Query 047290
Match_columns 172
No_of_seqs 129 out of 201
Neff 2.5
Searched_HMMs 29240
Date Mon Mar 25 16:49:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047290.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/047290hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1tfi_A Transcriptional elongat 87.3 0.47 1.6E-05 30.9 3.0 38 46-83 8-48 (50)
2 1qyp_A RNA polymerase II; tran 85.5 0.48 1.6E-05 30.6 2.3 41 44-84 12-55 (57)
3 3h0g_I DNA-directed RNA polyme 83.4 1.2 4.2E-05 32.5 4.0 41 44-84 69-112 (113)
4 1twf_I B12.6, DNA-directed RNA 72.7 3.3 0.00011 30.6 3.5 43 44-86 69-114 (122)
5 3po3_S Transcription elongatio 68.4 3.1 0.00011 32.7 2.8 39 45-83 135-176 (178)
6 2fiy_A Protein FDHE homolog; F 61.6 3.2 0.00011 35.4 1.7 36 46-82 221-263 (309)
7 1pqv_S STP-alpha, transcriptio 60.5 4.6 0.00016 34.0 2.5 37 47-83 268-307 (309)
8 1k82_A Formamidopyrimidine-DNA 58.9 3.5 0.00012 33.9 1.4 29 47-80 240-268 (268)
9 3u6p_A Formamidopyrimidine-DNA 57.6 3.8 0.00013 33.9 1.4 30 46-80 244-273 (273)
10 1ee8_A MUTM (FPG) protein; bet 57.2 3.8 0.00013 33.8 1.4 29 47-80 235-263 (266)
11 2xzf_A Formamidopyrimidine-DNA 57.2 3.8 0.00013 33.7 1.4 29 47-80 242-270 (271)
12 3qt1_I DNA-directed RNA polyme 55.2 2.5 8.6E-05 32.2 0.0 41 44-84 89-132 (133)
13 2gmg_A Hypothetical protein PF 51.5 8 0.00027 29.1 2.2 18 42-59 79-96 (105)
14 1k3x_A Endonuclease VIII; hydr 50.3 5.1 0.00017 32.8 1.1 29 47-80 234-262 (262)
15 3nw0_A Non-structural maintena 43.0 5.4 0.00019 32.4 0.2 38 47-85 193-230 (238)
16 1gnf_A Transcription factor GA 42.1 18 0.00061 23.3 2.5 42 46-91 3-44 (46)
17 3cw1_L U1 small nuclear ribonu 36.4 10 0.00035 27.0 0.8 17 71-87 2-18 (77)
18 2k2d_A Ring finger and CHY zin 35.8 14 0.00048 25.9 1.3 13 47-59 55-67 (79)
19 1pft_A TFIIB, PFTFIIBN; N-term 33.8 20 0.00068 22.1 1.7 32 46-83 4-35 (50)
20 4gat_A Nitrogen regulatory pro 32.3 33 0.0011 23.5 2.7 46 44-93 6-51 (66)
21 2jny_A Uncharacterized BCR; st 30.9 17 0.00059 24.9 1.1 31 45-82 8-38 (67)
22 1wd2_A Ariadne-1 protein homol 30.4 37 0.0013 22.3 2.7 42 46-87 5-49 (60)
23 1k81_A EIF-2-beta, probable tr 29.9 18 0.00061 21.9 1.0 31 48-82 1-31 (36)
24 3dfx_A Trans-acting T-cell-spe 29.8 43 0.0015 22.8 2.9 45 45-93 5-49 (63)
25 2pk7_A Uncharacterized protein 29.6 22 0.00074 24.4 1.4 31 45-82 6-36 (69)
26 2kdx_A HYPA, hydrogenase/ureas 27.5 33 0.0011 24.6 2.2 17 45-61 87-104 (119)
27 2jr6_A UPF0434 protein NMA0874 27.2 22 0.00075 24.3 1.1 31 45-82 6-36 (68)
28 2kpi_A Uncharacterized protein 27.0 32 0.0011 22.5 1.9 30 44-82 7-38 (56)
29 2hf1_A Tetraacyldisaccharide-1 23.9 22 0.00075 24.3 0.6 30 46-82 7-36 (68)
30 2js4_A UPF0434 protein BB2007; 23.5 22 0.00076 24.4 0.6 32 45-83 6-37 (70)
31 2con_A RUH-035 protein, NIN on 22.7 27 0.00092 24.8 0.9 35 46-95 14-48 (79)
32 1nui_A DNA primase/helicase; z 22.6 42 0.0015 26.2 2.1 30 46-81 13-42 (255)
33 2kae_A GATA-type transcription 21.9 32 0.0011 23.9 1.2 47 44-93 5-51 (71)
34 4hc9_A Trans-acting T-cell-spe 20.3 63 0.0022 23.8 2.6 45 45-93 57-101 (115)
No 1
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=87.35 E-value=0.47 Score=30.92 Aligned_cols=38 Identities=18% Similarity=0.676 Sum_probs=29.8
Q ss_pred CcccCCCCCCCCceeeEeccccCCCCC---ccccccccccc
Q 047290 46 KIIPCPRCKSMETKFCYFNNYNVNQPR---HFCKGCQRYWT 83 (172)
Q Consensus 46 ~~~~CPRC~S~~TKFcYyNNyn~~QPR---hfCksCrRYWT 83 (172)
....||+|...+.-|--.+..+...|- |.|.+|.--|.
T Consensus 8 ~~~~Cp~Cg~~~a~f~q~Q~RsaDE~mT~Fy~C~~Cg~~w~ 48 (50)
T 1tfi_A 8 DLFTCGKCKKKNCTYTQVQTRSADEPMTTFVVCNECGNRWK 48 (50)
T ss_dssp CCSCCSSSCSSCEEEEEECSSSSSSCCEEEEEESSSCCEEE
T ss_pred CccCCCCCCCCEEEEEEecCcCCCCCceEEEEcCCCCCeEE
Confidence 456899999988877776666666664 89999998885
No 2
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=85.52 E-value=0.48 Score=30.65 Aligned_cols=41 Identities=22% Similarity=0.595 Sum_probs=27.3
Q ss_pred CCCcccCCCCCCCCceeeEeccccCCCC---Ccccccccccccc
Q 047290 44 PDKIIPCPRCKSMETKFCYFNNYNVNQP---RHFCKGCQRYWTA 84 (172)
Q Consensus 44 p~~~~~CPRC~S~~TKFcYyNNyn~~QP---RhfCksCrRYWT~ 84 (172)
|....+||.|...+..|--.+-.+...| .|.|..|.--|+.
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 3335789999984444444443344445 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=83.39 E-value=1.2 Score=32.51 Aligned_cols=41 Identities=22% Similarity=0.417 Sum_probs=27.3
Q ss_pred CCCcccCCCCCCCCceeeEeccccCCCCC---cccccccccccc
Q 047290 44 PDKIIPCPRCKSMETKFCYFNNYNVNQPR---HFCKGCQRYWTA 84 (172)
Q Consensus 44 p~~~~~CPRC~S~~TKFcYyNNyn~~QPR---hfCksCrRYWT~ 84 (172)
|....+||+|...+..|-..+-.+...|- |.|..|.--|+.
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 44448999999877554433333333332 889999999974
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=72.68 E-value=3.3 Score=30.59 Aligned_cols=43 Identities=23% Similarity=0.512 Sum_probs=30.9
Q ss_pred CCCcccCCCCCCCCceeeEeccccCCCCC---ccccccccccccCc
Q 047290 44 PDKIIPCPRCKSMETKFCYFNNYNVNQPR---HFCKGCQRYWTAGG 86 (172)
Q Consensus 44 p~~~~~CPRC~S~~TKFcYyNNyn~~QPR---hfCksCrRYWT~GG 86 (172)
|-....||+|...+.-|--.+-.+-..|- |.|.+|.--|+..-
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 33457899999877665555555554443 89999999998753
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=68.41 E-value=3.1 Score=32.75 Aligned_cols=39 Identities=18% Similarity=0.588 Sum_probs=25.0
Q ss_pred CCcccCCCCCCCCceeeEeccccCCCC---Cccccccccccc
Q 047290 45 DKIIPCPRCKSMETKFCYFNNYNVNQP---RHFCKGCQRYWT 83 (172)
Q Consensus 45 ~~~~~CPRC~S~~TKFcYyNNyn~~QP---RhfCksCrRYWT 83 (172)
....+||+|...+..|--.+..+..-| -|.|..|.--|.
T Consensus 135 t~~~~Cp~C~~~~a~~~q~Q~rsaDE~mt~f~~C~~C~~~w~ 176 (178)
T 3po3_S 135 TDRFTCGKCKEKKVSYYQLQTRSAAAPLTTFCTCEACGNRWK 176 (178)
T ss_dssp BSSSCCSSSCCSCEECCCCCCSCTTSCCCCCEEETTTCCEEC
T ss_pred cCCcCCCCCCCCceEEEEeecccCCCCCcEEEEcCCCCCeec
Confidence 345799999977655433333332223 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=61.60 E-value=3.2 Score=35.41 Aligned_cols=36 Identities=22% Similarity=0.531 Sum_probs=24.8
Q ss_pred CcccCCCCCCCCceeeEecccc-------CCCCCcccccccccc
Q 047290 46 KIIPCPRCKSMETKFCYFNNYN-------VNQPRHFCKGCQRYW 82 (172)
Q Consensus 46 ~~~~CPRC~S~~TKFcYyNNyn-------~~QPRhfCksCrRYW 82 (172)
....||.|.+. .++-|+.--. ..---+.|..|+.|+
T Consensus 221 ~R~~C~~Cg~~-~~l~y~~~e~~~~~~~~~~~r~e~C~~C~~Yl 263 (309)
T 2fiy_A 221 VRIKCSHCEES-KHLAYLSLEHDGQPAEKAVLRAETCPSCQGYL 263 (309)
T ss_dssp CTTSCSSSCCC-SCCEEECCCC-CCCSTTCSEEEEEETTTTEEE
T ss_pred cCcCCcCCCCC-CCeeEEEecCccccCCCcceEEEEcccccchH
Confidence 45789999988 4677775443 112238899999998
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=60.45 E-value=4.6 Score=34.00 Aligned_cols=37 Identities=19% Similarity=0.664 Sum_probs=24.7
Q ss_pred cccCCCCCCCCceeeEeccccCCCCC---ccccccccccc
Q 047290 47 IIPCPRCKSMETKFCYFNNYNVNQPR---HFCKGCQRYWT 83 (172)
Q Consensus 47 ~~~CPRC~S~~TKFcYyNNyn~~QPR---hfCksCrRYWT 83 (172)
...||+|...+..|-=.+..+-..|- |.|..|..-|.
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 46899999766554333333333342 89999999885
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=58.87 E-value=3.5 Score=33.95 Aligned_cols=29 Identities=21% Similarity=0.521 Sum_probs=21.9
Q ss_pred cccCCCCCCCCceeeEeccccCCCCCcccccccc
Q 047290 47 IIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQR 80 (172)
Q Consensus 47 ~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrR 80 (172)
..+||+|...=.+.-+ . .+.-|||..||+
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 4789999988776554 2 355599999985
No 9
>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=57.56 E-value=3.8 Score=33.90 Aligned_cols=30 Identities=33% Similarity=0.686 Sum_probs=21.8
Q ss_pred CcccCCCCCCCCceeeEeccccCCCCCcccccccc
Q 047290 46 KIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQR 80 (172)
Q Consensus 46 ~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrR 80 (172)
+..+||+|...=.+.-+= .+.-|||..||+
T Consensus 244 ~g~pC~~CG~~I~~~~~~-----gR~t~~CP~CQ~ 273 (273)
T 3u6p_A 244 QGNPCKRCGTPIEKTVVA-----GRGTHYCPRCQR 273 (273)
T ss_dssp TTSBCTTTCCBCEEEEET-----TEEEEECTTTCC
T ss_pred CcCCCCCCCCeEEEEEEC-----CCCeEECCCCCC
Confidence 346999999877665442 355599999985
No 10
>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=57.24 E-value=3.8 Score=33.76 Aligned_cols=29 Identities=31% Similarity=0.740 Sum_probs=21.9
Q ss_pred cccCCCCCCCCceeeEeccccCCCCCcccccccc
Q 047290 47 IIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQR 80 (172)
Q Consensus 47 ~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrR 80 (172)
..+||+|...=.+.-+ . .+.-|||..||+
T Consensus 235 g~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 263 (266)
T 1ee8_A 235 GLPCPACGRPVERRVV-A----GRGTHFCPTCQG 263 (266)
T ss_dssp TSBCTTTCCBCEEEES-S----SCEEEECTTTTT
T ss_pred CCCCCCCCCEeeEEEE-C----CCceEECCCCCC
Confidence 4789999987766544 2 355699999996
No 11
>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=57.18 E-value=3.8 Score=33.66 Aligned_cols=29 Identities=31% Similarity=0.598 Sum_probs=22.0
Q ss_pred cccCCCCCCCCceeeEeccccCCCCCcccccccc
Q 047290 47 IIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQR 80 (172)
Q Consensus 47 ~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrR 80 (172)
..+||+|...=.+.-+ . .+.-|||..||+
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 4789999988776554 2 355599999996
No 12
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=55.16 E-value=2.5 Score=32.21 Aligned_cols=41 Identities=27% Similarity=0.632 Sum_probs=0.0
Q ss_pred CCCcccCCCCCCCCceeeEeccccCCCC---Ccccccccccccc
Q 047290 44 PDKIIPCPRCKSMETKFCYFNNYNVNQP---RHFCKGCQRYWTA 84 (172)
Q Consensus 44 p~~~~~CPRC~S~~TKFcYyNNyn~~QP---RhfCksCrRYWT~ 84 (172)
|-...+||.|...+.-|-..+-.+...| -|.|..|.--|+.
T Consensus 89 p~t~~~CpkCg~~~a~f~q~Q~RsaDE~mT~fy~C~~C~~~w~e 132 (133)
T 3qt1_I 89 PRSDRECPKCHSRENVFFQLQIRSADEPMTTFYKCVNCGHRWKE 132 (133)
T ss_dssp --------------------------------------------
T ss_pred CcccCCCCCCCCceEEEEEEeeecCCCCCcEEEEcCCCCCEeCc
Confidence 4345899999987765444444433333 2889999999975
No 13
>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=51.49 E-value=8 Score=29.10 Aligned_cols=18 Identities=28% Similarity=0.468 Sum_probs=13.6
Q ss_pred CCCCCcccCCCCCCCCce
Q 047290 42 KRPDKIIPCPRCKSMETK 59 (172)
Q Consensus 42 ~~p~~~~~CPRC~S~~TK 59 (172)
+..+.+-.||+|.|.+..
T Consensus 79 ~~~~kPsrCP~CkSe~Ie 96 (105)
T 2gmg_A 79 AEINIPSRCPKCKSEWIE 96 (105)
T ss_dssp CCSSCCSSCSSSCCCCBC
T ss_pred ccCCCCCCCcCCCCCccC
Confidence 445667889999998765
No 14
>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=50.31 E-value=5.1 Score=32.76 Aligned_cols=29 Identities=38% Similarity=0.808 Sum_probs=21.0
Q ss_pred cccCCCCCCCCceeeEeccccCCCCCcccccccc
Q 047290 47 IIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQR 80 (172)
Q Consensus 47 ~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrR 80 (172)
..+||+|...=.+.-+ . .+.-|||..||+
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 4689999987666443 2 345599999985
No 15
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Probab=42.97 E-value=5.4 Score=32.38 Aligned_cols=38 Identities=18% Similarity=0.407 Sum_probs=29.2
Q ss_pred cccCCCCCCCCceeeEeccccCCCCCccccccccccccC
Q 047290 47 IIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYWTAG 85 (172)
Q Consensus 47 ~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYWT~G 85 (172)
...||.|...=+..|+.+- -..+...-|..|...|+..
T Consensus 193 g~~C~~C~~~~H~~C~~~~-~~~~~~~~CP~C~~~W~~~ 230 (238)
T 3nw0_A 193 GQSCETCGIRMHLPCVAKY-FQSNAEPRCPHCNDYWPHE 230 (238)
T ss_dssp CEECSSSCCEECHHHHHHH-TTTCSSCBCTTTCCBCCSC
T ss_pred CcccCccChHHHHHHHHHH-HHhCCCCCCCCCCCCCCCC
Confidence 5778888877788887553 3456678899999999875
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=42.07 E-value=18 Score=23.30 Aligned_cols=42 Identities=19% Similarity=0.474 Sum_probs=29.4
Q ss_pred CcccCCCCCCCCceeeEeccccCCCCCccccccccccccCcccccc
Q 047290 46 KIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYWTAGGALRNV 91 (172)
Q Consensus 46 ~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYWT~GGtLRnV 91 (172)
+...|..|.+.+|-. +-. -+....+|-+|.-||-..|..|-+
T Consensus 3 ~~~~C~~C~tt~Tp~--WR~--gp~G~~LCNaCGl~~k~~~~~RP~ 44 (46)
T 1gnf_A 3 EARECVNCGATATPL--WRR--DRTGHYLCNACGLYHKMNGQNRPL 44 (46)
T ss_dssp CSCCCTTTCCCCCSS--CBC--CTTCCCBCSHHHHHHHHTCSCCCC
T ss_pred CCCCCCCcCCCCCCc--Ccc--CCCCCccchHHHHHHHHcCCCCCC
Confidence 456788998887752 111 112238999999999999998744
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=36.43 E-value=10 Score=26.98 Aligned_cols=17 Identities=29% Similarity=0.884 Sum_probs=15.1
Q ss_pred CCccccccccccccCcc
Q 047290 71 PRHFCKGCQRYWTAGGA 87 (172)
Q Consensus 71 PRhfCksCrRYWT~GGt 87 (172)
|||||.=|..|.|+.-.
T Consensus 2 PkYyCdYCd~~lt~Ds~ 18 (77)
T 3cw1_L 2 PKFYCDYCDTYLTHDSP 18 (77)
T ss_pred CCcccccCCceecCCCH
Confidence 89999999999988754
No 18
>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=35.77 E-value=14 Score=25.85 Aligned_cols=13 Identities=31% Similarity=0.605 Sum_probs=11.5
Q ss_pred cccCCCCCCCCce
Q 047290 47 IIPCPRCKSMETK 59 (172)
Q Consensus 47 ~~~CPRC~S~~TK 59 (172)
...||.|.|.||+
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 3499999999998
No 19
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=33.85 E-value=20 Score=22.11 Aligned_cols=32 Identities=25% Similarity=0.528 Sum_probs=21.3
Q ss_pred CcccCCCCCCCCceeeEeccccCCCCCccccccccccc
Q 047290 46 KIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYWT 83 (172)
Q Consensus 46 ~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYWT 83 (172)
..+.||.|.+.+-.| ...+-...|..|.--+.
T Consensus 4 ~~~~CP~C~~~~l~~------d~~~gelvC~~CG~v~~ 35 (50)
T 1pft_A 4 KQKVCPACESAELIY------DPERGEIVCAKCGYVIE 35 (50)
T ss_dssp SCCSCTTTSCCCEEE------ETTTTEEEESSSCCBCC
T ss_pred ccEeCcCCCCcceEE------cCCCCeEECcccCCccc
Confidence 467899998854322 23345589999976554
No 20
>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=32.26 E-value=33 Score=23.47 Aligned_cols=46 Identities=17% Similarity=0.474 Sum_probs=33.4
Q ss_pred CCCcccCCCCCCCCceeeEeccccCCCCCccccccccccccCcccccccC
Q 047290 44 PDKIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYWTAGGALRNVPV 93 (172)
Q Consensus 44 p~~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYWT~GGtLRnVPV 93 (172)
+.....|-.|.+.+|-. .=. ...-+ .+|-+|.-||-..|.+|-+..
T Consensus 6 ~~~~~~C~~C~t~~Tp~-WR~--gp~G~-~LCNaCGl~~~~~~~~RP~~~ 51 (66)
T 4gat_A 6 QNGPTTCTNCFTQTTPL-WRR--NPEGQ-PLCNACGLFLKLHGVVRPLSL 51 (66)
T ss_dssp SSSSCCCTTTCCCCCSS-CEE--ETTTE-EECHHHHHHHHHHCSCCCGGG
T ss_pred CCCCCCCCCCCCCCCCc-CCc--CCCCC-CccHHHHHHHHHcCCCCchhh
Confidence 45678999999988751 111 11223 899999999999999887754
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=30.86 E-value=17 Score=24.86 Aligned_cols=31 Identities=13% Similarity=0.234 Sum_probs=19.9
Q ss_pred CCcccCCCCCCCCceeeEeccccCCCCCcccccccccc
Q 047290 45 DKIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYW 82 (172)
Q Consensus 45 ~~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYW 82 (172)
-+.+.||.|... .-| ........|.+|++-+
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 467899999983 222 2234557788886544
No 22
>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1
Probab=30.35 E-value=37 Score=22.29 Aligned_cols=42 Identities=24% Similarity=0.477 Sum_probs=29.7
Q ss_pred CcccCCCCCCCCceeeEeccccCCC---CCccccccccccccCcc
Q 047290 46 KIIPCPRCKSMETKFCYFNNYNVNQ---PRHFCKGCQRYWTAGGA 87 (172)
Q Consensus 46 ~~~~CPRC~S~~TKFcYyNNyn~~Q---PRhfCksCrRYWT~GGt 87 (172)
...+||.|...-.|----|.-.=.. --+||--|..-|..-|.
T Consensus 5 ~~k~CP~C~~~Iek~~GCnhmtC~~~~C~~~FCw~C~~~~~~~~~ 49 (60)
T 1wd2_A 5 NTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS 49 (60)
T ss_dssp CCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGGGT
T ss_pred cceECcCCCCeeEeCCCCCcEEECCCCcCCEEeeCcCCCcccCCC
Confidence 4578999999888865555444333 34889999988876653
No 23
>1k81_A EIF-2-beta, probable translation initiation factor 2 beta subunit; zinc ribbon; NMR {Methanocaldococcus jannaschii} SCOP: g.59.1.1
Probab=29.94 E-value=18 Score=21.93 Aligned_cols=31 Identities=19% Similarity=0.333 Sum_probs=20.1
Q ss_pred ccCCCCCCCCceeeEeccccCCCCCcccccccccc
Q 047290 48 IPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYW 82 (172)
Q Consensus 48 ~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYW 82 (172)
..||-|.+++|.+--= + ..--.-|++|..-+
T Consensus 1 VlC~~C~~peT~l~~~-~---~~~~l~C~aCG~~~ 31 (36)
T 1k81_A 1 VICRECGKPDTKIIKE-G---RVHLLKCMACGAIR 31 (36)
T ss_dssp CCCSSSCSCEEEEEEE-T---TEEEEEEETTTEEE
T ss_pred CCCcCCCCCCcEEEEe-C---CcEEEEhhcCCCcc
Confidence 3699999999996641 1 11224588886543
No 24
>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=29.76 E-value=43 Score=22.81 Aligned_cols=45 Identities=16% Similarity=0.438 Sum_probs=31.9
Q ss_pred CCcccCCCCCCCCceeeEeccccCCCCCccccccccccccCcccccccC
Q 047290 45 DKIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYWTAGGALRNVPV 93 (172)
Q Consensus 45 ~~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYWT~GGtLRnVPV 93 (172)
.....|-.|.+.+|-. +-. -+....+|-+|.=||-..|..|-+.+
T Consensus 5 ~~~~~C~~C~tt~Tp~--WR~--gp~G~~LCNACGl~~~~~~~~RP~~~ 49 (63)
T 3dfx_A 5 RAGTSCANCQTTTTTL--WRR--NANGDPVCNACGLYYKLHNINRPLTM 49 (63)
T ss_dssp CTTCCCTTTCCSCCSS--CCC--CTTSCCCCHHHHHHHHHHSSCCCGGG
T ss_pred CCCCcCCCcCCCCCCc--cCC--CCCCCchhhHHHHHHHHcCCCCCcCc
Confidence 4456799999887742 111 11223899999999999999887764
No 25
>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=29.57 E-value=22 Score=24.39 Aligned_cols=31 Identities=23% Similarity=0.461 Sum_probs=19.9
Q ss_pred CCcccCCCCCCCCceeeEeccccCCCCCcccccccccc
Q 047290 45 DKIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYW 82 (172)
Q Consensus 45 ~~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYW 82 (172)
-+.+.||.|...= - | ........|.+|++-+
T Consensus 6 LeiL~CP~ck~~L---~-~---~~~~~~LiC~~cg~~Y 36 (69)
T 2pk7_A 6 LDILACPICKGPL---K-L---SADKTELISKGAGLAY 36 (69)
T ss_dssp GGTCCCTTTCCCC---E-E---CTTSSEEEETTTTEEE
T ss_pred HhheeCCCCCCcC---e-E---eCCCCEEEcCCCCcEe
Confidence 3578999999642 1 2 2334567788886544
No 26
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=27.54 E-value=33 Score=24.58 Aligned_cols=17 Identities=18% Similarity=0.339 Sum_probs=12.7
Q ss_pred CCcc-cCCCCCCCCceee
Q 047290 45 DKII-PCPRCKSMETKFC 61 (172)
Q Consensus 45 ~~~~-~CPRC~S~~TKFc 61 (172)
+... .||.|.+.+.+|-
T Consensus 87 ~~~~~~CP~Cgs~~~~i~ 104 (119)
T 2kdx_A 87 ALDYGVCEKCHSKNVIIT 104 (119)
T ss_dssp CSTTCCCSSSSSCCCEEE
T ss_pred CCCCCcCccccCCCcEEe
Confidence 3456 7999999988763
No 27
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}
Probab=27.23 E-value=22 Score=24.29 Aligned_cols=31 Identities=16% Similarity=0.384 Sum_probs=19.2
Q ss_pred CCcccCCCCCCCCceeeEeccccCCCCCcccccccccc
Q 047290 45 DKIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYW 82 (172)
Q Consensus 45 ~~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYW 82 (172)
-+.+.||.|... .-| ........|.+|++-+
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 467899999963 222 2234556787776543
No 28
>2kpi_A Uncharacterized protein SCO3027; zinc finger, PSI-2, NESG, all beta, structural genomics, protein structure initiative; NMR {Streptomyces coelicolor}
Probab=26.96 E-value=32 Score=22.51 Aligned_cols=30 Identities=20% Similarity=0.527 Sum_probs=20.4
Q ss_pred CCCcccCCCCCCCCceeeEeccccCCCCCcccc--cccccc
Q 047290 44 PDKIIPCPRCKSMETKFCYFNNYNVNQPRHFCK--GCQRYW 82 (172)
Q Consensus 44 p~~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCk--sCrRYW 82 (172)
=-+.+.||.|... .-|+. ....|. +|++-|
T Consensus 7 lL~iL~CP~c~~~----L~~~~-----~~L~C~~~~c~~~Y 38 (56)
T 2kpi_A 7 LLEILACPACHAP----LEERD-----AELICTGQDCGLAY 38 (56)
T ss_dssp CTTSCCCSSSCSC----EEEET-----TEEEECSSSCCCEE
T ss_pred HHhheeCCCCCCc----ceecC-----CEEEcCCcCCCcEE
Confidence 3567899999984 22333 567888 887644
No 29
>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=23.89 E-value=22 Score=24.31 Aligned_cols=30 Identities=27% Similarity=0.704 Sum_probs=18.6
Q ss_pred CcccCCCCCCCCceeeEeccccCCCCCcccccccccc
Q 047290 46 KIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYW 82 (172)
Q Consensus 46 ~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYW 82 (172)
+.+.||.|... .-| ........|.+|++-+
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 57899999963 222 2234556788776543
No 30
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics consortium, beta, PSI-2, protein structure initiative; NMR {Bordetella bronchiseptica RB50}
Probab=23.53 E-value=22 Score=24.38 Aligned_cols=32 Identities=22% Similarity=0.485 Sum_probs=21.3
Q ss_pred CCcccCCCCCCCCceeeEeccccCCCCCccccccccccc
Q 047290 45 DKIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYWT 83 (172)
Q Consensus 45 ~~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYWT 83 (172)
-+.+.||.|... .-| ........|.+|++-+-
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 467899999983 222 23345678988876553
No 31
>2con_A RUH-035 protein, NIN one binding protein; ribosome, RNA binding protein, unknown function, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: g.41.15.1
Probab=22.66 E-value=27 Score=24.83 Aligned_cols=35 Identities=29% Similarity=0.590 Sum_probs=26.5
Q ss_pred CcccCCCCCCCCceeeEeccccCCCCCccccccccccccCcccccccCCC
Q 047290 46 KIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYWTAGGALRNVPVGA 95 (172)
Q Consensus 46 ~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYWT~GGtLRnVPVGg 95 (172)
-.+.|-.|.... ...+|.||..|.. .||+.|+|.-
T Consensus 14 ~iLrC~aCf~~t----------~~~~k~FCp~CGn-----~TL~Rvsvsv 48 (79)
T 2con_A 14 YILRCHGCFKTT----------SDMNRVFCGHCGN-----KTLKKVSVTI 48 (79)
T ss_dssp EEEECSSSCCEE----------SCSSCCSCSSSCC-----SCCEEEECBC
T ss_pred eeeEecccceEC----------CCcccccccccCc-----ccceEEEEEE
Confidence 467888887653 4578999999964 6899998743
No 32
>1nui_A DNA primase/helicase; zinc-biding domain, toprim fold, DNA replication, DNA-direct polymerase, primosome, late protein, ATP-binding; HET: DNA; 2.90A {Enterobacteria phage T7} SCOP: e.13.1.2 g.41.3.2
Probab=22.55 E-value=42 Score=26.18 Aligned_cols=30 Identities=30% Similarity=0.779 Sum_probs=21.5
Q ss_pred CcccCCCCCCCCceeeEeccccCCCCCccccccccc
Q 047290 46 KIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRY 81 (172)
Q Consensus 46 ~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRY 81 (172)
...+||-|.+.+. |-.|.. .-.+|-.|..+
T Consensus 13 ~~~~CP~Cg~~d~-~~~~~d-----g~~~C~~Cg~~ 42 (255)
T 1nui_A 13 YHIPCDNCGSSDG-NSLFSD-----GHTFCYVCEKW 42 (255)
T ss_dssp EEECCSSSCCSSC-EEEETT-----SCEEETTTCCE
T ss_pred cCCcCCCCCCCCC-ceEeCC-----CCeecccCCCc
Confidence 3679999998754 665643 14899999853
No 33
>2kae_A GATA-type transcription factor; zinc finger, GATA-type, DNA; NMR {Caenorhabditis elegans}
Probab=21.88 E-value=32 Score=23.93 Aligned_cols=47 Identities=23% Similarity=0.388 Sum_probs=32.4
Q ss_pred CCCcccCCCCCCCCceeeEeccccCCCCCccccccccccccCcccccccC
Q 047290 44 PDKIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYWTAGGALRNVPV 93 (172)
Q Consensus 44 p~~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYWT~GGtLRnVPV 93 (172)
+++...|-.|.+.+|- .+-.-..... .+|-+|.=||-..|+.|-++.
T Consensus 5 ~~~~~~C~nC~tt~Tp--~WRrg~~~~g-~LCNACGl~~~~~~~~RP~~~ 51 (71)
T 2kae_A 5 NKKSFQCSNCSVTETI--RWRNIRSKEG-IQCNACFIYQRKYNKTRPVTA 51 (71)
T ss_dssp ---CCCCSSSCCSCCS--SCCCCSSSSC-CCSSHHHHHHHHHHSCCCTHH
T ss_pred CCCCCcCCccCCCCCC--ccccCCCCCC-ccchHHHHHHHHhCCCCCccc
Confidence 5667899999999875 2222111222 899999999999999887764
No 34
>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=20.33 E-value=63 Score=23.81 Aligned_cols=45 Identities=16% Similarity=0.438 Sum_probs=33.6
Q ss_pred CCcccCCCCCCCCceeeEeccccCCCCCccccccccccccCcccccccC
Q 047290 45 DKIIPCPRCKSMETKFCYFNNYNVNQPRHFCKGCQRYWTAGGALRNVPV 93 (172)
Q Consensus 45 ~~~~~CPRC~S~~TKFcYyNNyn~~QPRhfCksCrRYWT~GGtLRnVPV 93 (172)
.....|-.|...+|-- .- .-+..+.+|-+|.-||-..|..|-+.+
T Consensus 57 ~~~~~C~~C~t~~tp~--WR--r~~~g~~lCNaCgl~~~~~~~~rp~~~ 101 (115)
T 4hc9_A 57 RAGTSCANCQTTTTTL--WR--RNANGDPVCNACGLYYKLHNINRPLTM 101 (115)
T ss_dssp CTTCCCTTTCCSCCSS--CE--ECTTSCEECHHHHHHHHHHSSCCCGGG
T ss_pred cccccCCCcCCCCcce--eE--ECCCCCCcchHHHHHHHHhCCCCCccc
Confidence 4568999999988742 11 112236899999999999999887765
Done!