Query 023228
Match_columns 285
No_of_seqs 150 out of 263
Neff 3.3
Searched_HMMs 29240
Date Mon Mar 25 03:16:23 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/023228.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/023228hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1tfi_A Transcriptional elongat 79.3 1.1 3.8E-05 31.4 2.4 37 43-79 9-48 (50)
2 1qyp_A RNA polymerase II; tran 78.8 1.1 3.9E-05 31.3 2.4 38 43-80 15-55 (57)
3 3h0g_I DNA-directed RNA polyme 68.1 2.5 8.7E-05 33.5 2.2 37 44-80 73-112 (113)
4 1twf_I B12.6, DNA-directed RNA 61.0 4.5 0.00015 32.5 2.4 41 43-83 72-115 (122)
5 2fiy_A Protein FDHE homolog; F 59.4 3.6 0.00012 38.2 1.8 35 43-78 222-263 (309)
6 3po3_S Transcription elongatio 53.8 5.1 0.00018 34.3 1.7 37 43-79 137-176 (178)
7 1pqv_S STP-alpha, transcriptio 50.5 6.7 0.00023 36.0 2.0 37 43-79 268-307 (309)
8 3qt1_I DNA-directed RNA polyme 45.6 4.4 0.00015 33.4 0.0 38 43-80 92-132 (133)
9 3nw0_A Non-structural maintena 43.1 3.9 0.00013 36.2 -0.7 38 43-81 193-230 (238)
10 3cw1_L U1 small nuclear ribonu 40.5 7.1 0.00024 29.9 0.5 17 67-83 2-18 (77)
11 1ee8_A MUTM (FPG) protein; bet 38.0 11 0.00037 33.8 1.3 29 43-76 235-263 (266)
12 1k82_A Formamidopyrimidine-DNA 37.9 10 0.00034 34.0 1.1 29 43-76 240-268 (268)
13 3u6p_A Formamidopyrimidine-DNA 36.6 11 0.00037 33.9 1.1 29 43-76 245-273 (273)
14 2xzf_A Formamidopyrimidine-DNA 35.8 11 0.00039 33.7 1.1 29 43-76 242-270 (271)
15 4gat_A Nitrogen regulatory pro 35.8 26 0.0009 25.9 2.9 45 41-89 7-51 (66)
16 1gnf_A Transcription factor GA 35.2 16 0.00054 25.3 1.5 42 42-87 3-44 (46)
17 2kae_A GATA-type transcription 33.6 2.9 0.0001 31.6 -2.6 50 38-90 3-52 (71)
18 3dfx_A Trans-acting T-cell-spe 31.6 27 0.00094 25.6 2.4 45 41-89 5-49 (63)
19 2k2d_A Ring finger and CHY zin 31.0 17 0.0006 27.4 1.3 13 43-55 55-67 (79)
20 1k3x_A Endonuclease VIII; hydr 29.6 15 0.00051 32.8 0.8 29 43-76 234-262 (262)
21 1pft_A TFIIB, PFTFIIBN; N-term 29.4 27 0.00093 23.3 1.9 33 42-80 4-36 (50)
22 2pk7_A Uncharacterized protein 26.4 28 0.00094 25.8 1.6 31 41-78 6-36 (69)
23 2gmg_A Hypothetical protein PF 25.4 25 0.00087 28.4 1.4 12 44-55 85-96 (105)
24 4hc9_A Trans-acting T-cell-spe 25.3 40 0.0014 27.0 2.5 49 37-89 53-101 (115)
25 2jny_A Uncharacterized BCR; st 24.9 23 0.0008 26.1 1.0 31 41-78 8-38 (67)
26 2jr6_A UPF0434 protein NMA0874 22.3 28 0.00097 25.6 1.0 31 41-78 6-36 (68)
27 2hf1_A Tetraacyldisaccharide-1 20.6 28 0.00096 25.7 0.7 30 42-78 7-36 (68)
No 1
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=79.28 E-value=1.1 Score=31.42 Aligned_cols=37 Identities=22% Similarity=0.668 Sum_probs=28.0
Q ss_pred cCCCCCCCCCCcceeeecccCCCCCc---hhhhccccccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWT 79 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QPR---~fCk~CrRyWT 79 (285)
...||+|...+..|=-.+..+...|- |.|..|..-|.
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 46899999887776666665555553 89999998885
No 2
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=78.78 E-value=1.1 Score=31.27 Aligned_cols=38 Identities=21% Similarity=0.684 Sum_probs=25.9
Q ss_pred cCCCCCCCCCCcceeeecccCCCCC---chhhhcccccccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWTE 80 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QP---R~fCk~CrRyWT~ 80 (285)
..+||+|...+..|--.+-.+...| .|.|..|.--|+.
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 4789999984444433333344444 3999999999976
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=68.13 E-value=2.5 Score=33.51 Aligned_cols=37 Identities=24% Similarity=0.533 Sum_probs=24.7
Q ss_pred CCCCCCCCCCcceeeecccCCCCCc---hhhhcccccccc
Q 023228 44 LNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWTE 80 (285)
Q Consensus 44 ~~CPRC~S~~TkfcyyNNy~~~QPR---~fCk~CrRyWT~ 80 (285)
.+||+|...+..|-..+-.+...|- |.|..|.--|++
T Consensus 73 ~~Cp~C~~~~a~~~q~q~rsade~mt~fy~C~~C~~~w~~ 112 (113)
T 3h0g_I 73 KECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGFAFEE 112 (113)
T ss_dssp SCCSSSCCSCEEEECCCCSSCCCCCCCEEEESSSCCCCCC
T ss_pred cCCCCCCCceEEEEEEecccCCCCCeeEEEcCCCCCEEec
Confidence 7899999876544333333333232 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=61.02 E-value=4.5 Score=32.45 Aligned_cols=41 Identities=20% Similarity=0.537 Sum_probs=29.1
Q ss_pred cCCCCCCCCCCcceeeecccCCCCCc---hhhhccccccccCCc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQPR---YFCKTCRRYWTEGGS 83 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QPR---~fCk~CrRyWT~GG~ 83 (285)
...||+|...+.-|--.+-.+...|- |.|..|.--|+..-.
T Consensus 72 ~~~Cp~C~~~~a~~~q~q~rsade~~t~fy~C~~C~~~w~~nn~ 115 (122)
T 1twf_I 72 DRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQK 115 (122)
T ss_dssp CCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECCTT
T ss_pred CCCCCCCCCCEEEEEEecCccCCCCceEEEEeCCCCCEeccCCh
Confidence 37899999876555444444444443 899999999988643
No 5
>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=59.41 E-value=3.6 Score=38.16 Aligned_cols=35 Identities=17% Similarity=0.552 Sum_probs=25.2
Q ss_pred cCCCCCCCCCCcceeeecccC-------CCCCchhhhcccccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYS-------LTQPRYFCKTCRRYW 78 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~-------~~QPR~fCk~CrRyW 78 (285)
...||.|.++ .++-|+.--. ...--+.|..|+.|+
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 4789999998 4677775443 122238999999998
No 6
>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=53.80 E-value=5.1 Score=34.27 Aligned_cols=37 Identities=19% Similarity=0.631 Sum_probs=23.1
Q ss_pred cCCCCCCCCCCcceeeecccCCCCC---chhhhccccccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWT 79 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QP---R~fCk~CrRyWT 79 (285)
...||+|...+..|--.+-.+..-| -|.|..|..-|.
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 4689999976544322222222222 388999999995
No 7
>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=50.51 E-value=6.7 Score=36.01 Aligned_cols=37 Identities=19% Similarity=0.643 Sum_probs=23.2
Q ss_pred cCCCCCCCCCCcceeeecccCCCCC---chhhhccccccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWT 79 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QP---R~fCk~CrRyWT 79 (285)
...||+|...+..|-=.+..+...| -|.|..|..-|.
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 4689999965544322222333333 289999999885
No 8
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=45.57 E-value=4.4 Score=33.45 Aligned_cols=38 Identities=32% Similarity=0.739 Sum_probs=0.0
Q ss_pred cCCCCCCCCCCcceeeecccCCCCC---chhhhcccccccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQP---RYFCKTCRRYWTE 80 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QP---R~fCk~CrRyWT~ 80 (285)
...||+|...+..|=..+-.+...| -|.|..|.--|++
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 3789999987665433333333323 2889999999975
No 9
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Probab=43.09 E-value=3.9 Score=36.23 Aligned_cols=38 Identities=21% Similarity=0.570 Sum_probs=30.2
Q ss_pred cCCCCCCCCCCcceeeecccCCCCCchhhhccccccccC
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEG 81 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyWT~G 81 (285)
+..|+.|...=+..|+.+ |-.++....|..|++.|+..
T Consensus 193 g~~C~~C~~~~H~~C~~~-~~~~~~~~~CP~C~~~W~~~ 230 (238)
T 3nw0_A 193 GQSCETCGIRMHLPCVAK-YFQSNAEPRCPHCNDYWPHE 230 (238)
T ss_dssp CEECSSSCCEECHHHHHH-HTTTCSSCBCTTTCCBCCSC
T ss_pred CcccCccChHHHHHHHHH-HHHhCCCCCCCCCCCCCCCC
Confidence 477888988888888855 44456778899999999875
No 10
>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=40.51 E-value=7.1 Score=29.94 Aligned_cols=17 Identities=29% Similarity=1.028 Sum_probs=14.6
Q ss_pred CchhhhccccccccCCc
Q 023228 67 PRYFCKTCRRYWTEGGS 83 (285)
Q Consensus 67 PR~fCk~CrRyWT~GG~ 83 (285)
|||||+-|..|.|+.-.
T Consensus 2 PkYyCdYCd~~lt~Ds~ 18 (77)
T 3cw1_L 2 PKFYCDYCDTYLTHDSP 18 (77)
T ss_pred CCcccccCCceecCCCH
Confidence 89999999999987643
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=37.98 E-value=11 Score=33.83 Aligned_cols=29 Identities=28% Similarity=0.662 Sum_probs=21.4
Q ss_pred cCCCCCCCCCCcceeeecccCCCCCchhhhcccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 76 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrR 76 (285)
..+||||...=.|.-+ -.+.-|||..|++
T Consensus 235 g~pC~~CG~~I~~~~~-----~gR~t~~CP~CQ~ 263 (266)
T 1ee8_A 235 GLPCPACGRPVERRVV-----AGRGTHFCPTCQG 263 (266)
T ss_dssp TSBCTTTCCBCEEEES-----SSCEEEECTTTTT
T ss_pred CCCCCCCCCEeeEEEE-----CCCceEECCCCCC
Confidence 3689999987665433 2356699999997
No 12
>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=37.92 E-value=10 Score=34.02 Aligned_cols=29 Identities=14% Similarity=0.574 Sum_probs=21.1
Q ss_pred cCCCCCCCCCCcceeeecccCCCCCchhhhcccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 76 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrR 76 (285)
..+||||...=.|.-+ . .+.-|||..|++
T Consensus 240 g~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 268 (268)
T 1k82_A 240 GEPCRVCGTPIVATKH-A----QRATFYCRQCQK 268 (268)
T ss_dssp TSBCTTTCCBCEEEEE-T----TEEEEECTTTCC
T ss_pred CCCCCCCCCEeeEEEE-C----CCceEECCCCCC
Confidence 3689999987666544 2 355599999985
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=36.55 E-value=11 Score=33.94 Aligned_cols=29 Identities=24% Similarity=0.602 Sum_probs=20.8
Q ss_pred cCCCCCCCCCCcceeeecccCCCCCchhhhcccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 76 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrR 76 (285)
..+||||...=.|.-+ . .+.-|||..|++
T Consensus 245 g~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 273 (273)
T 3u6p_A 245 GNPCKRCGTPIEKTVV-A----GRGTHYCPRCQR 273 (273)
T ss_dssp TSBCTTTCCBCEEEEE-T----TEEEEECTTTCC
T ss_pred cCCCCCCCCeEEEEEE-C----CCCeEECCCCCC
Confidence 3689999987665433 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=35.78 E-value=11 Score=33.66 Aligned_cols=29 Identities=24% Similarity=0.621 Sum_probs=21.2
Q ss_pred cCCCCCCCCCCcceeeecccCCCCCchhhhcccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 76 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrR 76 (285)
..+||||...=.|.-+ . .+.-|||..|++
T Consensus 242 G~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 270 (271)
T 2xzf_A 242 GEKCSRCGAEIQKIKV-A----GRGTHFCPVCQQ 270 (271)
T ss_dssp TSBCTTTCCBCEEEEE-T----TEEEEECTTTSC
T ss_pred CCCCCCCCCEeeEEEE-C----CCceEECCCCCC
Confidence 3689999987666443 2 355599999986
No 15
>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=35.78 E-value=26 Score=25.86 Aligned_cols=45 Identities=18% Similarity=0.504 Sum_probs=32.2
Q ss_pred cccCCCCCCCCCCcceeeecccCCCCCchhhhccccccccCCccccccC
Q 023228 41 EQALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNIPV 89 (285)
Q Consensus 41 ~~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyWT~GG~lRnvPv 89 (285)
.....|-.|.+.+|-- .=.. . .-..+|-+|.-||-.-|.+|-+-.
T Consensus 7 ~~~~~C~~C~t~~Tp~-WR~g--p-~G~~LCNaCGl~~~~~~~~RP~~~ 51 (66)
T 4gat_A 7 NGPTTCTNCFTQTTPL-WRRN--P-EGQPLCNACGLFLKLHGVVRPLSL 51 (66)
T ss_dssp SSSCCCTTTCCCCCSS-CEEE--T-TTEEECHHHHHHHHHHCSCCCGGG
T ss_pred CCCCCCCCCCCCCCCc-CCcC--C-CCCCccHHHHHHHHHcCCCCchhh
Confidence 4568999999988751 1111 1 222899999999999999876644
No 16
>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=35.19 E-value=16 Score=25.34 Aligned_cols=42 Identities=26% Similarity=0.631 Sum_probs=29.6
Q ss_pred ccCCCCCCCCCCcceeeecccCCCCCchhhhccccccccCCccccc
Q 023228 42 QALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNI 87 (285)
Q Consensus 42 ~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyWT~GG~lRnv 87 (285)
+...|-.|...+|-. +-.- .....+|-+|.-||-..|..|-+
T Consensus 3 ~~~~C~~C~tt~Tp~--WR~g--p~G~~LCNaCGl~~k~~~~~RP~ 44 (46)
T 1gnf_A 3 EARECVNCGATATPL--WRRD--RTGHYLCNACGLYHKMNGQNRPL 44 (46)
T ss_dssp CSCCCTTTCCCCCSS--CBCC--TTCCCBCSHHHHHHHHTCSCCCC
T ss_pred CCCCCCCcCCCCCCc--CccC--CCCCccchHHHHHHHHcCCCCCC
Confidence 356799999887752 1111 12238999999999999987643
No 17
>2kae_A GATA-type transcription factor; zinc finger, GATA-type, DNA; NMR {Caenorhabditis elegans}
Probab=33.64 E-value=2.9 Score=31.56 Aligned_cols=50 Identities=18% Similarity=0.380 Sum_probs=32.8
Q ss_pred CCccccCCCCCCCCCCcceeeecccCCCCCchhhhccccccccCCccccccCC
Q 023228 38 PQKEQALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNIPVG 90 (285)
Q Consensus 38 p~~~~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyWT~GG~lRnvPvG 90 (285)
+..+....|-.|.+++|- .+-.-..... .+|-+|.=||-..|+.|-+..-
T Consensus 3 ~~~~~~~~C~nC~tt~Tp--~WRrg~~~~g-~LCNACGl~~~~~~~~RP~~~~ 52 (71)
T 2kae_A 3 HMNKKSFQCSNCSVTETI--RWRNIRSKEG-IQCNACFIYQRKYNKTRPVTAV 52 (71)
T ss_dssp -----CCCCSSSCCSCCS--SCCCCSSSSC-CCSSHHHHHHHHHHSCCCTHHH
T ss_pred CCCCCCCcCCccCCCCCC--ccccCCCCCC-ccchHHHHHHHHhCCCCCcccc
Confidence 345567899999999885 2322111222 8999999999999998876543
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=31.64 E-value=27 Score=25.63 Aligned_cols=45 Identities=18% Similarity=0.492 Sum_probs=32.4
Q ss_pred cccCCCCCCCCCCcceeeecccCCCCCchhhhccccccccCCccccccC
Q 023228 41 EQALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNIPV 89 (285)
Q Consensus 41 ~~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyWT~GG~lRnvPv 89 (285)
.....|-.|..++|-. +-.- .....+|-+|.=||-..|..|-+.+
T Consensus 5 ~~~~~C~~C~tt~Tp~--WR~g--p~G~~LCNACGl~~~~~~~~RP~~~ 49 (63)
T 3dfx_A 5 RAGTSCANCQTTTTTL--WRRN--ANGDPVCNACGLYYKLHNINRPLTM 49 (63)
T ss_dssp CTTCCCTTTCCSCCSS--CCCC--TTSCCCCHHHHHHHHHHSSCCCGGG
T ss_pred CCCCcCCCcCCCCCCc--cCCC--CCCCchhhHHHHHHHHcCCCCCcCc
Confidence 3457899999987752 1111 1223899999999999999887765
No 19
>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=31.03 E-value=17 Score=27.43 Aligned_cols=13 Identities=38% Similarity=0.800 Sum_probs=11.5
Q ss_pred cCCCCCCCCCCcc
Q 023228 43 ALNCPRCNSTNTK 55 (285)
Q Consensus 43 ~~~CPRC~S~~Tk 55 (285)
..+||.|.|.||+
T Consensus 55 g~kC~~C~SyNTr 67 (79)
T 2k2d_A 55 GMKCKICESYNTA 67 (79)
T ss_dssp CCCCTTTSCCCEE
T ss_pred cccCcCCCCcCeE
Confidence 3489999999998
No 20
>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=29.65 E-value=15 Score=32.77 Aligned_cols=29 Identities=31% Similarity=0.766 Sum_probs=20.3
Q ss_pred cCCCCCCCCCCcceeeecccCCCCCchhhhcccc
Q 023228 43 ALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRR 76 (285)
Q Consensus 43 ~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrR 76 (285)
..+||+|...=.|.-+ . .+.-|||..|++
T Consensus 234 g~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 262 (262)
T 1k3x_A 234 GEPCERCGSIIEKTTL-S----SRPFYWCPGCQH 262 (262)
T ss_dssp TSBCTTTCCBCEEEEE-T----TEEEEECTTTCC
T ss_pred cCCCCCCCCEeEEEEE-C----CCCeEECCCCCC
Confidence 3579999987655433 2 345599999985
No 21
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=29.39 E-value=27 Score=23.35 Aligned_cols=33 Identities=21% Similarity=0.522 Sum_probs=22.2
Q ss_pred ccCCCCCCCCCCcceeeecccCCCCCchhhhcccccccc
Q 023228 42 QALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTE 80 (285)
Q Consensus 42 ~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyWT~ 80 (285)
..+.||.|.+.+-.| ...+-...|..|..-+..
T Consensus 4 ~~~~CP~C~~~~l~~------d~~~gelvC~~CG~v~~e 36 (50)
T 1pft_A 4 KQKVCPACESAELIY------DPERGEIVCAKCGYVIEE 36 (50)
T ss_dssp SCCSCTTTSCCCEEE------ETTTTEEEESSSCCBCCC
T ss_pred ccEeCcCCCCcceEE------cCCCCeEECcccCCcccc
Confidence 457899998854332 223556999999776654
No 22
>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=26.44 E-value=28 Score=25.80 Aligned_cols=31 Identities=19% Similarity=0.356 Sum_probs=20.9
Q ss_pred cccCCCCCCCCCCcceeeecccCCCCCchhhhcccccc
Q 023228 41 EQALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYW 78 (285)
Q Consensus 41 ~~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyW 78 (285)
-+.+.||.|...-+ |........|+.|++-+
T Consensus 6 LeiL~CP~ck~~L~-------~~~~~~~LiC~~cg~~Y 36 (69)
T 2pk7_A 6 LDILACPICKGPLK-------LSADKTELISKGAGLAY 36 (69)
T ss_dssp GGTCCCTTTCCCCE-------ECTTSSEEEETTTTEEE
T ss_pred HhheeCCCCCCcCe-------EeCCCCEEEcCCCCcEe
Confidence 35689999996422 22335668899997654
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=25.39 E-value=25 Score=28.38 Aligned_cols=12 Identities=33% Similarity=0.872 Sum_probs=7.6
Q ss_pred CCCCCCCCCCcc
Q 023228 44 LNCPRCNSTNTK 55 (285)
Q Consensus 44 ~~CPRC~S~~Tk 55 (285)
-.||+|.|.+..
T Consensus 85 srCP~CkSe~Ie 96 (105)
T 2gmg_A 85 SRCPKCKSEWIE 96 (105)
T ss_dssp SSCSSSCCCCBC
T ss_pred CCCcCCCCCccC
Confidence 567777766654
No 24
>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=25.26 E-value=40 Score=27.00 Aligned_cols=49 Identities=16% Similarity=0.459 Sum_probs=35.6
Q ss_pred CCCccccCCCCCCCCCCcceeeecccCCCCCchhhhccccccccCCccccccC
Q 023228 37 RPQKEQALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNIPV 89 (285)
Q Consensus 37 ~p~~~~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyWT~GG~lRnvPv 89 (285)
.+.+.....|-.|....|-- .-. -...+.+|-+|.-||..-|..|-+-+
T Consensus 53 ~~~~~~~~~C~~C~t~~tp~--WRr--~~~g~~lCNaCgl~~~~~~~~rp~~~ 101 (115)
T 4hc9_A 53 SAARRAGTSCANCQTTTTTL--WRR--NANGDPVCNACGLYYKLHNINRPLTM 101 (115)
T ss_dssp CCCCCTTCCCTTTCCSCCSS--CEE--CTTSCEECHHHHHHHHHHSSCCCGGG
T ss_pred cccccccccCCCcCCCCcce--eEE--CCCCCCcchHHHHHHHHhCCCCCccc
Confidence 34445679999999988742 111 12336899999999999999887765
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=24.88 E-value=23 Score=26.13 Aligned_cols=31 Identities=13% Similarity=0.259 Sum_probs=20.8
Q ss_pred cccCCCCCCCCCCcceeeecccCCCCCchhhhcccccc
Q 023228 41 EQALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYW 78 (285)
Q Consensus 41 ~~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyW 78 (285)
-+.+.||.|... .-| ....-...|+.|++-+
T Consensus 8 LeiL~CP~ck~~---L~~----~~~~g~LvC~~c~~~Y 38 (67)
T 2jny_A 8 LEVLACPKDKGP---LRY----LESEQLLVNERLNLAY 38 (67)
T ss_dssp TCCCBCTTTCCB---CEE----ETTTTEEEETTTTEEE
T ss_pred HHHhCCCCCCCc---CeE----eCCCCEEEcCCCCccc
Confidence 356899999983 222 2235668899997654
No 26
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}
Probab=22.27 E-value=28 Score=25.65 Aligned_cols=31 Identities=13% Similarity=0.353 Sum_probs=20.6
Q ss_pred cccCCCCCCCCCCcceeeecccCCCCCchhhhcccccc
Q 023228 41 EQALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYW 78 (285)
Q Consensus 41 ~~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyW 78 (285)
-+.+.||.|... .-| ........|+.|++-+
T Consensus 6 L~iL~CP~ck~~---L~~----~~~~~~LiC~~cg~~Y 36 (68)
T 2jr6_A 6 LDILVCPVTKGR---LEY----HQDKQELWSRQAKLAY 36 (68)
T ss_dssp SCCCBCSSSCCB---CEE----ETTTTEEEETTTTEEE
T ss_pred hhheECCCCCCc---CeE----eCCCCEEEcCCCCcEe
Confidence 356899999963 222 2234668899997654
No 27
>2hf1_A Tetraacyldisaccharide-1-P 4-kinase; LPXK, lipid A biosynthes structural genomics, PSI-2, protein structure initiative; 1.90A {Chromobacterium violaceum} SCOP: b.171.1.1
Probab=20.58 E-value=28 Score=25.68 Aligned_cols=30 Identities=23% Similarity=0.621 Sum_probs=20.1
Q ss_pred ccCCCCCCCCCCcceeeecccCCCCCchhhhcccccc
Q 023228 42 QALNCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYW 78 (285)
Q Consensus 42 ~~~~CPRC~S~~TkfcyyNNy~~~QPR~fCk~CrRyW 78 (285)
+.+.||.|... .-| ........|+.|++-+
T Consensus 7 ~iL~CP~ck~~---L~~----~~~~~~LiC~~cg~~Y 36 (68)
T 2hf1_A 7 EILVCPLCKGP---LVF----DKSKDELICKGDRLAF 36 (68)
T ss_dssp EECBCTTTCCB---CEE----ETTTTEEEETTTTEEE
T ss_pred hheECCCCCCc---CeE----eCCCCEEEcCCCCcEe
Confidence 56899999963 222 2235668899997654
Done!