44 p~~~~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyWT~ 84 (309)
|.-...||+|...+..|-..+-.+...|- |.|..|..-|++
T Consensus 69 p~~~~~Cp~C~~~~a~~~q~q~rsade~mt~fy~C~~C~~~w~~ 112 (113)
T 3h0g_I 69 PRSDKECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGFAFEE 112 (113)
T ss_dssp CBCCSCCSSSCCSCEEEECCCCSSCCCCCCCEEEESSSCCCCCC
T ss_pred CCcccCCCCCCCceEEEEEEecccCCCCCeeEEEcCCCCCEEec
Confidence 43447899999876544333222232222 889999999975
No 4
>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=72.87 E-value=3.1 Score=33.80 Aligned_cols=43 Identities=21% Similarity=0.593 Sum_probs=29.6
Q ss_pred CccCCCCCCCCCCCcceeeeccccCCCCc---ccccccccccccCC
Q 021641 44 PQEQLNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWTEGG 86 (309)
Q Consensus 44 p~~~~~CPRC~S~~TKfcyyNNy~~~QPR---~fCk~CrRyWT~GG 86 (309)
|.-...||+|...+.-|-..+-.+...|- |.|..|.--|+..-
T Consensus 69 p~t~~~Cp~C~~~~a~~~q~q~rsade~~t~fy~C~~C~~~w~~nn 114 (122)
T 1twf_I 69 PRSDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQ 114 (122)
T ss_dssp CCCCCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECCT
T ss_pred cccCCCCCCCCCCEEEEEEecCccCCCCceEEEEeCCCCCEeccCC
Confidence 33347899999876655444444444343 89999999998864
No 5
>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=60.62 E-value=4.7 Score=34.85 Aligned_cols=37 Identities=19% Similarity=0.650 Sum_probs=23.0
Q ss_pred CCCCCCCCCCCcceeeeccccCCCC---cccccccccccc
Q 021641 47 QLNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWT 83 (309)
Q Consensus 47 ~~~CPRC~S~~TKfcyyNNy~~~QP---R~fCk~CrRyWT 83 (309)
...||+|...+..|--.+-.+..-| -|.|..|..-|.
T Consensus 137 ~~~Cp~C~~~~a~~~q~Q~rsaDE~mt~f~~C~~C~~~w~ 176 (178)
T 3po3_S 137 RFTCGKCKEKKVSYYQLQTRSAAAPLTTFCTCEACGNRWK 176 (178)
T ss_dssp SSCCSSSCCSCEECCCCCCSCTTSCCCCCEEETTTCCEEC
T ss_pred CcCCCCCCCCceEEEEeecccCCCCCcEEEEcCCCCCeec
Confidence 4789999976544322222222222 388999999995
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=60.57 E-value=3.4 Score=38.66 Aligned_cols=35 Identities=17% Similarity=0.559 Sum_probs=25.0
Q ss_pred CCCCCCCCCCcceeeecccc-------CCCCcccccccccccc
Q 021641 48 LNCPRCNSTNTKFCYYNNYS-------LTQPRYFCKTCRRYWT 83 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~-------~~QPR~fCk~CrRyWT 83 (309)
..||.|... .++-|+.--. ...--+.|..|+.|+-
T Consensus 223 ~~C~~Cg~~-~~l~y~~~e~~~~~~~~~~~r~e~C~~C~~YlK 264 (309)
T 2fiy_A 223 IKCSHCEES-KHLAYLSLEHDGQPAEKAVLRAETCPSCQGYLK 264 (309)
T ss_dssp TSCSSSCCC-SCCEEECCCC-CCCSTTCSEEEEEETTTTEEEE
T ss_pred cCCcCCCCC-CCeeEEEecCccccCCCcceEEEEcccccchHh
Confidence 689999998 4677774433 1122389999999983
No 7
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Probab=58.65 E-value=1.8 Score=38.80 Aligned_cols=38 Identities=21% Similarity=0.573 Sum_probs=31.4
Q ss_pred CCCCCCCCCCCcceeeeccccCCCCcccccccccccccC
Q 021641 47 QLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEG 85 (309)
Q Consensus 47 ~~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~G 85 (309)
+..|+.|...=+..|+ ..|-.++....|..|++.|+..
T Consensus 193 g~~C~~C~~~~H~~C~-~~~~~~~~~~~CP~C~~~W~~~ 230 (238)
T 3nw0_A 193 GQSCETCGIRMHLPCV-AKYFQSNAEPRCPHCNDYWPHE 230 (238)
T ss_dssp CEECSSSCCEECHHHH-HHHTTTCSSCBCTTTCCBCCSC
T ss_pred CcccCccChHHHHHHH-HHHHHhCCCCCCCCCCCCCCCC
Confidence 5789999988888895 4566677788999999999875
No 8
>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=56.82 E-value=5.3 Score=37.06 Aligned_cols=37 Identities=19% Similarity=0.661 Sum_probs=23.2
Q ss_pred CCCCCCCCCCCcceeeeccccCCCC---cccccccccccc
Q 021641 47 QLNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWT 83 (309)
Q Consensus 47 ~~~CPRC~S~~TKfcyyNNy~~~QP---R~fCk~CrRyWT 83 (309)
...||+|...+..|-=.+..+...| -|.|..|..-|.
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 3789999965544322222233333 289999999985
No 9
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=56.19 E-value=2.4 Score=35.44 Aligned_cols=38 Identities=32% Similarity=0.750 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCcceeeeccccCCCC---ccccccccccccc
Q 021641 47 QLNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWTE 84 (309)
Q Consensus 47 ~~~CPRC~S~~TKfcyyNNy~~~QP---R~fCk~CrRyWT~ 84 (309)
...||+|...+..|-..+-.+...| -|.|..|.--|.+
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 4789999987665433333323222 2889999999975
No 10
>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=43.29 E-value=13 Score=26.11 Aligned_cols=40 Identities=25% Similarity=0.606 Sum_probs=29.2
Q ss_pred CCCCCCCCCCcceeeeccccCCCCcccccccccccccCCccccc
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNV 91 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~GGtlRnv 91 (309)
..|-.|...+|-. +. .-.....+|-+|.-||-..|..|-+
T Consensus 5 ~~C~~C~tt~Tp~--WR--~gp~G~~LCNaCGl~~k~~~~~RP~ 44 (46)
T 1gnf_A 5 RECVNCGATATPL--WR--RDRTGHYLCNACGLYHKMNGQNRPL 44 (46)
T ss_dssp CCCTTTCCCCCSS--CB--CCTTCCCBCSHHHHHHHHTCSCCCC
T ss_pred CCCCCcCCCCCCc--Cc--cCCCCCccchHHHHHHHHcCCCCCC
Confidence 5699999888763 21 1223348999999999999998744
No 11
>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=41.69 E-value=9 Score=34.71 Aligned_cols=28 Identities=14% Similarity=0.589 Sum_probs=20.7
Q ss_pred CCCCCCCCCCcceeeeccccCCCCccccccccc
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 80 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrR 80 (309)
.+||||...=.|.-+ . .+.-|||..|++
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 569999987766543 2 355599999985
No 12
>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=41.12 E-value=9.8 Score=34.46 Aligned_cols=28 Identities=29% Similarity=0.680 Sum_probs=21.0
Q ss_pred CCCCCCCCCCcceeeeccccCCCCccccccccc
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 80 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrR 80 (309)
.+||||...=.|.-+ ..+.-|||..||+
T Consensus 236 ~pC~~CG~~I~~~~~-----~gR~t~~CP~CQ~ 263 (266)
T 1ee8_A 236 LPCPACGRPVERRVV-----AGRGTHFCPTCQG 263 (266)
T ss_dssp SBCTTTCCBCEEEES-----SSCEEEECTTTTT
T ss_pred CCCCCCCCEeeEEEE-----CCCceEECCCCCC
Confidence 669999987666432 2356699999997
No 13
>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=40.20 E-value=9.7 Score=34.62 Aligned_cols=28 Identities=25% Similarity=0.617 Sum_probs=20.4
Q ss_pred CCCCCCCCCCcceeeeccccCCCCccccccccc
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 80 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrR 80 (309)
.+||||...=.|.-+ . .+.-|||..||+
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 579999987666432 2 355599999985
No 14
>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=40.06 E-value=9.8 Score=34.44 Aligned_cols=28 Identities=25% Similarity=0.637 Sum_probs=20.8
Q ss_pred CCCCCCCCCCcceeeeccccCCCCccccccccc
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 80 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrR 80 (309)
.+||||...=.|.-+ . .+.-|||..|++
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 669999987766442 2 355599999996
No 15
>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=38.85 E-value=8.5 Score=29.84 Aligned_cols=17 Identities=29% Similarity=1.028 Sum_probs=14.6
Q ss_pred CcccccccccccccCCc
Q 021641 71 PRYFCKTCRRYWTEGGS 87 (309)
Q Consensus 71 PR~fCk~CrRyWT~GGt 87 (309)
|||||.-|..|.|+.-.
T Consensus 2 PkYyCdYCd~~lt~Ds~ 18 (77)
T 3cw1_L 2 PKFYCDYCDTYLTHDSP 18 (77)
T ss_pred CCcccccCCceecCCCH
Confidence 89999999999987643
No 16
>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=32.25 E-value=14 Score=33.25 Aligned_cols=28 Identities=32% Similarity=0.788 Sum_probs=20.2
Q ss_pred CCCCCCCCCCcceeeeccccCCCCccccccccc
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 80 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrR 80 (309)
.+||||...=.|.- +. .+.-|||..|++
T Consensus 235 ~pC~~CG~~I~~~~-~~----gR~t~~CP~CQ~ 262 (262)
T 1k3x_A 235 EPCERCGSIIEKTT-LS----SRPFYWCPGCQH 262 (262)
T ss_dssp SBCTTTCCBCEEEE-ET----TEEEEECTTTCC
T ss_pred CCCCCCCCEeEEEE-EC----CCCeEECCCCCC
Confidence 56999998766643 22 345599999985
No 17
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=30.95 E-value=25 Score=23.86 Aligned_cols=32 Identities=25% Similarity=0.553 Sum_probs=21.8
Q ss_pred CCCCCCCCCCCcceeeeccccCCCCccccccccccccc
Q 021641 47 QLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTE 84 (309)
Q Consensus 47 ~~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~ 84 (309)
.+.||.|.+.+-.| ...+-...|..|+.-+.+
T Consensus 5 ~~~CP~C~~~~l~~------d~~~gelvC~~CG~v~~e 36 (50)
T 1pft_A 5 QKVCPACESAELIY------DPERGEIVCAKCGYVIEE 36 (50)
T ss_dssp CCSCTTTSCCCEEE------ETTTTEEEESSSCCBCCC
T ss_pred cEeCcCCCCcceEE------cCCCCeEECcccCCcccc
Confidence 37899998854332 234566999999876654
No 18
>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=30.22 E-value=36 Score=25.26 Aligned_cols=43 Identities=19% Similarity=0.477 Sum_probs=31.8
Q ss_pred CCCCCCCCCCcceeeeccccCCCCcccccccccccccCCccccccCC
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVG 94 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~GGtlRnvPvG 94 (309)
..|-.|...+|-. +- .-.....+|-+|.=||-..|..|-+.+-
T Consensus 8 ~~C~~C~tt~Tp~--WR--~gp~G~~LCNACGl~~~~~~~~RP~~~~ 50 (63)
T 3dfx_A 8 TSCANCQTTTTTL--WR--RNANGDPVCNACGLYYKLHNINRPLTMK 50 (63)
T ss_dssp CCCTTTCCSCCSS--CC--CCTTSCCCCHHHHHHHHHHSSCCCGGGC
T ss_pred CcCCCcCCCCCCc--cC--CCCCCCchhhHHHHHHHHcCCCCCcCcC
Confidence 5699999988752 21 1122338999999999999998887653
No 19
>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=27.55 E-value=38 Score=25.31 Aligned_cols=42 Identities=17% Similarity=0.507 Sum_probs=31.1
Q ss_pred CCCCCCCCCCcceeeeccccCCCCcccccccccccccCCccccccC
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPV 93 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~GGtlRnvPv 93 (309)
..|-.|.+.+|-. +=. .. .-..+|-+|.-||-.-|.+|-+..
T Consensus 10 ~~C~~C~t~~Tp~-WR~--gp-~G~~LCNaCGl~~~~~~~~RP~~~ 51 (66)
T 4gat_A 10 TTCTNCFTQTTPL-WRR--NP-EGQPLCNACGLFLKLHGVVRPLSL 51 (66)
T ss_dssp CCCTTTCCCCCSS-CEE--ET-TTEEECHHHHHHHHHHCSCCCGGG
T ss_pred CCCCCCCCCCCCc-CCc--CC-CCCCccHHHHHHHHHcCCCCchhh
Confidence 7799999988762 111 11 223899999999999999887754
No 20
>2k2d_A Ring finger and CHY zinc finger domain- containing protein 1; zinc-binding protein, cytoplasm, metal-binding, nucleus, metal binding protein; NMR {Homo sapiens}
Probab=27.10 E-value=23 Score=27.10 Aligned_cols=12 Identities=42% Similarity=0.852 Sum_probs=11.1
Q ss_pred CCCCCCCCCCcc
Q 021641 48 LNCPRCNSTNTK 59 (309)
Q Consensus 48 ~~CPRC~S~~TK 59 (309)
.+||.|.|.||+
T Consensus 56 ~kC~~C~SyNTr 67 (79)
T 2k2d_A 56 MKCKICESYNTA 67 (79)
T ss_dssp CCCTTTSCCCEE
T ss_pred ccCcCCCCcCeE
Confidence 489999999998
No 21
>2akl_A PHNA-like protein PA0128; two domains, Zn binding protein, beta-strand protein, structural genomics, PSI; NMR {Pseudomonas aeruginosa PAO1} SCOP: b.34.11.2 g.41.3.5
Probab=25.84 E-value=36 Score=29.17 Aligned_cols=31 Identities=29% Similarity=0.662 Sum_probs=24.4
Q ss_pred CCCCCCCCCCcceeeeccccCCCCcccccccccccccCC
Q 021641 48 LNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGG 86 (309)
Q Consensus 48 ~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~GG 86 (309)
.+||.|+|..|-. ...-+.|..|.-=|+...
T Consensus 28 P~CP~C~seytYe--------Dg~l~vCPeC~hEW~~~~ 58 (138)
T 2akl_A 28 PPCPQCNSEYTYE--------DGALLVCPECAHEWSPNE 58 (138)
T ss_dssp CCCTTTCCCCCEE--------CSSSEEETTTTEEECTTT
T ss_pred CCCCCCCCcceEe--------cCCeEECCccccccCCcc
Confidence 4699999987732 256799999999997554
No 22
>1dvp_A HRS, hepatocyte growth factor-regulated tyrosine kinase substrate; VHS, FYVE, zinc finger, superhelix, transferase; HET: CIT; 2.00A {Drosophila melanogaster} SCOP: a.118.9.2 g.50.1.1
Probab=24.51 E-value=39 Score=29.10 Aligned_cols=37 Identities=19% Similarity=0.550 Sum_probs=23.7
Q ss_pred ccCCCCccCCCCCCCCCCCcceeeeccccCCCCccccccccccccc
Q 021641 39 ERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTE 84 (309)
Q Consensus 39 er~~~p~~~~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~ 84 (309)
++++.-.+...|+.|.. +|- ...-||-|+.|.+-.=.
T Consensus 153 ~~~~~W~~~~~C~~C~~---~F~------~~~rrhhCr~CG~v~C~ 189 (220)
T 1dvp_A 153 DTAPNWADGRVCHRCRV---EFT------FTNRKHHCRNCGQVFCG 189 (220)
T ss_dssp SCCCCCCCCSBCTTTCC---BCC------SSSCCEECTTTCCEECS
T ss_pred cccccCCCCCccCCCCC---ccC------CcccccccCCcCCEECh
Confidence 33343344578999964 453 44788999998775444
No 23
>2gmg_A Hypothetical protein PF0610; winged-helix like protein with metal binding site, structura genomics, PSI, protein structure initiative; NMR {Pyrococcus furiosus} SCOP: a.4.5.82
Probab=23.24 E-value=43 Score=27.32 Aligned_cols=12 Identities=33% Similarity=0.872 Sum_probs=8.9
Q ss_pred CCCCCCCCCCcc
Q 021641 48 LNCPRCNSTNTK 59 (309)
Q Consensus 48 ~~CPRC~S~~TK 59 (309)
..||+|.|.+..
T Consensus 85 srCP~CkSe~Ie 96 (105)
T 2gmg_A 85 SRCPKCKSEWIE 96 (105)
T ss_dssp SSCSSSCCCCBC
T ss_pred CCCcCCCCCccC
Confidence 568888887765
No 24
>2pk7_A Uncharacterized protein; NESG, PLR1, putative tetraacyldisaccharide-1-P 4-kinase, Q4K structural genomics, PSI-2; 2.20A {Pseudomonas fluorescens} SCOP: b.171.1.1
Probab=21.73 E-value=41 Score=25.15 Aligned_cols=29 Identities=21% Similarity=0.356 Sum_probs=19.8
Q ss_pred CCCCCCCCCCCcceeeeccccCCCCccccccccccc
Q 021641 47 QLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYW 82 (309)
Q Consensus 47 ~~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyW 82 (309)
.+.||.|...- - | ........|+.|++-+
T Consensus 8 iL~CP~ck~~L---~-~---~~~~~~LiC~~cg~~Y 36 (69)
T 2pk7_A 8 ILACPICKGPL---K-L---SADKTELISKGAGLAY 36 (69)
T ss_dssp TCCCTTTCCCC---E-E---CTTSSEEEETTTTEEE
T ss_pred heeCCCCCCcC---e-E---eCCCCEEEcCCCCcEe
Confidence 38899999642 2 2 3345678999998654
No 25
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1
Probab=21.71 E-value=32 Score=25.65 Aligned_cols=29 Identities=14% Similarity=0.270 Sum_probs=19.9
Q ss_pred CCCCCCCCCCCcceeeeccccCCCCccccccccccc
Q 021641 47 QLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYW 82 (309)
Q Consensus 47 ~~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyW 82 (309)
.+.||.|... .-| ....-...|+.|++-+
T Consensus 10 iL~CP~ck~~---L~~----~~~~g~LvC~~c~~~Y 38 (67)
T 2jny_A 10 VLACPKDKGP---LRY----LESEQLLVNERLNLAY 38 (67)
T ss_dssp CCBCTTTCCB---CEE----ETTTTEEEETTTTEEE
T ss_pred HhCCCCCCCc---CeE----eCCCCEEEcCCCCccc
Confidence 3899999983 222 2345678999998754
No 26
>3zyq_A Hepatocyte growth factor-regulated tyrosine kinas substrate; signaling; 1.48A {Homo sapiens} PDB: 4avx_A*
Probab=21.68 E-value=52 Score=28.76 Aligned_cols=39 Identities=21% Similarity=0.524 Sum_probs=24.6
Q ss_pred cccCCCCccCCCCCCCCCCCcceeeeccccCCCCcccccccccccccC
Q 021641 38 LERKARPQEQLNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEG 85 (309)
Q Consensus 38 ~er~~~p~~~~~CPRC~S~~TKfcyyNNy~~~QPR~fCk~CrRyWT~G 85 (309)
.++.+.-.+...|..|.. +|- ...-||-|+.|.+-.=..
T Consensus 155 ~~~~p~W~~~~~C~~C~~---~F~------~~~RrhHCR~CG~v~C~~ 193 (226)
T 3zyq_A 155 AERAPDWVDAEECHRCRV---QFG------VMTRKHHCRACGQIFCGK 193 (226)
T ss_dssp CCCCCCCCCCSBCTTTCC---BCB------TTBCCEECTTTCCEECTT
T ss_pred cccccccccCCCCcCcCC---CCC------ccccccccCCCcCEeChh
Confidence 344444445578999974 443 336789898887765443
Done!