Query 043493
Match_columns 254
No_of_seqs 156 out of 215
Neff 2.7
Searched_HMMs 29240
Date Mon Mar 25 09:17:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043493.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/043493hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1qyp_A RNA polymerase II; tran 86.3 0.47 1.6E-05 32.6 2.7 38 28-65 15-55 (57)
2 1tfi_A Transcriptional elongat 86.2 0.6 2.1E-05 32.2 3.2 38 27-64 8-48 (50)
3 3h0g_I DNA-directed RNA polyme 79.5 1.6 5.4E-05 33.9 3.6 38 28-65 72-112 (113)
4 1twf_I B12.6, DNA-directed RNA 73.8 3.5 0.00012 32.3 4.1 39 28-66 72-113 (122)
5 2fiy_A Protein FDHE homolog; F 71.4 1.8 6.2E-05 39.1 2.2 36 28-64 222-264 (309)
6 3po3_S Transcription elongatio 68.6 3.8 0.00013 34.2 3.5 39 26-64 135-176 (178)
7 3dfx_A Trans-acting T-cell-spe 64.5 6.2 0.00021 28.6 3.4 46 25-74 4-49 (63)
8 4gat_A Nitrogen regulatory pro 62.0 7.3 0.00025 28.4 3.5 46 25-74 6-51 (66)
9 1pqv_S STP-alpha, transcriptio 61.2 5.5 0.00019 35.6 3.2 38 27-64 267-307 (309)
10 3qt1_I DNA-directed RNA polyme 57.2 2.2 7.6E-05 34.5 0.0 38 28-65 92-132 (133)
11 1gnf_A Transcription factor GA 54.3 7.7 0.00026 26.5 2.3 42 27-72 3-44 (46)
12 1wii_A Hypothetical UPF0222 pr 47.8 17 0.00058 27.6 3.6 40 24-64 19-58 (85)
13 3nw0_A Non-structural maintena 45.8 3.2 0.00011 35.8 -0.8 38 28-66 193-230 (238)
14 3cw1_L U1 small nuclear ribonu 45.8 5.6 0.00019 30.0 0.6 17 52-68 2-18 (77)
15 1pft_A TFIIB, PFTFIIBN; N-term 42.6 17 0.00059 23.8 2.6 34 26-65 3-36 (50)
16 2gmg_A Hypothetical protein PF 36.3 18 0.00061 28.8 2.2 14 27-40 83-96 (105)
17 2jny_A Uncharacterized BCR; st 34.6 14 0.00049 26.8 1.3 33 25-64 7-39 (67)
18 2js4_A UPF0434 protein BB2007; 33.4 38 0.0013 24.6 3.4 33 25-64 5-37 (70)
19 2pk7_A Uncharacterized protein 33.3 18 0.00062 26.3 1.6 32 26-64 6-37 (69)
20 4hc9_A Trans-acting T-cell-spe 31.7 31 0.0011 27.1 2.9 46 25-74 56-101 (115)
21 2jr6_A UPF0434 protein NMA0874 31.0 18 0.00062 26.2 1.3 32 26-64 6-37 (68)
22 2k2d_A Ring finger and CHY zin 31.0 18 0.00063 26.8 1.4 11 30-40 57-67 (79)
23 2kpi_A Uncharacterized protein 29.1 47 0.0016 23.0 3.1 32 23-63 5-38 (56)
24 1y02_A CARP2, FYVE-ring finger 28.7 20 0.0007 28.4 1.4 39 21-68 12-50 (120)
25 2zjr_Z 50S ribosomal protein L 28.4 34 0.0012 24.3 2.4 28 23-62 25-52 (60)
26 1wd2_A Ariadne-1 protein homol 27.3 46 0.0016 23.2 2.8 43 26-68 4-49 (60)
27 2kae_A GATA-type transcription 26.8 21 0.00072 26.4 1.0 47 25-74 5-51 (71)
28 1nui_A DNA primase/helicase; z 25.2 33 0.0011 28.6 2.1 29 28-62 14-42 (255)
29 1x4u_A Zinc finger, FYVE domai 23.6 53 0.0018 23.7 2.7 42 23-73 9-50 (84)
30 2hf1_A Tetraacyldisaccharide-1 22.8 27 0.00094 25.2 1.0 30 27-63 7-36 (68)
31 2kdx_A HYPA, hydrogenase/ureas 22.1 46 0.0016 25.3 2.2 14 28-41 89-103 (119)
32 2vut_I AREA, nitrogen regulato 20.3 31 0.0011 23.1 0.8 40 29-72 2-41 (43)
No 1
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=86.33 E-value=0.47 Score=32.56 Aligned_cols=38 Identities=18% Similarity=0.588 Sum_probs=26.4
Q ss_pred CCCCCCCcCCCceeeeeccCCCCCC---cccchhccccccc
Q 043493 28 SLPCPRCESTSTKFCYYNNYNLSQP---RHFCKSCRRYWTQ 65 (254)
Q Consensus 28 ~~~CPRC~S~nTKFcYyNNy~~~QP---R~fCk~CrRYWT~ 65 (254)
..+||+|...+..|--.+-.....| .|.|..|.--|..
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 5789999985444444444444445 3999999999975
No 2
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=86.24 E-value=0.6 Score=32.16 Aligned_cols=38 Identities=16% Similarity=0.628 Sum_probs=29.5
Q ss_pred CCCCCCCCcCCCceeeeeccCCCCCCc---ccchhcccccc
Q 043493 27 ESLPCPRCESTSTKFCYYNNYNLSQPR---HFCKSCRRYWT 64 (254)
Q Consensus 27 ~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT 64 (254)
...+||+|...+..|--.+..+...|- |.|.+|..-|.
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 456899999988777666666665564 89999998885
No 3
>3h0g_I DNA-directed RNA polymerases I, II, and III subunit rpabc5; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe}
Probab=79.45 E-value=1.6 Score=33.89 Aligned_cols=38 Identities=18% Similarity=0.404 Sum_probs=25.5
Q ss_pred CCCCCCCcCCCceeeeeccCCCCCCc---ccchhccccccc
Q 043493 28 SLPCPRCESTSTKFCYYNNYNLSQPR---HFCKSCRRYWTQ 65 (254)
Q Consensus 28 ~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT~ 65 (254)
..+||+|...+..|-..+-.+...|- |.|..|..-|..
T Consensus 72 ~~~Cp~C~~~~a~~~q~q~rsade~mt~fy~C~~C~~~w~~ 112 (113)
T 3h0g_I 72 DKECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGFAFEE 112 (113)
T ss_dssp CSCCSSSCCSCEEEECCCCSSCCCCCCCEEEESSSCCCCCC
T ss_pred ccCCCCCCCceEEEEEEecccCCCCCeeEEEcCCCCCEEec
Confidence 37999999877554333333333332 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=73.77 E-value=3.5 Score=32.34 Aligned_cols=39 Identities=23% Similarity=0.525 Sum_probs=28.7
Q ss_pred CCCCCCCcCCCceeeeeccCCCCCCc---ccchhcccccccC
Q 043493 28 SLPCPRCESTSTKFCYYNNYNLSQPR---HFCKSCRRYWTQG 66 (254)
Q Consensus 28 ~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT~G 66 (254)
...||+|...+.-|-..+-.+-..|- |.|..|.--|...
T Consensus 72 ~~~Cp~C~~~~a~~~q~q~rsade~~t~fy~C~~C~~~w~~n 113 (122)
T 1twf_I 72 DRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSD 113 (122)
T ss_dssp CCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECC
T ss_pred CCCCCCCCCCEEEEEEecCccCCCCceEEEEeCCCCCEeccC
Confidence 46899999876665555555444443 8999999999875
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=71.42 E-value=1.8 Score=39.13 Aligned_cols=36 Identities=22% Similarity=0.592 Sum_probs=25.9
Q ss_pred CCCCCCCcCCCceeeeeccCC-------CCCCcccchhcccccc
Q 043493 28 SLPCPRCESTSTKFCYYNNYN-------LSQPRHFCKSCRRYWT 64 (254)
Q Consensus 28 ~~~CPRC~S~nTKFcYyNNy~-------~~QPR~fCk~CrRYWT 64 (254)
..+||.|.+. .++-|+.--. ...--+.|..|+.|+-
T Consensus 222 R~~C~~Cg~~-~~l~y~~~e~~~~~~~~~~~r~e~C~~C~~YlK 264 (309)
T 2fiy_A 222 RIKCSHCEES-KHLAYLSLEHDGQPAEKAVLRAETCPSCQGYLK 264 (309)
T ss_dssp TTSCSSSCCC-SCCEEECCCC-CCCSTTCSEEEEEETTTTEEEE
T ss_pred CcCCcCCCCC-CCeeEEEecCccccCCCcceEEEEcccccchHh
Confidence 4589999998 4678875544 1122389999999983
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=68.57 E-value=3.8 Score=34.23 Aligned_cols=39 Identities=18% Similarity=0.631 Sum_probs=24.6
Q ss_pred CCCCCCCCCcCCCceeeeeccCCCCCC---cccchhcccccc
Q 043493 26 TESLPCPRCESTSTKFCYYNNYNLSQP---RHFCKSCRRYWT 64 (254)
Q Consensus 26 ~~~~~CPRC~S~nTKFcYyNNy~~~QP---R~fCk~CrRYWT 64 (254)
.....||+|...+..|--.+-.+-..| -|.|..|..-|.
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 346799999976654322222222222 388999999985
No 7
>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=64.45 E-value=6.2 Score=28.63 Aligned_cols=46 Identities=17% Similarity=0.513 Sum_probs=33.2
Q ss_pred CCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccccCcccccccC
Q 043493 25 VTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQGGTLRNIPV 74 (254)
Q Consensus 25 e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPV 74 (254)
+.....|-.|...+|-. .-.- .....+|-+|.-||-..+..|-+.+
T Consensus 4 ~~~~~~C~~C~tt~Tp~--WR~g--p~G~~LCNACGl~~~~~~~~RP~~~ 49 (63)
T 3dfx_A 4 RRAGTSCANCQTTTTTL--WRRN--ANGDPVCNACGLYYKLHNINRPLTM 49 (63)
T ss_dssp CCTTCCCTTTCCSCCSS--CCCC--TTSCCCCHHHHHHHHHHSSCCCGGG
T ss_pred CCCCCcCCCcCCCCCCc--cCCC--CCCCchhhHHHHHHHHcCCCCCcCc
Confidence 34566899999987752 1111 1223899999999999999887765
No 8
>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=61.97 E-value=7.3 Score=28.39 Aligned_cols=46 Identities=17% Similarity=0.510 Sum_probs=33.1
Q ss_pred CCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccccCcccccccC
Q 043493 25 VTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQGGTLRNIPV 74 (254)
Q Consensus 25 e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPV 74 (254)
..+...|-.|...+|-. .-. ...-+ .+|-+|.-||-.-+.+|-+..
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 35678999999988752 111 11222 899999999999999887754
No 9
>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=61.16 E-value=5.5 Score=35.63 Aligned_cols=38 Identities=16% Similarity=0.646 Sum_probs=24.3
Q ss_pred CCCCCCCCcCCCceeeeeccCCCCCCc---ccchhcccccc
Q 043493 27 ESLPCPRCESTSTKFCYYNNYNLSQPR---HFCKSCRRYWT 64 (254)
Q Consensus 27 ~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRYWT 64 (254)
....||+|...+..|-=.+..+-..|- |.|..|..-|.
T Consensus 267 ~~~~C~~C~~~~~~~~q~Q~rsaDe~~t~f~~C~~Cg~~w~ 307 (309)
T 1pqv_S 267 DRFTCGKCKEKKVSYYQLQTRSADEPLTTFCTCEACGNRWK 307 (309)
T ss_pred ccccCCCCCCCeeEEEEeecccCCCCCcEEEEeCCCCCcee
Confidence 356899999665544222333333332 89999999885
No 10
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=57.23 E-value=2.2 Score=34.46 Aligned_cols=38 Identities=24% Similarity=0.613 Sum_probs=0.0
Q ss_pred CCCCCCCcCCCceeeeeccCCCCCC---cccchhccccccc
Q 043493 28 SLPCPRCESTSTKFCYYNNYNLSQP---RHFCKSCRRYWTQ 65 (254)
Q Consensus 28 ~~~CPRC~S~nTKFcYyNNy~~~QP---R~fCk~CrRYWT~ 65 (254)
..+||+|...+..|-..+-.+...| -|.|..|.--|..
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 4799999987665433333333333 2889999999975
No 11
>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=54.31 E-value=7.7 Score=26.50 Aligned_cols=42 Identities=24% Similarity=0.558 Sum_probs=30.2
Q ss_pred CCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccccCcccccc
Q 043493 27 ESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQGGTLRNI 72 (254)
Q Consensus 27 ~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnV 72 (254)
+...|..|...+|-. +..- .....+|-+|.-||-..|..|-+
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 567899999988752 1111 12238999999999999988744
No 12
>1wii_A Hypothetical UPF0222 protein MGC4549; domain of unknown function, zinc finger, metal-binding protein, structural genomics; NMR {Mus musculus} SCOP: g.41.3.4
Probab=47.77 E-value=17 Score=27.60 Aligned_cols=40 Identities=13% Similarity=0.314 Sum_probs=29.4
Q ss_pred CCCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccc
Q 043493 24 KVTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWT 64 (254)
Q Consensus 24 ~e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT 64 (254)
+-+..-.||.|+..++=-|=..- ...-...-|+.|...+.
T Consensus 19 ~L~t~F~CPfCnh~~sV~vkidk-~~~~g~l~C~~Cg~~~~ 58 (85)
T 1wii_A 19 TLETQFTCPFCNHEKSCDVKMDR-ARNTGVISCTVCLEEFQ 58 (85)
T ss_dssp CCSSCCCCTTTCCSSCEEEEEET-TTTEEEEEESSSCCEEE
T ss_pred CCCCeEcCCCCCCCCeEEEEEEc-cCCEEEEEcccCCCeEE
Confidence 44567799999999877666653 23456788999987664
No 13
>3nw0_A Non-structural maintenance of chromosomes element homolog; E3 ligase, Zn, metal binding protein; 2.92A {Homo sapiens}
Probab=45.82 E-value=3.2 Score=35.82 Aligned_cols=38 Identities=21% Similarity=0.581 Sum_probs=29.6
Q ss_pred CCCCCCCcCCCceeeeeccCCCCCCcccchhcccccccC
Q 043493 28 SLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQG 66 (254)
Q Consensus 28 ~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~G 66 (254)
...|+.|...=+..|+.+=. ..+....|..|++.|+..
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 46788888888888875543 456678999999999875
No 14
>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=45.81 E-value=5.6 Score=30.00 Aligned_cols=17 Identities=29% Similarity=0.936 Sum_probs=15.1
Q ss_pred CcccchhcccccccCcc
Q 043493 52 PRHFCKSCRRYWTQGGT 68 (254)
Q Consensus 52 PR~fCk~CrRYWT~GGt 68 (254)
|||||.-|..|.|+.-.
T Consensus 2 PkYyCdYCd~~lt~Ds~ 18 (77)
T 3cw1_L 2 PKFYCDYCDTYLTHDSP 18 (77)
T ss_pred CCcccccCCceecCCCH
Confidence 89999999999988744
No 15
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=42.64 E-value=17 Score=23.81 Aligned_cols=34 Identities=21% Similarity=0.522 Sum_probs=22.7
Q ss_pred CCCCCCCCCcCCCceeeeeccCCCCCCcccchhccccccc
Q 043493 26 TESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQ 65 (254)
Q Consensus 26 ~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~ 65 (254)
...+.||.|.+.+-.| ...+-...|..|..-+..
T Consensus 3 ~~~~~CP~C~~~~l~~------d~~~gelvC~~CG~v~~e 36 (50)
T 1pft_A 3 NKQKVCPACESAELIY------DPERGEIVCAKCGYVIEE 36 (50)
T ss_dssp SSCCSCTTTSCCCEEE------ETTTTEEEESSSCCBCCC
T ss_pred CccEeCcCCCCcceEE------cCCCCeEECcccCCcccc
Confidence 3567999998854333 223456899999776543
No 16
>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=36.33 E-value=18 Score=28.76 Aligned_cols=14 Identities=29% Similarity=0.681 Sum_probs=9.7
Q ss_pred CCCCCCCCcCCCce
Q 043493 27 ESLPCPRCESTSTK 40 (254)
Q Consensus 27 ~~~~CPRC~S~nTK 40 (254)
.+-.||+|.|.+..
T Consensus 83 kPsrCP~CkSe~Ie 96 (105)
T 2gmg_A 83 IPSRCPKCKSEWIE 96 (105)
T ss_dssp CCSSCSSSCCCCBC
T ss_pred CCCCCcCCCCCccC
Confidence 44678888887655
No 17
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1
Probab=34.62 E-value=14 Score=26.81 Aligned_cols=33 Identities=18% Similarity=0.301 Sum_probs=22.6
Q ss_pred CCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccc
Q 043493 25 VTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWT 64 (254)
Q Consensus 25 e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT 64 (254)
--+.+.||.|... .-|- ...-...|+.|++-+-
T Consensus 7 LLeiL~CP~ck~~---L~~~----~~~g~LvC~~c~~~YP 39 (67)
T 2jny_A 7 LLEVLACPKDKGP---LRYL----ESEQLLVNERLNLAYR 39 (67)
T ss_dssp GTCCCBCTTTCCB---CEEE----TTTTEEEETTTTEEEE
T ss_pred HHHHhCCCCCCCc---CeEe----CCCCEEEcCCCCcccc
Confidence 3478899999983 3332 2355688999987653
No 18
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics consortium, beta, PSI-2, protein structure initiative; NMR {Bordetella bronchiseptica RB50}
Probab=33.36 E-value=38 Score=24.60 Aligned_cols=33 Identities=21% Similarity=0.513 Sum_probs=22.7
Q ss_pred CCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccc
Q 043493 25 VTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWT 64 (254)
Q Consensus 25 e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT 64 (254)
--+.+.||.|... .-|- ...-...|+.|++-+-
T Consensus 5 LL~iL~CP~ck~~---L~~~----~~~~~LiC~~cg~~YP 37 (70)
T 2js4_A 5 LLDILVCPVCKGR---LEFQ----RAQAELVCNADRLAFP 37 (70)
T ss_dssp CCCCCBCTTTCCB---EEEE----TTTTEEEETTTTEEEE
T ss_pred HhhheECCCCCCc---CEEe----CCCCEEEcCCCCceec
Confidence 3468899999983 3332 2356688999987654
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=33.25 E-value=18 Score=26.29 Aligned_cols=32 Identities=16% Similarity=0.390 Sum_probs=21.6
Q ss_pred CCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccc
Q 043493 26 TESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWT 64 (254)
Q Consensus 26 ~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT 64 (254)
-+.+.||.|... .-| ....-...|+.|++-+-
T Consensus 6 LeiL~CP~ck~~---L~~----~~~~~~LiC~~cg~~YP 37 (69)
T 2pk7_A 6 LDILACPICKGP---LKL----SADKTELISKGAGLAYP 37 (69)
T ss_dssp GGTCCCTTTCCC---CEE----CTTSSEEEETTTTEEEE
T ss_pred HhheeCCCCCCc---CeE----eCCCCEEEcCCCCcEec
Confidence 367899999964 222 23356688999987553
No 20
>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=31.71 E-value=31 Score=27.06 Aligned_cols=46 Identities=20% Similarity=0.551 Sum_probs=34.2
Q ss_pred CCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccccCcccccccC
Q 043493 25 VTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQGGTLRNIPV 74 (254)
Q Consensus 25 e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPV 74 (254)
......|-.|...+|-- ... . ..-+.+|-+|.-||..-+..|-+.+
T Consensus 56 ~~~~~~C~~C~t~~tp~--WRr-~-~~g~~lCNaCgl~~~~~~~~rp~~~ 101 (115)
T 4hc9_A 56 RRAGTSCANCQTTTTTL--WRR-N-ANGDPVCNACGLYYKLHNINRPLTM 101 (115)
T ss_dssp CCTTCCCTTTCCSCCSS--CEE-C-TTSCEECHHHHHHHHHHSSCCCGGG
T ss_pred ccccccCCCcCCCCcce--eEE-C-CCCCCcchHHHHHHHHhCCCCCccc
Confidence 34578999999988742 111 1 2236899999999999999888776
No 21
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}
Probab=31.00 E-value=18 Score=26.19 Aligned_cols=32 Identities=13% Similarity=0.372 Sum_probs=21.8
Q ss_pred CCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccc
Q 043493 26 TESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWT 64 (254)
Q Consensus 26 ~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT 64 (254)
-+.+.||.|.. ..-|- ...-...|++|++-+-
T Consensus 6 L~iL~CP~ck~---~L~~~----~~~~~LiC~~cg~~YP 37 (68)
T 2jr6_A 6 LDILVCPVTKG---RLEYH----QDKQELWSRQAKLAYP 37 (68)
T ss_dssp SCCCBCSSSCC---BCEEE----TTTTEEEETTTTEEEE
T ss_pred hhheECCCCCC---cCeEe----CCCCEEEcCCCCcEec
Confidence 46889999996 33332 2346688999987553
No 22
>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=30.95 E-value=18 Score=26.76 Aligned_cols=11 Identities=45% Similarity=0.797 Sum_probs=10.4
Q ss_pred CCCCCcCCCce
Q 043493 30 PCPRCESTSTK 40 (254)
Q Consensus 30 ~CPRC~S~nTK 40 (254)
+||.|.|.||+
T Consensus 57 kC~~C~SyNTr 67 (79)
T 2k2d_A 57 KCKICESYNTA 67 (79)
T ss_dssp CCTTTSCCCEE
T ss_pred cCcCCCCcCeE
Confidence 89999999998
No 23
>2kpi_A Uncharacterized protein SCO3027; zinc finger, PSI-2, NESG, all beta, structural genomics, protein structure initiative; NMR {Streptomyces coelicolor}
Probab=29.09 E-value=47 Score=23.04 Aligned_cols=32 Identities=22% Similarity=0.608 Sum_probs=22.1
Q ss_pred CCCCCCCCCCCCcCCCceeeeeccCCCCCCcccch--hccccc
Q 043493 23 PKVTESLPCPRCESTSTKFCYYNNYNLSQPRHFCK--SCRRYW 63 (254)
Q Consensus 23 ~~e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk--~CrRYW 63 (254)
+.--+.+.||.|... .- |+. ....|+ +|++-+
T Consensus 5 ~~lL~iL~CP~c~~~---L~-~~~-----~~L~C~~~~c~~~Y 38 (56)
T 2kpi_A 5 AGLLEILACPACHAP---LE-ERD-----AELICTGQDCGLAY 38 (56)
T ss_dssp CSCTTSCCCSSSCSC---EE-EET-----TEEEECSSSCCCEE
T ss_pred HHHHhheeCCCCCCc---ce-ecC-----CEEEcCCcCCCcEE
Confidence 344578899999984 22 332 667899 898654
No 24
>1y02_A CARP2, FYVE-ring finger protein sakura; zinc-binding module, phosphoinositide binding, caspase regulation, metal binding protein; 1.80A {Homo sapiens} SCOP: a.140.2.1 g.50.1.1
Probab=28.69 E-value=20 Score=28.42 Aligned_cols=39 Identities=15% Similarity=0.445 Sum_probs=21.6
Q ss_pred CCCCCCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccccCcc
Q 043493 21 PPPKVTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQGGT 68 (254)
Q Consensus 21 ~p~~e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGt 68 (254)
.|+|..+...|..|... | ++..-||-|+.|.+.+=..=+
T Consensus 12 ~~~Pd~~~~~C~~C~~~---F------s~~~RkHHCR~CG~ifC~~Cs 50 (120)
T 1y02_A 12 FPSPTGLEPSCKSCGAH---F------ANTARKQTCLDCKKNFCMTCS 50 (120)
T ss_dssp --------CCCTTTCCC---C------SSGGGCEECTTTCCEECGGGE
T ss_pred CCcCccccCcccCcCCc---c------ccccccccCCCCCCeeCHHHh
Confidence 35566667789999875 3 233678989998877655443
No 25
>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=28.38 E-value=34 Score=24.28 Aligned_cols=28 Identities=29% Similarity=0.784 Sum_probs=22.4
Q ss_pred CCCCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccc
Q 043493 23 PKVTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRY 62 (254)
Q Consensus 23 ~~e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRY 62 (254)
+..+....||.|... + .|.+.|.+|.-|
T Consensus 25 l~~p~l~~c~~cG~~--~----------~pH~vc~~CG~Y 52 (60)
T 2zjr_Z 25 LTAPNLTECPQCHGK--K----------LSHHICPNCGYY 52 (60)
T ss_dssp CCCCCCEECTTTCCE--E----------CTTBCCTTTCBS
T ss_pred ccCCCceECCCCCCE--e----------CCceEcCCCCcC
Confidence 455677799999875 4 899999999966
No 26
>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1
Probab=27.29 E-value=46 Score=23.20 Aligned_cols=43 Identities=26% Similarity=0.516 Sum_probs=29.5
Q ss_pred CCCCCCCCCcCCCceeeeeccCCCCC---CcccchhcccccccCcc
Q 043493 26 TESLPCPRCESTSTKFCYYNNYNLSQ---PRHFCKSCRRYWTQGGT 68 (254)
Q Consensus 26 ~~~~~CPRC~S~nTKFcYyNNy~~~Q---PR~fCk~CrRYWT~GGt 68 (254)
....+||.|...-.|----|.-.-.. --+||-.|.+-|..-|.
T Consensus 4 ~~~k~CP~C~~~Iek~~GCnhmtC~~~~C~~~FCw~C~~~~~~~~~ 49 (60)
T 1wd2_A 4 ANTKECPKCHVTIEKDGGCNHMVCRNQNCKAEFCWVCLGPWEPHGS 49 (60)
T ss_dssp CCCCCCTTTCCCCSSCCSCCSSSCCSSGGGSCCSSSSCSCSGGGGT
T ss_pred ccceECcCCCCeeEeCCCCCcEEECCCCcCCEEeeCcCCCcccCCC
Confidence 34679999999888865544333332 35899999988876553
No 27
>2kae_A GATA-type transcription factor; zinc finger, GATA-type, DNA; NMR {Caenorhabditis elegans}
Probab=26.85 E-value=21 Score=26.37 Aligned_cols=47 Identities=21% Similarity=0.391 Sum_probs=32.5
Q ss_pred CCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccccCcccccccC
Q 043493 25 VTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQGGTLRNIPV 74 (254)
Q Consensus 25 e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVPV 74 (254)
..+...|-.|...+|-. +-.-..... .+|-+|.=||-+.++.|-+..
T Consensus 5 ~~~~~~C~nC~tt~Tp~--WRrg~~~~g-~LCNACGl~~~~~~~~RP~~~ 51 (71)
T 2kae_A 5 NKKSFQCSNCSVTETIR--WRNIRSKEG-IQCNACFIYQRKYNKTRPVTA 51 (71)
T ss_dssp ---CCCCSSSCCSCCSS--CCCCSSSSC-CCSSHHHHHHHHHHSCCCTHH
T ss_pred CCCCCcCCccCCCCCCc--cccCCCCCC-ccchHHHHHHHHhCCCCCccc
Confidence 45678999999998752 322111222 899999999999999887764
No 28
>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=25.24 E-value=33 Score=28.56 Aligned_cols=29 Identities=24% Similarity=0.840 Sum_probs=21.2
Q ss_pred CCCCCCCcCCCceeeeeccCCCCCCcccchhcccc
Q 043493 28 SLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRY 62 (254)
Q Consensus 28 ~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRY 62 (254)
+.+||-|...+ +|-.|.. --++|..|..+
T Consensus 14 ~~~CP~Cg~~d-~~~~~~d-----g~~~C~~Cg~~ 42 (255)
T 1nui_A 14 HIPCDNCGSSD-GNSLFSD-----GHTFCYVCEKW 42 (255)
T ss_dssp EECCSSSCCSS-CEEEETT-----SCEEETTTCCE
T ss_pred CCcCCCCCCCC-CceEeCC-----CCeecccCCCc
Confidence 67999999865 4665643 24999999854
No 29
>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=23.62 E-value=53 Score=23.71 Aligned_cols=42 Identities=19% Similarity=0.429 Sum_probs=27.0
Q ss_pred CCCCCCCCCCCCcCCCceeeeeccCCCCCCcccchhcccccccCccccccc
Q 043493 23 PKVTESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQGGTLRNIP 73 (254)
Q Consensus 23 ~~e~~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnVP 73 (254)
.++.+...|..|... | ++..-||-|+.|.+-+=..=+-..+|
T Consensus 9 ~pd~~~~~C~~C~~~---F------~~~~RrHHCR~CG~vfC~~Cs~~~~~ 50 (84)
T 1x4u_A 9 YPTNNFGNCTGCSAT---F------SVLKKRRSCSNCGNSFCSRCCSFKVP 50 (84)
T ss_dssp CSCCCCSSCSSSCCC---C------CSSSCCEECSSSCCEECTTTSCEEEC
T ss_pred ccCCCCCcCcCcCCc---c------ccchhhhhhcCCCcEEChhhcCCcee
Confidence 345567789988875 3 23478899999988765543333333
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=22.75 E-value=27 Score=25.25 Aligned_cols=30 Identities=30% Similarity=0.599 Sum_probs=20.7
Q ss_pred CCCCCCCCcCCCceeeeeccCCCCCCcccchhccccc
Q 043493 27 ESLPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYW 63 (254)
Q Consensus 27 ~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYW 63 (254)
+.+.||.|.. ..-|- ...-...|++|++-+
T Consensus 7 ~iL~CP~ck~---~L~~~----~~~~~LiC~~cg~~Y 36 (68)
T 2hf1_A 7 EILVCPLCKG---PLVFD----KSKDELICKGDRLAF 36 (68)
T ss_dssp EECBCTTTCC---BCEEE----TTTTEEEETTTTEEE
T ss_pred hheECCCCCC---cCeEe----CCCCEEEcCCCCcEe
Confidence 5689999996 33332 235668899998755
No 31
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=22.13 E-value=46 Score=25.31 Aligned_cols=14 Identities=21% Similarity=0.629 Sum_probs=11.0
Q ss_pred CC-CCCCCcCCCcee
Q 043493 28 SL-PCPRCESTSTKF 41 (254)
Q Consensus 28 ~~-~CPRC~S~nTKF 41 (254)
.. .||.|.+.+.+|
T Consensus 89 ~~~~CP~Cgs~~~~i 103 (119)
T 2kdx_A 89 DYGVCEKCHSKNVII 103 (119)
T ss_dssp TTCCCSSSSSCCCEE
T ss_pred CCCcCccccCCCcEE
Confidence 45 789998888776
No 32
>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=20.27 E-value=31 Score=23.08 Aligned_cols=40 Identities=18% Similarity=0.581 Sum_probs=28.2
Q ss_pred CCCCCCcCCCceeeeeccCCCCCCcccchhcccccccCcccccc
Q 043493 29 LPCPRCESTSTKFCYYNNYNLSQPRHFCKSCRRYWTQGGTLRNI 72 (254)
Q Consensus 29 ~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRYWT~GGtLRnV 72 (254)
..|-.|..++|-. +..- .....+|-+|.-||-..|.+|-+
T Consensus 2 ~~C~~C~tt~Tp~--WR~g--p~G~~LCNaCGl~~k~~~~~RP~ 41 (43)
T 2vut_I 2 TTCTNCFTQTTPL--WRRN--PEGQPLCNACGLFLKLHGVVRPL 41 (43)
T ss_dssp CCCSSSCCCCCSC--CEEC--TTSCEECHHHHHHHHHHSSCCCC
T ss_pred CcCCccCCCCCCc--cccC--CCCCcccHHHHHHHHHhCCCCCC
Confidence 4688888877642 1111 12238999999999999998765
Done!