Query 019668
Match_columns 337
No_of_seqs 142 out of 258
Neff 3.3
Searched_HMMs 29240
Date Mon Mar 25 05:17:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019668.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/019668hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1tfi_A Transcriptional elongat 81.1 1.1 3.9E-05 32.1 3.0 37 75-111 9-48 (50)
2 1qyp_A RNA polymerase II; tran 78.3 1.4 4.7E-05 31.6 2.7 41 72-112 12-55 (57)
3 3h0g_I DNA-directed RNA polyme 72.1 2.6 8.9E-05 34.2 3.1 41 72-112 69-112 (113)
4 2fiy_A Protein FDHE homolog; F 70.0 1.9 6.5E-05 40.9 2.1 35 75-110 222-263 (309)
5 1twf_I B12.6, DNA-directed RNA 62.7 5.9 0.0002 32.5 3.5 40 74-113 71-113 (122)
6 1pqv_S STP-alpha, transcriptio 58.3 6.5 0.00022 36.9 3.4 37 75-111 268-307 (309)
7 3po3_S Transcription elongatio 57.5 4.9 0.00017 35.2 2.2 37 75-111 137-176 (178)
8 1gnf_A Transcription factor GA 57.1 6.4 0.00022 28.0 2.4 42 74-119 3-44 (46)
9 1k82_A Formamidopyrimidine-DNA 54.0 4.1 0.00014 37.4 1.2 29 75-108 240-268 (268)
10 3u6p_A Formamidopyrimidine-DNA 52.9 4.4 0.00015 37.4 1.2 30 74-108 244-273 (273)
11 2kae_A GATA-type transcription 52.8 1.5 5.3E-05 33.8 -1.5 49 70-121 3-51 (71)
12 1ee8_A MUTM (FPG) protein; bet 52.8 4.5 0.00015 37.2 1.3 29 75-108 235-263 (266)
13 3nw0_A Non-structural maintena 52.0 2.5 8.6E-05 38.4 -0.5 38 75-113 193-230 (238)
14 2xzf_A Formamidopyrimidine-DNA 51.9 4.7 0.00016 37.1 1.2 29 75-108 242-270 (271)
15 3dfx_A Trans-acting T-cell-spe 51.3 12 0.00041 28.2 3.2 46 72-121 4-49 (63)
16 4gat_A Nitrogen regulatory pro 49.4 14 0.00047 28.0 3.3 46 72-121 6-51 (66)
17 1z2q_A LM5-1; membrane protein 48.4 8.7 0.0003 29.4 2.1 45 58-111 4-48 (84)
18 1k3x_A Endonuclease VIII; hydr 45.8 6.1 0.00021 36.1 1.0 30 74-108 233-262 (262)
19 3qt1_I DNA-directed RNA polyme 43.5 4.9 0.00017 33.9 0.0 39 74-112 91-132 (133)
20 3cw1_L U1 small nuclear ribonu 42.0 6.9 0.00023 30.7 0.6 17 99-115 2-18 (77)
21 2k2d_A Ring finger and CHY zin 38.1 11 0.00038 29.2 1.3 13 75-87 55-67 (79)
22 2zjr_Z 50S ribosomal protein L 36.2 20 0.00069 26.6 2.3 24 74-109 29-52 (60)
23 2gmg_A Hypothetical protein PF 34.0 24 0.00084 29.1 2.7 14 74-87 83-96 (105)
24 1pft_A TFIIB, PFTFIIBN; N-term 32.5 24 0.00081 24.3 2.1 33 74-112 4-36 (50)
25 2vut_I AREA, nitrogen regulato 32.0 19 0.00064 25.2 1.5 41 76-120 2-42 (43)
26 2jny_A Uncharacterized BCR; st 30.9 18 0.0006 27.5 1.3 30 74-110 9-38 (67)
27 2pk7_A Uncharacterized protein 30.7 22 0.00075 27.0 1.8 30 74-110 7-36 (69)
28 4hc9_A Trans-acting T-cell-spe 28.7 31 0.0011 28.3 2.5 45 73-121 57-101 (115)
29 2jr6_A UPF0434 protein NMA0874 27.2 23 0.00078 26.8 1.3 30 74-110 7-36 (68)
30 2hf1_A Tetraacyldisaccharide-1 24.5 23 0.00077 26.8 0.9 30 74-110 7-36 (68)
31 2js4_A UPF0434 protein BB2007; 23.4 23 0.0008 26.9 0.8 31 74-111 7-37 (70)
32 2akl_A PHNA-like protein PA012 21.7 49 0.0017 28.6 2.5 31 76-114 28-58 (138)
33 2kdx_A HYPA, hydrogenase/ureas 21.0 50 0.0017 26.4 2.3 12 77-88 92-103 (119)
No 1
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=81.09 E-value=1.1 Score=32.05 Aligned_cols=37 Identities=22% Similarity=0.675 Sum_probs=28.2
Q ss_pred cCCCCCCCCCCcceeeeccccCCCCc---ccchhcccccc
Q 019668 75 ALKCPRCESTNTKFCYFNNYSLSQPR---HFCKTCRRYWT 111 (337)
Q Consensus 75 ~~~CPRC~S~~Tkfcy~NNy~~~QPR---~fCk~CrRyWT 111 (337)
..+||+|...+..|--.+..+...|- |.|..|..-|.
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 47899999888777555555555553 89999998885
No 2
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=78.31 E-value=1.4 Score=31.63 Aligned_cols=41 Identities=22% Similarity=0.637 Sum_probs=27.2
Q ss_pred CcccCCCCCCCCCCcceeeeccccCCCC---cccchhccccccc
Q 019668 72 PETALKCPRCESTNTKFCYFNNYSLSQP---RHFCKTCRRYWTR 112 (337)
Q Consensus 72 pe~~~~CPRC~S~~Tkfcy~NNy~~~QP---R~fCk~CrRyWT~ 112 (337)
|....+||+|...+..|--.+-.+...| .|.|..|.--|+.
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 3345889999984444433333344445 3899999999976
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=72.06 E-value=2.6 Score=34.24 Aligned_cols=41 Identities=20% Similarity=0.446 Sum_probs=26.3
Q ss_pred CcccCCCCCCCCCCcceeeeccccCCCCc---ccchhccccccc
Q 019668 72 PETALKCPRCESTNTKFCYFNNYSLSQPR---HFCKTCRRYWTR 112 (337)
Q Consensus 72 pe~~~~CPRC~S~~Tkfcy~NNy~~~QPR---~fCk~CrRyWT~ 112 (337)
|....+||+|...+..|-..+-.+...|- |.|..|.--|++
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 33448999999877554322333333232 889999999974
No 4
>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=70.00 E-value=1.9 Score=40.94 Aligned_cols=35 Identities=23% Similarity=0.639 Sum_probs=25.9
Q ss_pred cCCCCCCCCCCcceeeecccc-------CCCCcccchhccccc
Q 019668 75 ALKCPRCESTNTKFCYFNNYS-------LSQPRHFCKTCRRYW 110 (337)
Q Consensus 75 ~~~CPRC~S~~Tkfcy~NNy~-------~~QPR~fCk~CrRyW 110 (337)
..+||.|.++ .++-||.--. ..---+.|++|+.|+
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 5789999998 4677775443 222238999999998
No 5
>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=62.74 E-value=5.9 Score=32.54 Aligned_cols=40 Identities=20% Similarity=0.517 Sum_probs=28.6
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCc---ccchhcccccccC
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPR---HFCKTCRRYWTRG 113 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR---~fCk~CrRyWT~G 113 (337)
....||+|...+.-|-..+-.+...|- |.|..|.--|+..
T Consensus 71 t~~~Cp~C~~~~a~~~q~q~rsade~~t~fy~C~~C~~~w~~n 113 (122)
T 1twf_I 71 SDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSD 113 (122)
T ss_dssp CCCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECC
T ss_pred cCCCCCCCCCCEEEEEEecCccCCCCceEEEEeCCCCCEeccC
Confidence 347899999876665444444444443 8999999999875
No 6
>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=58.28 E-value=6.5 Score=36.94 Aligned_cols=37 Identities=19% Similarity=0.658 Sum_probs=23.4
Q ss_pred cCCCCCCCCCCcceeeeccccCCCC---cccchhcccccc
Q 019668 75 ALKCPRCESTNTKFCYFNNYSLSQP---RHFCKTCRRYWT 111 (337)
Q Consensus 75 ~~~CPRC~S~~Tkfcy~NNy~~~QP---R~fCk~CrRyWT 111 (337)
...||+|...+..|-=.+..+...| -|.|..|..-|.
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 3689999966544422222333333 288999999885
No 7
>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=57.53 E-value=4.9 Score=35.22 Aligned_cols=37 Identities=19% Similarity=0.646 Sum_probs=23.2
Q ss_pred cCCCCCCCCCCcceeeeccccCCCC---cccchhcccccc
Q 019668 75 ALKCPRCESTNTKFCYFNNYSLSQP---RHFCKTCRRYWT 111 (337)
Q Consensus 75 ~~~CPRC~S~~Tkfcy~NNy~~~QP---R~fCk~CrRyWT 111 (337)
..+||+|...+..|--.+-.+..-| -|.|..|..-|.
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 3689999976654322222222222 388999999995
No 8
>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=57.05 E-value=6.4 Score=27.99 Aligned_cols=42 Identities=24% Similarity=0.518 Sum_probs=30.8
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhcccccccCcccccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRGGALRNV 119 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT~GG~lRnv 119 (337)
+...|-.|...+|-. +-.-. ....+|-+|.-||-..|..|-+
T Consensus 3 ~~~~C~~C~tt~Tp~--WR~gp--~G~~LCNaCGl~~k~~~~~RP~ 44 (46)
T 1gnf_A 3 EARECVNCGATATPL--WRRDR--TGHYLCNACGLYHKMNGQNRPL 44 (46)
T ss_dssp CSCCCTTTCCCCCSS--CBCCT--TCCCBCSHHHHHHHHTCSCCCC
T ss_pred CCCCCCCcCCCCCCc--CccCC--CCCccchHHHHHHHHcCCCCCC
Confidence 457899999988753 22221 2238999999999999998754
No 9
>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=54.01 E-value=4.1 Score=37.43 Aligned_cols=29 Identities=14% Similarity=0.506 Sum_probs=21.3
Q ss_pred cCCCCCCCCCCcceeeeccccCCCCcccchhccc
Q 019668 75 ALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRR 108 (337)
Q Consensus 75 ~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrR 108 (337)
+.+||||...-.|.-+ . .+.-|||..|++
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 4689999987766543 2 345599999985
No 10
>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=52.90 E-value=4.4 Score=37.40 Aligned_cols=30 Identities=27% Similarity=0.679 Sum_probs=21.4
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRR 108 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrR 108 (337)
.+.+||||...=.|.-+ . .+.-|||..|++
T Consensus 244 ~g~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 273 (273)
T 3u6p_A 244 QGNPCKRCGTPIEKTVV-A----GRGTHYCPRCQR 273 (273)
T ss_dssp TTSBCTTTCCBCEEEEE-T----TEEEEECTTTCC
T ss_pred CcCCCCCCCCeEEEEEE-C----CCCeEECCCCCC
Confidence 34689999987666433 2 245599999985
No 11
>2kae_A GATA-type transcription factor; zinc finger, GATA-type, DNA; NMR {Caenorhabditis elegans}
Probab=52.84 E-value=1.5 Score=33.85 Aligned_cols=49 Identities=20% Similarity=0.375 Sum_probs=33.4
Q ss_pred CCCcccCCCCCCCCCCcceeeeccccCCCCcccchhcccccccCcccccccC
Q 019668 70 PQPETALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRGGALRNVPV 121 (337)
Q Consensus 70 p~pe~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT~GG~lRnvPv 121 (337)
+.+++...|-.|...+|-. .-.-..... .+|-+|.-||-..++.|-+..
T Consensus 3 ~~~~~~~~C~nC~tt~Tp~--WRrg~~~~g-~LCNACGl~~~~~~~~RP~~~ 51 (71)
T 2kae_A 3 HMNKKSFQCSNCSVTETIR--WRNIRSKEG-IQCNACFIYQRKYNKTRPVTA 51 (71)
T ss_dssp -----CCCCSSSCCSCCSS--CCCCSSSSC-CCSSHHHHHHHHHHSCCCTHH
T ss_pred CCCCCCCcCCccCCCCCCc--cccCCCCCC-ccchHHHHHHHHhCCCCCccc
Confidence 3456789999999998863 333111222 899999999999999887765
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=52.83 E-value=4.5 Score=37.20 Aligned_cols=29 Identities=31% Similarity=0.773 Sum_probs=21.4
Q ss_pred cCCCCCCCCCCcceeeeccccCCCCcccchhccc
Q 019668 75 ALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRR 108 (337)
Q Consensus 75 ~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrR 108 (337)
+.+||||...-.|.-+ . .+.-|||..|++
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 4789999987666433 2 355599999997
No 13
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Probab=52.00 E-value=2.5 Score=38.37 Aligned_cols=38 Identities=24% Similarity=0.577 Sum_probs=29.4
Q ss_pred cCCCCCCCCCCcceeeeccccCCCCcccchhcccccccC
Q 019668 75 ALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRG 113 (337)
Q Consensus 75 ~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT~G 113 (337)
+.+|+.|...=+..|+.+ |-.++....|..|+..|+..
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 577888888888888754 44456678999999999865
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=51.90 E-value=4.7 Score=37.07 Aligned_cols=29 Identities=31% Similarity=0.746 Sum_probs=21.5
Q ss_pred cCCCCCCCCCCcceeeeccccCCCCcccchhccc
Q 019668 75 ALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRR 108 (337)
Q Consensus 75 ~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrR 108 (337)
+.+||||...-.|.-+ . .+.-|||..|++
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 5789999987766533 2 345599999996
No 15
>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=51.35 E-value=12 Score=28.25 Aligned_cols=46 Identities=17% Similarity=0.501 Sum_probs=33.6
Q ss_pred CcccCCCCCCCCCCcceeeeccccCCCCcccchhcccccccCcccccccC
Q 019668 72 PETALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRGGALRNVPV 121 (337)
Q Consensus 72 pe~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT~GG~lRnvPv 121 (337)
+.....|-.|..++|-. .-.-. ....+|-+|.-||-..|+.|-+.+
T Consensus 4 ~~~~~~C~~C~tt~Tp~--WR~gp--~G~~LCNACGl~~~~~~~~RP~~~ 49 (63)
T 3dfx_A 4 RRAGTSCANCQTTTTTL--WRRNA--NGDPVCNACGLYYKLHNINRPLTM 49 (63)
T ss_dssp CCTTCCCTTTCCSCCSS--CCCCT--TSCCCCHHHHHHHHHHSSCCCGGG
T ss_pred CCCCCcCCCcCCCCCCc--cCCCC--CCCchhhHHHHHHHHcCCCCCcCc
Confidence 34567899999988753 22211 122899999999999999887765
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=49.43 E-value=14 Score=28.03 Aligned_cols=46 Identities=17% Similarity=0.479 Sum_probs=33.3
Q ss_pred CcccCCCCCCCCCCcceeeeccccCCCCcccchhcccccccCcccccccC
Q 019668 72 PETALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRGGALRNVPV 121 (337)
Q Consensus 72 pe~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT~GG~lRnvPv 121 (337)
+.....|-.|.+.+|-- .=..- .- ..+|-+|.-||-.-|++|-+..
T Consensus 6 ~~~~~~C~~C~t~~Tp~-WR~gp--~G-~~LCNaCGl~~~~~~~~RP~~~ 51 (66)
T 4gat_A 6 QNGPTTCTNCFTQTTPL-WRRNP--EG-QPLCNACGLFLKLHGVVRPLSL 51 (66)
T ss_dssp SSSSCCCTTTCCCCCSS-CEEET--TT-EEECHHHHHHHHHHCSCCCGGG
T ss_pred CCCCCCCCCCCCCCCCc-CCcCC--CC-CCccHHHHHHHHHcCCCCchhh
Confidence 45568999999988762 11111 12 2899999999999999877654
No 17
>1z2q_A LM5-1; membrane protein, FYVE domain, zinc-finger; NMR {Leishmania major}
Probab=48.38 E-value=8.7 Score=29.39 Aligned_cols=45 Identities=27% Similarity=0.521 Sum_probs=26.9
Q ss_pred CchhHHhhhcCCCCCcccCCCCCCCCCCcceeeeccccCCCCcccchhcccccc
Q 019668 58 NSMTERARMAKMPQPETALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWT 111 (337)
Q Consensus 58 ~sm~~rar~a~~p~pe~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT 111 (337)
++|.|....+.--+.++...|..|... | ++..-||-|+.|.+-.=
T Consensus 4 ~~~~~~~~~~~W~pd~~~~~C~~C~~~---F------s~~~RrHHCR~CG~v~C 48 (84)
T 1z2q_A 4 GSMGEKQSKGYWQEDEDAPACNGCGCV---F------TTTVRRHHCRNCGYVLC 48 (84)
T ss_dssp TTCCTTCCCSCCCCTTTCCBCTTTCCB---C------CTTSCCEECTTTCCEEC
T ss_pred ccccccCCCCccccCCCCCCCcCcCCc---c------ccchhcccccCCCcEEC
Confidence 455554433322233456788888765 3 34477899999877543
No 18
>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=45.78 E-value=6.1 Score=36.14 Aligned_cols=30 Identities=30% Similarity=0.628 Sum_probs=21.0
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRR 108 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrR 108 (337)
.+.+||||...-.|.-+ . .+.-|||..|++
T Consensus 233 ~g~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 262 (262)
T 1k3x_A 233 DGEPCERCGSIIEKTTL-S----SRPFYWCPGCQH 262 (262)
T ss_dssp TTSBCTTTCCBCEEEEE-T----TEEEEECTTTCC
T ss_pred CcCCCCCCCCEeEEEEE-C----CCCeEECCCCCC
Confidence 34689999987666432 2 344599999985
No 19
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=43.50 E-value=4.9 Score=33.92 Aligned_cols=39 Identities=26% Similarity=0.638 Sum_probs=0.0
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCC---cccchhccccccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQP---RHFCKTCRRYWTR 112 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QP---R~fCk~CrRyWT~ 112 (337)
...+||+|...+..|=..+-.+...| -|.|..|.--|+.
T Consensus 91 t~~~CpkCg~~~a~f~q~Q~RsaDE~mT~fy~C~~C~~~w~e 132 (133)
T 3qt1_I 91 SDRECPKCHSRENVFFQLQIRSADEPMTTFYKCVNCGHRWKE 132 (133)
T ss_dssp ------------------------------------------
T ss_pred ccCCCCCCCCceEEEEEEeeecCCCCCcEEEEcCCCCCEeCc
Confidence 34789999987765433333333222 2889999999975
No 20
>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=42.03 E-value=6.9 Score=30.74 Aligned_cols=17 Identities=29% Similarity=0.929 Sum_probs=15.1
Q ss_pred CcccchhcccccccCcc
Q 019668 99 PRHFCKTCRRYWTRGGA 115 (337)
Q Consensus 99 PR~fCk~CrRyWT~GG~ 115 (337)
|||||+-|..|.|+.-.
T Consensus 2 PkYyCdYCd~~lt~Ds~ 18 (77)
T 3cw1_L 2 PKFYCDYCDTYLTHDSP 18 (77)
T ss_pred CCcccccCCceecCCCH
Confidence 89999999999988754
No 21
>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=38.10 E-value=11 Score=29.19 Aligned_cols=13 Identities=54% Similarity=0.930 Sum_probs=11.3
Q ss_pred cCCCCCCCCCCcc
Q 019668 75 ALKCPRCESTNTK 87 (337)
Q Consensus 75 ~~~CPRC~S~~Tk 87 (337)
+++||.|.|.||+
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 22
>2zjr_Z 50S ribosomal protein L32; ribosome, large ribosomal subunit, ribonucleoprotein, RNA-binding, rRNA-binding, tRNA-binding, methylation; 2.91A {Deinococcus radiodurans} SCOP: g.41.8.5 PDB: 1j5a_M* 1jzy_M* 1jzz_M* 1k01_M* 1nkw_Z 1ond_Z* 1sm1_Z* 1yl3_5 2b66_5 2b9n_5 2b9p_5 2zjp_Y* 2zjq_Z 1jzx_M 3cf5_Y* 3dll_Y* 3pio_Z* 3pip_Z* 1nwy_Z* 1nwx_Z* ...
Probab=36.21 E-value=20 Score=26.58 Aligned_cols=24 Identities=33% Similarity=0.967 Sum_probs=19.7
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhcccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRY 109 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRy 109 (337)
....||.|... | .|.+.|.+|.-|
T Consensus 29 ~l~~c~~cG~~--~----------~pH~vc~~CG~Y 52 (60)
T 2zjr_Z 29 NLTECPQCHGK--K----------LSHHICPNCGYY 52 (60)
T ss_dssp CCEECTTTCCE--E----------CTTBCCTTTCBS
T ss_pred CceECCCCCCE--e----------CCceEcCCCCcC
Confidence 34789999875 3 799999999966
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=34.05 E-value=24 Score=29.14 Aligned_cols=14 Identities=29% Similarity=0.807 Sum_probs=7.5
Q ss_pred ccCCCCCCCCCCcc
Q 019668 74 TALKCPRCESTNTK 87 (337)
Q Consensus 74 ~~~~CPRC~S~~Tk 87 (337)
.+-.||+|.|.+..
T Consensus 83 kPsrCP~CkSe~Ie 96 (105)
T 2gmg_A 83 IPSRCPKCKSEWIE 96 (105)
T ss_dssp CCSSCSSSCCCCBC
T ss_pred CCCCCcCCCCCccC
Confidence 33556666665543
No 24
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=32.47 E-value=24 Score=24.27 Aligned_cols=33 Identities=21% Similarity=0.496 Sum_probs=22.3
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhccccccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTR 112 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT~ 112 (337)
..++||.|.+.+-.| ....-...|+.|+.-+..
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 457899998854333 223455899999876653
No 25
>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=32.02 E-value=19 Score=25.19 Aligned_cols=41 Identities=17% Similarity=0.541 Sum_probs=29.3
Q ss_pred CCCCCCCCCCcceeeeccccCCCCcccchhcccccccCccccccc
Q 019668 76 LKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRGGALRNVP 120 (337)
Q Consensus 76 ~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT~GG~lRnvP 120 (337)
..|-.|..++|-. +-.-. ....+|-+|.-||-..|++|-+.
T Consensus 2 ~~C~~C~tt~Tp~--WR~gp--~G~~LCNaCGl~~k~~~~~RP~~ 42 (43)
T 2vut_I 2 TTCTNCFTQTTPL--WRRNP--EGQPLCNACGLFLKLHGVVRPLS 42 (43)
T ss_dssp CCCSSSCCCCCSC--CEECT--TSCEECHHHHHHHHHHSSCCCCC
T ss_pred CcCCccCCCCCCc--cccCC--CCCcccHHHHHHHHHhCCCCCCC
Confidence 5688898887753 22211 22389999999999999988653
No 26
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1
Probab=30.91 E-value=18 Score=27.45 Aligned_cols=30 Identities=17% Similarity=0.268 Sum_probs=20.6
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhccccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYW 110 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyW 110 (337)
+.+.||.|... .-| ....-...|+.|++-+
T Consensus 9 eiL~CP~ck~~---L~~----~~~~g~LvC~~c~~~Y 38 (67)
T 2jny_A 9 EVLACPKDKGP---LRY----LESEQLLVNERLNLAY 38 (67)
T ss_dssp CCCBCTTTCCB---CEE----ETTTTEEEETTTTEEE
T ss_pred HHhCCCCCCCc---CeE----eCCCCEEEcCCCCccc
Confidence 56899999983 222 2234567899998755
No 27
>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=30.73 E-value=22 Score=26.98 Aligned_cols=30 Identities=20% Similarity=0.377 Sum_probs=20.5
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhccccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYW 110 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyW 110 (337)
+.+.||.|...-+ | ....-...|+.|++-+
T Consensus 7 eiL~CP~ck~~L~---~----~~~~~~LiC~~cg~~Y 36 (69)
T 2pk7_A 7 DILACPICKGPLK---L----SADKTELISKGAGLAY 36 (69)
T ss_dssp GTCCCTTTCCCCE---E----CTTSSEEEETTTTEEE
T ss_pred hheeCCCCCCcCe---E----eCCCCEEEcCCCCcEe
Confidence 4689999996422 2 2334567899998754
No 28
>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=28.75 E-value=31 Score=28.33 Aligned_cols=45 Identities=18% Similarity=0.507 Sum_probs=33.9
Q ss_pred cccCCCCCCCCCCcceeeeccccCCCCcccchhcccccccCcccccccC
Q 019668 73 ETALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRGGALRNVPV 121 (337)
Q Consensus 73 e~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT~GG~lRnvPv 121 (337)
..+..|-.|...+|-- .-. -..-+.+|-+|.-||..-|+.|-+.+
T Consensus 57 ~~~~~C~~C~t~~tp~--WRr--~~~g~~lCNaCgl~~~~~~~~rp~~~ 101 (115)
T 4hc9_A 57 RAGTSCANCQTTTTTL--WRR--NANGDPVCNACGLYYKLHNINRPLTM 101 (115)
T ss_dssp CTTCCCTTTCCSCCSS--CEE--CTTSCEECHHHHHHHHHHSSCCCGGG
T ss_pred cccccCCCcCCCCcce--eEE--CCCCCCcchHHHHHHHHhCCCCCccc
Confidence 4568999999988752 111 12236899999999999999887776
No 29
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}
Probab=27.21 E-value=23 Score=26.79 Aligned_cols=30 Identities=13% Similarity=0.380 Sum_probs=20.3
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhccccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYW 110 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyW 110 (337)
+.+.||.|... .-| ....-...|+.|++-+
T Consensus 7 ~iL~CP~ck~~---L~~----~~~~~~LiC~~cg~~Y 36 (68)
T 2jr6_A 7 DILVCPVTKGR---LEY----HQDKQELWSRQAKLAY 36 (68)
T ss_dssp CCCBCSSSCCB---CEE----ETTTTEEEETTTTEEE
T ss_pred hheECCCCCCc---CeE----eCCCCEEEcCCCCcEe
Confidence 46899999963 222 2234667899998654
No 30
>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=24.51 E-value=23 Score=26.83 Aligned_cols=30 Identities=27% Similarity=0.543 Sum_probs=20.2
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhccccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYW 110 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyW 110 (337)
+.+.||.|... .-|- ...-...|+.|++-+
T Consensus 7 ~iL~CP~ck~~---L~~~----~~~~~LiC~~cg~~Y 36 (68)
T 2hf1_A 7 EILVCPLCKGP---LVFD----KSKDELICKGDRLAF 36 (68)
T ss_dssp EECBCTTTCCB---CEEE----TTTTEEEETTTTEEE
T ss_pred hheECCCCCCc---CeEe----CCCCEEEcCCCCcEe
Confidence 46899999963 2222 234667899998654
No 31
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics consortium, beta, PSI-2, protein structure initiative; NMR {Bordetella bronchiseptica RB50}
Probab=23.42 E-value=23 Score=26.89 Aligned_cols=31 Identities=23% Similarity=0.538 Sum_probs=21.1
Q ss_pred ccCCCCCCCCCCcceeeeccccCCCCcccchhcccccc
Q 019668 74 TALKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWT 111 (337)
Q Consensus 74 ~~~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT 111 (337)
+.+.||.|... .-| ....-...|+.|++-+-
T Consensus 7 ~iL~CP~ck~~---L~~----~~~~~~LiC~~cg~~YP 37 (70)
T 2js4_A 7 DILVCPVCKGR---LEF----QRAQAELVCNADRLAFP 37 (70)
T ss_dssp CCCBCTTTCCB---EEE----ETTTTEEEETTTTEEEE
T ss_pred hheECCCCCCc---CEE----eCCCCEEEcCCCCceec
Confidence 46899999983 222 22345678999987553
No 32
>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=21.70 E-value=49 Score=28.63 Aligned_cols=31 Identities=26% Similarity=0.614 Sum_probs=24.5
Q ss_pred CCCCCCCCCCcceeeeccccCCCCcccchhcccccccCc
Q 019668 76 LKCPRCESTNTKFCYFNNYSLSQPRHFCKTCRRYWTRGG 114 (337)
Q Consensus 76 ~~CPRC~S~~Tkfcy~NNy~~~QPR~fCk~CrRyWT~GG 114 (337)
.+||.|.|..|-. ...-+.|..|.-=|+...
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 5799999987732 255699999999997554
No 33
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=20.97 E-value=50 Score=26.40 Aligned_cols=12 Identities=33% Similarity=0.802 Sum_probs=6.5
Q ss_pred CCCCCCCCCcce
Q 019668 77 KCPRCESTNTKF 88 (337)
Q Consensus 77 ~CPRC~S~~Tkf 88 (337)
.||.|.+.+.+|
T Consensus 92 ~CP~Cgs~~~~i 103 (119)
T 2kdx_A 92 VCEKCHSKNVII 103 (119)
T ss_dssp CCSSSSSCCCEE
T ss_pred cCccccCCCcEE
Confidence 555555555544
Done!