Query 011169
Match_columns 492
No_of_seqs 145 out of 260
Neff 3.4
Searched_HMMs 29240
Date Mon Mar 25 22:13:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/011169.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/011169hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1tfi_A Transcriptional elongat 67.0 3.5 0.00012 31.0 2.7 38 100-137 8-48 (50)
2 3h0g_I DNA-directed RNA polyme 66.3 5.5 0.00019 34.1 4.1 45 92-138 65-112 (113)
3 1qyp_A RNA polymerase II; tran 66.0 3 0.0001 31.5 2.1 38 101-138 15-55 (57)
4 4f02_C Eukaryotic translation 56.1 3.3 0.00011 28.0 0.7 13 420-432 1-13 (27)
5 1twf_I B12.6, DNA-directed RNA 55.6 14 0.00049 31.9 4.8 47 93-141 66-115 (122)
6 2fiy_A Protein FDHE homolog; F 41.4 11 0.00038 37.6 2.2 35 101-136 222-263 (309)
7 1k82_A Formamidopyrimidine-DNA 40.0 9.6 0.00033 36.9 1.4 28 102-134 241-268 (268)
8 1ee8_A MUTM (FPG) protein; bet 39.7 11 0.00036 36.6 1.6 28 102-134 236-263 (266)
9 2xzf_A Formamidopyrimidine-DNA 38.6 11 0.00036 36.6 1.4 34 94-134 237-270 (271)
10 3u6p_A Formamidopyrimidine-DNA 37.2 10 0.00035 36.9 1.1 28 102-134 246-273 (273)
11 1pqv_S STP-alpha, transcriptio 36.3 15 0.00053 36.3 2.2 34 101-137 268-307 (309)
12 3po3_S Transcription elongatio 36.2 15 0.00052 33.8 2.0 35 100-137 136-176 (178)
13 1k3x_A Endonuclease VIII; hydr 34.1 12 0.00042 35.9 1.1 28 102-134 235-262 (262)
14 3qt1_I DNA-directed RNA polyme 26.4 14 0.00048 32.8 0.0 38 101-138 92-132 (133)
15 1gnf_A Transcription factor GA 25.4 42 0.0014 25.0 2.5 41 101-145 4-44 (46)
16 2jny_A Uncharacterized BCR; st 24.9 22 0.00074 28.4 0.9 31 99-136 8-38 (67)
17 3cw1_L U1 small nuclear ribonu 24.3 19 0.00064 29.7 0.4 17 125-141 2-18 (77)
18 2js4_A UPF0434 protein BB2007; 23.4 39 0.0013 27.0 2.1 31 99-136 6-36 (70)
19 2pk7_A Uncharacterized protein 23.0 30 0.001 27.6 1.3 30 100-136 7-36 (69)
20 2jr6_A UPF0434 protein NMA0874 21.2 29 0.001 27.6 0.9 30 100-136 7-36 (68)
21 3nw0_A Non-structural maintena 20.4 16 0.00055 34.8 -0.8 38 101-139 193-230 (238)
22 1pft_A TFIIB, PFTFIIBN; N-term 20.1 47 0.0016 24.0 1.8 32 100-137 4-35 (50)
No 1
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=66.97 E-value=3.5 Score=31.04 Aligned_cols=38 Identities=16% Similarity=0.681 Sum_probs=27.8
Q ss_pred CccCCCCCCCCCCceeeecccCCCCCc---cccccchhhhc
Q 011169 100 KIIPCPRCNSMDTKFCYFNNYNVNQPR---HFCKNCQRYWT 137 (492)
Q Consensus 100 ~~~~CPrc~s~~tkfcyynny~~~qpR---~~Ck~C~RywT 137 (492)
....||+|...+.-|--.+......|- |.|.+|..-|.
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 346899999877766666655555553 89999998885
No 2
>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=66.33 E-value=5.5 Score=34.08 Aligned_cols=45 Identities=18% Similarity=0.408 Sum_probs=27.2
Q ss_pred ccccCCCCCccCCCCCCCCCCceeeecccCCCCCc---cccccchhhhcc
Q 011169 92 EKAFKRPDKIIPCPRCNSMDTKFCYFNNYNVNQPR---HFCKNCQRYWTA 138 (492)
Q Consensus 92 ~~~~~~p~~~~~CPrc~s~~tkfcyynny~~~qpR---~~Ck~C~RywT~ 138 (492)
++.+++ ...+||+|...+..|-..+-.....|- |.|.+|...|..
T Consensus 65 ~~tlp~--~~~~Cp~C~~~~a~~~q~q~rsade~mt~fy~C~~C~~~w~~ 112 (113)
T 3h0g_I 65 DPTLPR--SDKECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGFAFEE 112 (113)
T ss_dssp CSSSCB--CCSCCSSSCCSCEEEECCCCSSCCCCCCCEEEESSSCCCCCC
T ss_pred cccCCC--cccCCCCCCCceEEEEEEecccCCCCCeeEEEcCCCCCEEec
Confidence 344533 337999999876443333322222222 889999999974
No 3
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=66.01 E-value=3 Score=31.46 Aligned_cols=38 Identities=21% Similarity=0.605 Sum_probs=24.8
Q ss_pred ccCCCCCCCCCCceeeecccCCCCC---ccccccchhhhcc
Q 011169 101 IIPCPRCNSMDTKFCYFNNYNVNQP---RHFCKNCQRYWTA 138 (492)
Q Consensus 101 ~~~CPrc~s~~tkfcyynny~~~qp---R~~Ck~C~RywT~ 138 (492)
.++||+|...+..|--.+-.....| .|.|.+|.--|..
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 4689999984433333333333334 3899999999975
No 4
>4f02_C Eukaryotic translation initiation factor 4 gamma; mRNA, eukaryotic initiation factors PAIP1 and PAIP2, translation-RNA complex; 2.00A {Homo sapiens}
Probab=56.11 E-value=3.3 Score=28.00 Aligned_cols=13 Identities=46% Similarity=0.940 Sum_probs=10.8
Q ss_pred ceeecCCCccccc
Q 011169 420 KTLRIDDPDEASR 432 (492)
Q Consensus 420 KTLRIDDP~EAAK 432 (492)
|||||.||+.-.|
T Consensus 1 k~irirdpnqggk 13 (27)
T 4f02_C 1 KTIRIRDPNQGGK 13 (27)
T ss_pred CcceecCccccch
Confidence 8999999987554
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=55.60 E-value=14 Score=31.89 Aligned_cols=47 Identities=19% Similarity=0.465 Sum_probs=31.0
Q ss_pred cccCCCCCccCCCCCCCCCCceeeecccCCCCCc---cccccchhhhccCCc
Q 011169 93 KAFKRPDKIIPCPRCNSMDTKFCYFNNYNVNQPR---HFCKNCQRYWTAGGT 141 (492)
Q Consensus 93 ~~~~~p~~~~~CPrc~s~~tkfcyynny~~~qpR---~~Ck~C~RywT~GG~ 141 (492)
+.+++- ...||+|...+.-|-..+-.....|- |.|.+|...|.....
T Consensus 66 ~t~p~t--~~~Cp~C~~~~a~~~q~q~rsade~~t~fy~C~~C~~~w~~nn~ 115 (122)
T 1twf_I 66 PTLPRS--DRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQK 115 (122)
T ss_dssp TTSCCC--CCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECCTT
T ss_pred cccccc--CCCCCCCCCCEEEEEEecCccCCCCceEEEEeCCCCCEeccCCh
Confidence 444443 36899999876555444444443343 899999999988643
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=41.43 E-value=11 Score=37.55 Aligned_cols=35 Identities=23% Similarity=0.564 Sum_probs=20.7
Q ss_pred ccCCCCCCCCCCceeeecccC-------CCCCccccccchhhh
Q 011169 101 IIPCPRCNSMDTKFCYFNNYN-------VNQPRHFCKNCQRYW 136 (492)
Q Consensus 101 ~~~CPrc~s~~tkfcyynny~-------~~qpR~~Ck~C~Ryw 136 (492)
...||.|... .++-||.--. ...--+.|..|+.|+
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 4567777776 3566654333 112237788888777
No 7
>1k82_A Formamidopyrimidine-DNA glycosylase; protein-DNA complex, DNA repair, beta sandwich, zinc finger, helix two-turns helix, hydrolase/DNA complex; HET: PED; 2.10A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8
Probab=40.01 E-value=9.6 Score=36.89 Aligned_cols=28 Identities=21% Similarity=0.618 Sum_probs=20.9
Q ss_pred cCCCCCCCCCCceeeecccCCCCCccccccchh
Q 011169 102 IPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQR 134 (492)
Q Consensus 102 ~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~R 134 (492)
.+||||...=.|.-+ . .+.-|||..||+
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 489999987666544 2 355599999995
No 8
>1ee8_A MUTM (FPG) protein; beta sandwich, zinc finger, helix two-turns helix, riken STR genomics/proteomics initiative, RSGI, structural genomics; 1.90A {Thermus thermophilus} SCOP: a.156.1.2 b.113.1.1 g.39.1.8
Probab=39.65 E-value=11 Score=36.64 Aligned_cols=28 Identities=32% Similarity=0.845 Sum_probs=20.8
Q ss_pred cCCCCCCCCCCceeeecccCCCCCccccccchh
Q 011169 102 IPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQR 134 (492)
Q Consensus 102 ~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~R 134 (492)
.+||||...=.|.-+ . .+.-|||..||+
T Consensus 236 ~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 263 (266)
T 1ee8_A 236 LPCPACGRPVERRVV-A----GRGTHFCPTCQG 263 (266)
T ss_dssp SBCTTTCCBCEEEES-S----SCEEEECTTTTT
T ss_pred CCCCCCCCEeeEEEE-C----CCceEECCCCCC
Confidence 489999887665443 2 355699999997
No 9
>2xzf_A Formamidopyrimidine-DNA glycosylase; hydrolase-DNA complex; HET: VET; 1.80A {Lactococcus lactis subsp} PDB: 1pm5_A* 1xc8_A* 1pji_A* 2xzu_A* 3c58_A* 1tdz_A* 1nnj_A 1kfv_A 1pjj_A*
Probab=38.60 E-value=11 Score=36.62 Aligned_cols=34 Identities=26% Similarity=0.638 Sum_probs=23.4
Q ss_pred ccCCCCCccCCCCCCCCCCceeeecccCCCCCccccccchh
Q 011169 94 AFKRPDKIIPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQR 134 (492)
Q Consensus 94 ~~~~p~~~~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~R 134 (492)
+-.+-+ .+||||...=.|.-+ . .+.-|||..||+
T Consensus 237 VygR~G--~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 270 (271)
T 2xzf_A 237 VYGKTG--EKCSRCGAEIQKIKV-A----GRGTHFCPVCQQ 270 (271)
T ss_dssp STTCTT--SBCTTTCCBCEEEEE-T----TEEEEECTTTSC
T ss_pred EccCCC--CCCCCCCCEeeEEEE-C----CCceEECCCCCC
Confidence 333444 499999987666444 2 355599999996
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=37.20 E-value=10 Score=36.89 Aligned_cols=28 Identities=36% Similarity=0.814 Sum_probs=20.4
Q ss_pred cCCCCCCCCCCceeeecccCCCCCccccccchh
Q 011169 102 IPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQR 134 (492)
Q Consensus 102 ~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~R 134 (492)
.+||||...=.|.-+ . .+.-|||..||+
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 499999877655443 2 355599999995
No 11
>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=36.27 E-value=15 Score=36.27 Aligned_cols=34 Identities=18% Similarity=0.654 Sum_probs=22.1
Q ss_pred ccCCCCCCCCCCceeeecccC---CCCC---ccccccchhhhc
Q 011169 101 IIPCPRCNSMDTKFCYFNNYN---VNQP---RHFCKNCQRYWT 137 (492)
Q Consensus 101 ~~~CPrc~s~~tkfcyynny~---~~qp---R~~Ck~C~RywT 137 (492)
...||+|...+ |||...+ ...| -|.|.+|..-|.
T Consensus 268 ~~~C~~C~~~~---~~~~q~Q~rsaDe~~t~f~~C~~Cg~~w~ 307 (309)
T 1pqv_S 268 RFTCGKCKEKK---VSYYQLQTRSADEPLTTFCTCEACGNRWK 307 (309)
T ss_pred cccCCCCCCCe---eEEEEeecccCCCCCcEEEEeCCCCCcee
Confidence 46899999544 4443332 2222 289999999885
No 12
>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=36.17 E-value=15 Score=33.84 Aligned_cols=35 Identities=17% Similarity=0.598 Sum_probs=22.8
Q ss_pred CccCCCCCCCCCCceeeecccCC---CCC---ccccccchhhhc
Q 011169 100 KIIPCPRCNSMDTKFCYFNNYNV---NQP---RHFCKNCQRYWT 137 (492)
Q Consensus 100 ~~~~CPrc~s~~tkfcyynny~~---~qp---R~~Ck~C~RywT 137 (492)
....||+|...+ |||...+. .-| -|.|..|..-|.
T Consensus 136 ~~~~Cp~C~~~~---a~~~q~Q~rsaDE~mt~f~~C~~C~~~w~ 176 (178)
T 3po3_S 136 DRFTCGKCKEKK---VSYYQLQTRSAAAPLTTFCTCEACGNRWK 176 (178)
T ss_dssp SSSCCSSSCCSC---EECCCCCCSCTTSCCCCCEEETTTCCEEC
T ss_pred CCcCCCCCCCCc---eEEEEeecccCCCCCcEEEEcCCCCCeec
Confidence 456999999655 44433322 122 388999999885
No 13
>1k3x_A Endonuclease VIII; hydrolase/DNA, hydrolase-DNA complex; HET: BRU PED; 1.25A {Escherichia coli} SCOP: a.156.1.2 b.113.1.1 g.39.1.8 PDB: 1k3w_A* 1q39_A 2ea0_A* 2oq4_A* 1q3c_A 2opf_A* 1q3b_A*
Probab=34.14 E-value=12 Score=35.95 Aligned_cols=28 Identities=36% Similarity=0.821 Sum_probs=20.2
Q ss_pred cCCCCCCCCCCceeeecccCCCCCccccccchh
Q 011169 102 IPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQR 134 (492)
Q Consensus 102 ~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~R 134 (492)
.+||||...=.|.-+ . .+.-|||..||+
T Consensus 235 ~pC~~CG~~I~~~~~-~----gR~t~~CP~CQ~ 262 (262)
T 1k3x_A 235 EPCERCGSIIEKTTL-S----SRPFYWCPGCQH 262 (262)
T ss_dssp SBCTTTCCBCEEEEE-T----TEEEEECTTTCC
T ss_pred CCCCCCCCEeEEEEE-C----CCCeEECCCCCC
Confidence 489999887655433 2 355599999995
No 14
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=26.35 E-value=14 Score=32.81 Aligned_cols=38 Identities=26% Similarity=0.644 Sum_probs=0.0
Q ss_pred ccCCCCCCCCCCceeeecccCCCCC---ccccccchhhhcc
Q 011169 101 IIPCPRCNSMDTKFCYFNNYNVNQP---RHFCKNCQRYWTA 138 (492)
Q Consensus 101 ~~~CPrc~s~~tkfcyynny~~~qp---R~~Ck~C~RywT~ 138 (492)
...||+|...+.-|-..+-.....| -|.|..|.--|..
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 4799999977654333333322222 2789999999975
No 15
>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=25.36 E-value=42 Score=24.99 Aligned_cols=41 Identities=20% Similarity=0.488 Sum_probs=28.9
Q ss_pred ccCCCCCCCCCCceeeecccCCCCCccccccchhhhccCCccccc
Q 011169 101 IIPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQRYWTAGGTMRNV 145 (492)
Q Consensus 101 ~~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~RywT~GG~lRnv 145 (492)
...|-.|...+|-. +-.- .....+|-+|.-||-..|.+|-+
T Consensus 4 ~~~C~~C~tt~Tp~--WR~g--p~G~~LCNaCGl~~k~~~~~RP~ 44 (46)
T 1gnf_A 4 ARECVNCGATATPL--WRRD--RTGHYLCNACGLYHKMNGQNRPL 44 (46)
T ss_dssp SCCCTTTCCCCCSS--CBCC--TTCCCBCSHHHHHHHHTCSCCCC
T ss_pred CCCCCCcCCCCCCc--CccC--CCCCccchHHHHHHHHcCCCCCC
Confidence 45799998887652 1111 12238999999999999998743
No 16
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1
Probab=24.90 E-value=22 Score=28.37 Aligned_cols=31 Identities=10% Similarity=0.222 Sum_probs=20.8
Q ss_pred CCccCCCCCCCCCCceeeecccCCCCCccccccchhhh
Q 011169 99 DKIIPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQRYW 136 (492)
Q Consensus 99 ~~~~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~Ryw 136 (492)
-+++.||.|... .-| ....-...|+.|++-+
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 378999999983 222 2335567899887644
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=24.32 E-value=19 Score=29.70 Aligned_cols=17 Identities=29% Similarity=0.931 Sum_probs=14.9
Q ss_pred CccccccchhhhccCCc
Q 011169 125 PRHFCKNCQRYWTAGGT 141 (492)
Q Consensus 125 pR~~Ck~C~RywT~GG~ 141 (492)
|||||+-|..|.|+.-.
T Consensus 2 PkYyCdYCd~~lt~Ds~ 18 (77)
T 3cw1_L 2 PKFYCDYCDTYLTHDSP 18 (77)
T ss_pred CCcccccCCceecCCCH
Confidence 89999999999987754
No 18
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics consortium, beta, PSI-2, protein structure initiative; NMR {Bordetella bronchiseptica RB50}
Probab=23.40 E-value=39 Score=27.01 Aligned_cols=31 Identities=19% Similarity=0.465 Sum_probs=21.1
Q ss_pred CCccCCCCCCCCCCceeeecccCCCCCccccccchhhh
Q 011169 99 DKIIPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQRYW 136 (492)
Q Consensus 99 ~~~~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~Ryw 136 (492)
-+++.||.|... .-| ........|++|++-+
T Consensus 6 L~iL~CP~ck~~---L~~----~~~~~~LiC~~cg~~Y 36 (70)
T 2js4_A 6 LDILVCPVCKGR---LEF----QRAQAELVCNADRLAF 36 (70)
T ss_dssp CCCCBCTTTCCB---EEE----ETTTTEEEETTTTEEE
T ss_pred hhheECCCCCCc---CEE----eCCCCEEEcCCCCcee
Confidence 368999999983 333 2335668899987644
No 19
>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=23.03 E-value=30 Score=27.63 Aligned_cols=30 Identities=17% Similarity=0.456 Sum_probs=20.3
Q ss_pred CccCCCCCCCCCCceeeecccCCCCCccccccchhhh
Q 011169 100 KIIPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQRYW 136 (492)
Q Consensus 100 ~~~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~Ryw 136 (492)
+++.||.|... .-| ....-...|++|++-+
T Consensus 7 eiL~CP~ck~~---L~~----~~~~~~LiC~~cg~~Y 36 (69)
T 2pk7_A 7 DILACPICKGP---LKL----SADKTELISKGAGLAY 36 (69)
T ss_dssp GTCCCTTTCCC---CEE----CTTSSEEEETTTTEEE
T ss_pred hheeCCCCCCc---CeE----eCCCCEEEcCCCCcEe
Confidence 67899999964 222 2335668899887644
No 20
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}
Probab=21.19 E-value=29 Score=27.60 Aligned_cols=30 Identities=13% Similarity=0.482 Sum_probs=20.0
Q ss_pred CccCCCCCCCCCCceeeecccCCCCCccccccchhhh
Q 011169 100 KIIPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQRYW 136 (492)
Q Consensus 100 ~~~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~Ryw 136 (492)
+++.||.|.. ..-| ....-...|++|++-+
T Consensus 7 ~iL~CP~ck~---~L~~----~~~~~~LiC~~cg~~Y 36 (68)
T 2jr6_A 7 DILVCPVTKG---RLEY----HQDKQELWSRQAKLAY 36 (68)
T ss_dssp CCCBCSSSCC---BCEE----ETTTTEEEETTTTEEE
T ss_pred hheECCCCCC---cCeE----eCCCCEEEcCCCCcEe
Confidence 6899999996 3333 2234667888887544
No 21
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Probab=20.44 E-value=16 Score=34.84 Aligned_cols=38 Identities=18% Similarity=0.506 Sum_probs=29.0
Q ss_pred ccCCCCCCCCCCceeeecccCCCCCccccccchhhhccC
Q 011169 101 IIPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQRYWTAG 139 (492)
Q Consensus 101 ~~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~RywT~G 139 (492)
...|+.|...=+..|+++=+ ..+....|..|++.|+..
T Consensus 193 g~~C~~C~~~~H~~C~~~~~-~~~~~~~CP~C~~~W~~~ 230 (238)
T 3nw0_A 193 GQSCETCGIRMHLPCVAKYF-QSNAEPRCPHCNDYWPHE 230 (238)
T ss_dssp CEECSSSCCEECHHHHHHHT-TTCSSCBCTTTCCBCCSC
T ss_pred CcccCccChHHHHHHHHHHH-HhCCCCCCCCCCCCCCCC
Confidence 35788888888888886544 346677899999999875
No 22
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=20.14 E-value=47 Score=24.01 Aligned_cols=32 Identities=25% Similarity=0.608 Sum_probs=21.2
Q ss_pred CccCCCCCCCCCCceeeecccCCCCCccccccchhhhc
Q 011169 100 KIIPCPRCNSMDTKFCYFNNYNVNQPRHFCKNCQRYWT 137 (492)
Q Consensus 100 ~~~~CPrc~s~~tkfcyynny~~~qpR~~Ck~C~RywT 137 (492)
..+.||.|.+.+ +-| ...+-...|..|+.-+.
T Consensus 4 ~~~~CP~C~~~~--l~~----d~~~gelvC~~CG~v~~ 35 (50)
T 1pft_A 4 KQKVCPACESAE--LIY----DPERGEIVCAKCGYVIE 35 (50)
T ss_dssp SCCSCTTTSCCC--EEE----ETTTTEEEESSSCCBCC
T ss_pred ccEeCcCCCCcc--eEE----cCCCCeEECcccCCccc
Confidence 467899998743 222 22355689999976554
Done!