Query 025998
Match_columns 245
No_of_seqs 142 out of 205
Neff 2.8
Searched_HMMs 29240
Date Mon Mar 25 03:13:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025998.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025998hhsearch_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 92.4 0.09 3.1E-06 36.1 3.0 49 1-49 4-55 (57)
2 3h0g_I DNA-directed RNA polyme 82.7 1.4 4.9E-05 34.0 4.3 39 11-49 71-112 (113)
3 1tfi_A Transcriptional elongat 82.5 1.2 4.2E-05 30.4 3.5 38 11-48 8-48 (50)
4 1twf_I B12.6, DNA-directed RNA 75.5 3.4 0.00012 32.2 4.5 41 11-51 71-114 (122)
5 2fiy_A Protein FDHE homolog; F 60.6 3.6 0.00012 37.1 1.9 35 12-47 222-263 (309)
6 1gnf_A Transcription factor GA 49.3 11 0.00038 25.6 2.5 42 11-56 3-44 (46)
7 3cw1_L U1 small nuclear ribonu 44.3 6.6 0.00022 29.5 0.8 17 36-52 2-18 (77)
8 3qt1_I DNA-directed RNA polyme 43.6 4.9 0.00017 32.3 0.0 38 12-49 92-132 (133)
9 3dfx_A Trans-acting T-cell-spe 43.4 22 0.00074 25.6 3.4 47 8-58 3-49 (63)
10 4hc9_A Trans-acting T-cell-spe 41.5 18 0.00061 28.3 2.9 49 7-59 54-102 (115)
11 2k2d_A Ring finger and CHY zin 40.5 11 0.00039 27.8 1.5 13 12-24 55-67 (79)
12 3k7a_M Transcription initiatio 39.8 19 0.00064 32.0 3.1 40 5-48 14-53 (345)
13 4gat_A Nitrogen regulatory pro 38.0 27 0.00092 25.2 3.2 46 9-58 6-51 (66)
14 1pft_A TFIIB, PFTFIIBN; N-term 36.0 23 0.00079 23.1 2.4 33 11-49 4-36 (50)
15 2zjr_Z 50S ribosomal protein L 33.7 20 0.00067 25.4 1.8 30 5-46 23-52 (60)
16 1y02_A CARP2, FYVE-ring finger 33.6 16 0.00056 28.9 1.6 39 5-52 12-50 (120)
17 2kae_A GATA-type transcription 31.8 14 0.00049 27.2 0.9 50 7-59 3-52 (71)
18 2jr6_A UPF0434 protein NMA0874 28.6 29 0.00098 25.0 2.0 33 8-47 4-36 (68)
19 2pk7_A Uncharacterized protein 27.4 28 0.00097 25.1 1.8 32 10-48 6-37 (69)
20 2akl_A PHNA-like protein PA012 26.8 35 0.0012 28.3 2.5 34 11-52 26-59 (138)
21 2js4_A UPF0434 protein BB2007; 25.5 29 0.00098 25.2 1.5 34 8-48 4-37 (70)
22 2jny_A Uncharacterized BCR; st 25.3 25 0.00086 25.4 1.2 35 6-47 4-38 (67)
23 1wd2_A Ariadne-1 protein homol 24.9 67 0.0023 22.2 3.3 42 11-52 5-49 (60)
24 2kdx_A HYPA, hydrogenase/ureas 24.5 39 0.0013 25.6 2.2 15 11-25 88-103 (119)
25 1p91_A Ribosomal RNA large sub 23.4 47 0.0016 26.5 2.6 39 13-60 3-42 (269)
26 1x4u_A Zinc finger, FYVE domai 22.6 62 0.0021 23.2 2.9 45 4-58 7-51 (84)
27 2con_A RUH-035 protein, NIN on 22.1 22 0.00076 26.6 0.4 35 12-61 15-49 (79)
28 2k4x_A 30S ribosomal protein S 21.4 35 0.0012 23.6 1.3 27 12-45 18-44 (55)
29 3j20_Y 30S ribosomal protein S 20.7 41 0.0014 22.8 1.5 29 13-48 20-49 (50)
30 3k1f_M Transcription initiatio 20.2 56 0.0019 28.5 2.6 41 4-48 13-53 (197)
31 1nui_A DNA primase/helicase; z 20.2 56 0.0019 27.1 2.5 29 12-46 14-42 (255)
No 1
>1qyp_A RNA polymerase II; transcription, RPB9, Zn ribbon, hyperthermophilic, extremophIle; NMR {Thermococcus celer} SCOP: g.41.3.1
Probab=92.44 E-value=0.09 Score=36.05 Aligned_cols=49 Identities=24% Similarity=0.554 Sum_probs=32.0
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCceeeeecccCCCCC---ccccccccccccc
Q 025998 1 MEKKWKPDVETAPSCPRCASPNTKFCYYNNYSLSQP---RYFCKGCRRYWTK 49 (245)
Q Consensus 1 m~~~~~~~~e~~~~CPRC~S~nTKFcYyNNy~~~QP---R~fCk~CrRyWT~ 49 (245)
+|..|+..+....+||+|...+..|--.+-.+...| .|.|..|.--|+.
T Consensus 4 Ie~~~~~~~~~~~~Cp~Cg~~~~~~~q~Q~rsadep~T~fy~C~~Cg~~w~~ 55 (57)
T 1qyp_A 4 MEQDLKTLPTTKITCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS 55 (57)
T ss_dssp CCCCCSSSCEEECCCTTTCCSEEEEEEECCSSSSCSSEEEEEESSSCCEEEC
T ss_pred hhhhhhcCCceEeECCCCCCCEEEEEEeecccCCCCCcEEEEcCCCCCEecc
Confidence 455666655556799999984443333333333344 3999999999976
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=82.75 E-value=1.4 Score=34.01 Aligned_cols=39 Identities=21% Similarity=0.473 Sum_probs=25.1
Q ss_pred CCCCCCCCCCCCceeeeecccCCCCCc---cccccccccccc
Q 025998 11 TAPSCPRCASPNTKFCYYNNYSLSQPR---YFCKGCRRYWTK 49 (245)
Q Consensus 11 ~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRyWT~ 49 (245)
...+||+|...+..|-..+-.+...|- |.|..|.--|+.
T Consensus 71 ~~~~Cp~C~~~~a~~~q~q~rsade~mt~fy~C~~C~~~w~~ 112 (113)
T 3h0g_I 71 SDKECPRCHQHEAVFYQTHSRRGDTMMTLIYVCVHCGFAFEE 112 (113)
T ss_dssp CCSCCSSSCCSCEEEECCCCSSCCCCCCCEEEESSSCCCCCC
T ss_pred cccCCCCCCCceEEEEEEecccCCCCCeeEEEcCCCCCEEec
Confidence 347899999876443333333332222 889999999974
No 3
>1tfi_A Transcriptional elongation factor SII; transcription regulation; NMR {Homo sapiens} SCOP: g.41.3.1
Probab=82.49 E-value=1.2 Score=30.44 Aligned_cols=38 Identities=21% Similarity=0.590 Sum_probs=28.2
Q ss_pred CCCCCCCCCCCCceeeeecccCCCCCc---ccccccccccc
Q 025998 11 TAPSCPRCASPNTKFCYYNNYSLSQPR---YFCKGCRRYWT 48 (245)
Q Consensus 11 ~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRyWT 48 (245)
....||+|...+.-|=-.+..+...|- |.|..|..-|.
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 346899999877766665555555553 89999998885
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=75.46 E-value=3.4 Score=32.25 Aligned_cols=41 Identities=20% Similarity=0.526 Sum_probs=28.8
Q ss_pred CCCCCCCCCCCCceeeeecccCCCCCc---ccccccccccccCC
Q 025998 11 TAPSCPRCASPNTKFCYYNNYSLSQPR---YFCKGCRRYWTKGG 51 (245)
Q Consensus 11 ~~~~CPRC~S~nTKFcYyNNy~~~QPR---~fCk~CrRyWT~GG 51 (245)
....||+|...+.-|--.+-.+...|- |.|..|.--|+...
T Consensus 71 t~~~Cp~C~~~~a~~~q~q~rsade~~t~fy~C~~C~~~w~~nn 114 (122)
T 1twf_I 71 SDRECPKCHSRENVFFQSQQRRKDTSMVLFFVCLSCSHIFTSDQ 114 (122)
T ss_dssp CCCCCTTTCCCCEEEEECSSCCTTCCCCEEEEETTTCCEEECCT
T ss_pred cCCCCCCCCCCEEEEEEecCccCCCCceEEEEeCCCCCEeccCC
Confidence 346899999876555444444444443 89999999998764
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=60.58 E-value=3.6 Score=37.10 Aligned_cols=35 Identities=17% Similarity=0.455 Sum_probs=24.4
Q ss_pred CCCCCCCCCCCceeeeecccC-------CCCCccccccccccc
Q 025998 12 APSCPRCASPNTKFCYYNNYS-------LSQPRYFCKGCRRYW 47 (245)
Q Consensus 12 ~~~CPRC~S~nTKFcYyNNy~-------~~QPR~fCk~CrRyW 47 (245)
-.+||.|.+. .+.-|+.--. ...--+.|..|+.|+
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 3589999997 4677765433 112238899999998
No 6
>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=49.31 E-value=11 Score=25.56 Aligned_cols=42 Identities=24% Similarity=0.600 Sum_probs=29.9
Q ss_pred CCCCCCCCCCCCceeeeecccCCCCCcccccccccccccCCccccc
Q 025998 11 TAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGSLRNV 56 (245)
Q Consensus 11 ~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~GGtLRnV 56 (245)
+...|..|....|-. +-.- .....+|-+|.-||-+.|..|-+
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 456899999887642 1111 12238999999999999998754
No 7
>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=44.28 E-value=6.6 Score=29.50 Aligned_cols=17 Identities=29% Similarity=0.991 Sum_probs=15.0
Q ss_pred CcccccccccccccCCc
Q 025998 36 PRYFCKGCRRYWTKGGS 52 (245)
Q Consensus 36 PR~fCk~CrRyWT~GGt 52 (245)
|||||.-|..|.|+.-.
T Consensus 2 PkYyCdYCd~~lt~Ds~ 18 (77)
T 3cw1_L 2 PKFYCDYCDTYLTHDSP 18 (77)
T ss_pred CCcccccCCceecCCCH
Confidence 89999999999988754
No 8
>3qt1_I DNA-directed RNA polymerases I, II, and III subun; transferase-transcription complex, RNA polymerase II, transc elongation; 4.30A {Saccharomyces cerevisiae}
Probab=43.59 E-value=4.9 Score=32.30 Aligned_cols=38 Identities=29% Similarity=0.704 Sum_probs=0.0
Q ss_pred CCCCCCCCCCCceeeeecccCCCCC---ccccccccccccc
Q 025998 12 APSCPRCASPNTKFCYYNNYSLSQP---RYFCKGCRRYWTK 49 (245)
Q Consensus 12 ~~~CPRC~S~nTKFcYyNNy~~~QP---R~fCk~CrRyWT~ 49 (245)
...||+|...+..|=..+-.+...| -|.|..|.--|+.
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 3689999976654333333322222 2889999999975
No 9
>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=43.36 E-value=22 Score=25.63 Aligned_cols=47 Identities=17% Similarity=0.457 Sum_probs=34.0
Q ss_pred CCCCCCCCCCCCCCCceeeeecccCCCCCcccccccccccccCCccccccC
Q 025998 8 DVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGSLRNVPV 58 (245)
Q Consensus 8 ~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~GGtLRnVPV 58 (245)
.+.....|-.|....|-. +-.- .....+|-+|.=||-+.|..|-+.+
T Consensus 3 ~~~~~~~C~~C~tt~Tp~--WR~g--p~G~~LCNACGl~~~~~~~~RP~~~ 49 (63)
T 3dfx_A 3 ARRAGTSCANCQTTTTTL--WRRN--ANGDPVCNACGLYYKLHNINRPLTM 49 (63)
T ss_dssp CCCTTCCCTTTCCSCCSS--CCCC--TTSCCCCHHHHHHHHHHSSCCCGGG
T ss_pred CCCCCCcCCCcCCCCCCc--cCCC--CCCCchhhHHHHHHHHcCCCCCcCc
Confidence 455667899999987742 1111 1223899999999999999887765
No 10
>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=41.52 E-value=18 Score=28.35 Aligned_cols=49 Identities=16% Similarity=0.419 Sum_probs=35.4
Q ss_pred CCCCCCCCCCCCCCCCceeeeecccCCCCCcccccccccccccCCccccccCC
Q 025998 7 PDVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGSLRNVPVG 59 (245)
Q Consensus 7 ~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~GGtLRnVPVG 59 (245)
+.......|-.|....|-- .- .-+..+.+|-+|.-||...|..|-+.+-
T Consensus 54 ~~~~~~~~C~~C~t~~tp~--WR--r~~~g~~lCNaCgl~~~~~~~~rp~~~~ 102 (115)
T 4hc9_A 54 AARRAGTSCANCQTTTTTL--WR--RNANGDPVCNACGLYYKLHNINRPLTMK 102 (115)
T ss_dssp CCCCTTCCCTTTCCSCCSS--CE--ECTTSCEECHHHHHHHHHHSSCCCGGGC
T ss_pred ccccccccCCCcCCCCcce--eE--ECCCCCCcchHHHHHHHHhCCCCCcccc
Confidence 3445678999999887641 11 1123368999999999999999887763
No 11
>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=40.50 E-value=11 Score=27.81 Aligned_cols=13 Identities=38% Similarity=0.595 Sum_probs=11.4
Q ss_pred CCCCCCCCCCCce
Q 025998 12 APSCPRCASPNTK 24 (245)
Q Consensus 12 ~~~CPRC~S~nTK 24 (245)
+.+||.|.|.||+
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 4589999999998
No 12
>3k7a_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, DNA-binding, DNA- directed RNA polymerase, isopeptide bond, magnesium; 3.80A {Saccharomyces cerevisiae}
Probab=39.78 E-value=19 Score=31.96 Aligned_cols=40 Identities=20% Similarity=0.444 Sum_probs=26.4
Q ss_pred CCCCCCCCCCCCCCCCCCceeeeecccCCCCCcccccccccccc
Q 025998 5 WKPDVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWT 48 (245)
Q Consensus 5 ~~~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT 48 (245)
|.|.......||.|.+.++.+-+ ...+--..|.+|..-..
T Consensus 14 ~~~~~~~~~~Cp~Cg~~~~~iv~----D~~~G~~vC~~CG~Vl~ 53 (345)
T 3k7a_M 14 RGPNLNIVLTCPECKVYPPKIVE----RFSEGDVVCALCGLVLS 53 (345)
T ss_dssp ---CCCCCCCCSTTCCSCCCCCC----CSSSCSCCCSSSCCCCC
T ss_pred cCccccCCCcCcCCCCCCCceEE----ECCCCCEecCCCCeEcc
Confidence 88888888899999997543322 22466789999987553
No 13
>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=38.00 E-value=27 Score=25.25 Aligned_cols=46 Identities=17% Similarity=0.500 Sum_probs=32.7
Q ss_pred CCCCCCCCCCCCCCceeeeecccCCCCCcccccccccccccCCccccccC
Q 025998 9 VETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGSLRNVPV 58 (245)
Q Consensus 9 ~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~GGtLRnVPV 58 (245)
......|-.|.+..|-- .=.. . .-..+|-+|.-||-..|.+|-+..
T Consensus 6 ~~~~~~C~~C~t~~Tp~-WR~g--p-~G~~LCNaCGl~~~~~~~~RP~~~ 51 (66)
T 4gat_A 6 QNGPTTCTNCFTQTTPL-WRRN--P-EGQPLCNACGLFLKLHGVVRPLSL 51 (66)
T ss_dssp SSSSCCCTTTCCCCCSS-CEEE--T-TTEEECHHHHHHHHHHCSCCCGGG
T ss_pred CCCCCCCCCCCCCCCCc-CCcC--C-CCCCccHHHHHHHHHcCCCCchhh
Confidence 45567999999987751 1111 1 122899999999999999887654
No 14
>1pft_A TFIIB, PFTFIIBN; N-terminal domain, transcription initiation factor; NMR {Pyrococcus furiosus} SCOP: g.41.3.1
Probab=35.99 E-value=23 Score=23.09 Aligned_cols=33 Identities=18% Similarity=0.490 Sum_probs=22.0
Q ss_pred CCCCCCCCCCCCceeeeecccCCCCCccccccccccccc
Q 025998 11 TAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTK 49 (245)
Q Consensus 11 ~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~ 49 (245)
..+.||.|.+..-.| ...+-...|..|+.-+..
T Consensus 4 ~~~~CP~C~~~~l~~------d~~~gelvC~~CG~v~~e 36 (50)
T 1pft_A 4 KQKVCPACESAELIY------DPERGEIVCAKCGYVIEE 36 (50)
T ss_dssp SCCSCTTTSCCCEEE------ETTTTEEEESSSCCBCCC
T ss_pred ccEeCcCCCCcceEE------cCCCCeEECcccCCcccc
Confidence 457899998854332 223556999999766543
No 15
>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=33.66 E-value=20 Score=25.42 Aligned_cols=30 Identities=23% Similarity=0.623 Sum_probs=22.1
Q ss_pred CCCCCCCCCCCCCCCCCCceeeeecccCCCCCcccccccccc
Q 025998 5 WKPDVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRY 46 (245)
Q Consensus 5 ~~~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRy 46 (245)
|+.....-..||.|... + .|.+.|.+|.-|
T Consensus 23 ~kl~~p~l~~c~~cG~~--~----------~pH~vc~~CG~Y 52 (60)
T 2zjr_Z 23 HALTAPNLTECPQCHGK--K----------LSHHICPNCGYY 52 (60)
T ss_dssp CCCCCCCCEECTTTCCE--E----------CTTBCCTTTCBS
T ss_pred ccccCCCceECCCCCCE--e----------CCceEcCCCCcC
Confidence 34444445589999875 4 899999999966
No 16
>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=33.56 E-value=16 Score=28.85 Aligned_cols=39 Identities=21% Similarity=0.541 Sum_probs=22.0
Q ss_pred CCCCCCCCCCCCCCCCCCceeeeecccCCCCCcccccccccccccCCc
Q 025998 5 WKPDVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGS 52 (245)
Q Consensus 5 ~~~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~GGt 52 (245)
.+++......|..|... | +...-||-|+.|++..=..=+
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 44566667789999875 2 334678999999887655433
No 17
>2kae_A GATA-type transcription factor; zinc finger, GATA-type, DNA; NMR {Caenorhabditis elegans}
Probab=31.78 E-value=14 Score=27.15 Aligned_cols=50 Identities=20% Similarity=0.295 Sum_probs=33.2
Q ss_pred CCCCCCCCCCCCCCCCceeeeecccCCCCCcccccccccccccCCccccccCC
Q 025998 7 PDVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGSLRNVPVG 59 (245)
Q Consensus 7 ~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~GGtLRnVPVG 59 (245)
++.+....|-.|.+..|- .+-.-..... .+|-+|.=||.+.|+.|-+..-
T Consensus 3 ~~~~~~~~C~nC~tt~Tp--~WRrg~~~~g-~LCNACGl~~~~~~~~RP~~~~ 52 (71)
T 2kae_A 3 HMNKKSFQCSNCSVTETI--RWRNIRSKEG-IQCNACFIYQRKYNKTRPVTAV 52 (71)
T ss_dssp -----CCCCSSSCCSCCS--SCCCCSSSSC-CCSSHHHHHHHHHHSCCCTHHH
T ss_pred CCCCCCCcCCccCCCCCC--ccccCCCCCC-ccchHHHHHHHHhCCCCCcccc
Confidence 456777899999999875 2222111222 8999999999999998877654
No 18
>2jr6_A UPF0434 protein NMA0874; solution, structural genomics, PSI, structure initiative, northeast structural genomics consort NESG; NMR {Neisseria meningitidis}
Probab=28.59 E-value=29 Score=25.04 Aligned_cols=33 Identities=9% Similarity=0.253 Sum_probs=21.8
Q ss_pred CCCCCCCCCCCCCCCceeeeecccCCCCCccccccccccc
Q 025998 8 DVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYW 47 (245)
Q Consensus 8 ~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyW 47 (245)
..-.-+.||.|... .-| ........|++|++-+
T Consensus 4 ~LL~iL~CP~ck~~---L~~----~~~~~~LiC~~cg~~Y 36 (68)
T 2jr6_A 4 KFLDILVCPVTKGR---LEY----HQDKQELWSRQAKLAY 36 (68)
T ss_dssp SSSCCCBCSSSCCB---CEE----ETTTTEEEETTTTEEE
T ss_pred HHhhheECCCCCCc---CeE----eCCCCEEEcCCCCcEe
Confidence 34456899999963 222 2234668899998655
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=27.35 E-value=28 Score=25.13 Aligned_cols=32 Identities=22% Similarity=0.436 Sum_probs=21.5
Q ss_pred CCCCCCCCCCCCCceeeeecccCCCCCcccccccccccc
Q 025998 10 ETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWT 48 (245)
Q Consensus 10 e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT 48 (245)
-+-+.||.|...-+ |........|++|++-+-
T Consensus 6 LeiL~CP~ck~~L~-------~~~~~~~LiC~~cg~~YP 37 (69)
T 2pk7_A 6 LDILACPICKGPLK-------LSADKTELISKGAGLAYP 37 (69)
T ss_dssp GGTCCCTTTCCCCE-------ECTTSSEEEETTTTEEEE
T ss_pred HhheeCCCCCCcCe-------EeCCCCEEEcCCCCcEec
Confidence 35679999997532 223456688999987553
No 20
>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=26.80 E-value=35 Score=28.35 Aligned_cols=34 Identities=29% Similarity=0.689 Sum_probs=26.0
Q ss_pred CCCCCCCCCCCCceeeeecccCCCCCcccccccccccccCCc
Q 025998 11 TAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGS 52 (245)
Q Consensus 11 ~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~GGt 52 (245)
.-+.||.|.|..|-. ...-+.|..|.-=|+....
T Consensus 26 ~lP~CP~C~seytYe--------Dg~l~vCPeC~hEW~~~~~ 59 (138)
T 2akl_A 26 TLPPCPQCNSEYTYE--------DGALLVCPECAHEWSPNEA 59 (138)
T ss_dssp CSCCCTTTCCCCCEE--------CSSSEEETTTTEEECTTTT
T ss_pred cCCCCCCCCCcceEe--------cCCeEECCccccccCCccc
Confidence 347999999987731 2556999999999986553
No 21
>2js4_A UPF0434 protein BB2007; NESG, northeast structural genomics consortium, beta, PSI-2, protein structure initiative; NMR {Bordetella bronchiseptica RB50}
Probab=25.51 E-value=29 Score=25.17 Aligned_cols=34 Identities=18% Similarity=0.419 Sum_probs=22.7
Q ss_pred CCCCCCCCCCCCCCCceeeeecccCCCCCcccccccccccc
Q 025998 8 DVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWT 48 (245)
Q Consensus 8 ~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT 48 (245)
..-.-+.||.|... .-| ........|+.|++-+-
T Consensus 4 ~LL~iL~CP~ck~~---L~~----~~~~~~LiC~~cg~~YP 37 (70)
T 2js4_A 4 RLLDILVCPVCKGR---LEF----QRAQAELVCNADRLAFP 37 (70)
T ss_dssp CCCCCCBCTTTCCB---EEE----ETTTTEEEETTTTEEEE
T ss_pred HHhhheECCCCCCc---CEE----eCCCCEEEcCCCCceec
Confidence 34456899999983 222 22356689999987654
No 22
>2jny_A Uncharacterized BCR; structure, CGR1, NESG, structural genomics, PSI-2, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: b.171.1.1
Probab=25.30 E-value=25 Score=25.38 Aligned_cols=35 Identities=17% Similarity=0.327 Sum_probs=23.2
Q ss_pred CCCCCCCCCCCCCCCCCceeeeecccCCCCCccccccccccc
Q 025998 6 KPDVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYW 47 (245)
Q Consensus 6 ~~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyW 47 (245)
++..-+-+.||.|... .-| ........|+.|++-+
T Consensus 4 d~~LLeiL~CP~ck~~---L~~----~~~~g~LvC~~c~~~Y 38 (67)
T 2jny_A 4 DPQLLEVLACPKDKGP---LRY----LESEQLLVNERLNLAY 38 (67)
T ss_dssp CGGGTCCCBCTTTCCB---CEE----ETTTTEEEETTTTEEE
T ss_pred CHHHHHHhCCCCCCCc---CeE----eCCCCEEEcCCCCccc
Confidence 3444566899999984 222 2235668899998755
No 23
>1wd2_A Ariadne-1 protein homolog; ring, IBR, triad, zinc finger, ligase; NMR {Homo sapiens} SCOP: g.44.1.1
Probab=24.86 E-value=67 Score=22.24 Aligned_cols=42 Identities=26% Similarity=0.464 Sum_probs=29.7
Q ss_pred CCCCCCCCCCCCceeeeecccCCCC---CcccccccccccccCCc
Q 025998 11 TAPSCPRCASPNTKFCYYNNYSLSQ---PRYFCKGCRRYWTKGGS 52 (245)
Q Consensus 11 ~~~~CPRC~S~nTKFcYyNNy~~~Q---PR~fCk~CrRyWT~GGt 52 (245)
...+||.|...-.|----|.-.-.. --+||--|.+-|...|.
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 3468999999888865544433333 35899999998987664
No 24
>2kdx_A HYPA, hydrogenase/urease nickel incorporation protein HYPA; metallochaperone, metal-binding, metal- binding protein; NMR {Helicobacter pylori}
Probab=24.48 E-value=39 Score=25.63 Aligned_cols=15 Identities=27% Similarity=0.512 Sum_probs=10.2
Q ss_pred CCC-CCCCCCCCCcee
Q 025998 11 TAP-SCPRCASPNTKF 25 (245)
Q Consensus 11 ~~~-~CPRC~S~nTKF 25 (245)
... .||.|.+.+.+|
T Consensus 88 ~~~~~CP~Cgs~~~~i 103 (119)
T 2kdx_A 88 LDYGVCEKCHSKNVII 103 (119)
T ss_dssp STTCCCSSSSSCCCEE
T ss_pred CCCCcCccccCCCcEE
Confidence 345 688888877664
No 25
>1p91_A Ribosomal RNA large subunit methyltransferase A; RLMA, RRMA, 23S rRNA, NESG, structural genomics, PSI, protein structure initiative; HET: SAM; 2.80A {Escherichia coli} SCOP: c.66.1.33
Probab=23.39 E-value=47 Score=26.51 Aligned_cols=39 Identities=28% Similarity=0.610 Sum_probs=25.1
Q ss_pred CCCCCCCCCCceeeeecccCCCCCccccccccccc-ccCCccccccCCC
Q 025998 13 PSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYW-TKGGSLRNVPVGG 60 (245)
Q Consensus 13 ~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyW-T~GGtLRnVPVGg 60 (245)
+.||.|.+..+. ...-+.|.+|..|- +++|-+.-+++..
T Consensus 3 ~~Cp~C~~~~~~---------~~~~~~C~~~~~~~~~~~Gy~~~~~~~~ 42 (269)
T 1p91_A 3 FSCPLCHQPLSR---------EKNSYICPQRHQFDMAKEGYVNLLPVQH 42 (269)
T ss_dssp BBCTTTCCBCEE---------ETTEEECTTCCEEEBCTTSCEECSCSSS
T ss_pred ccCCCCCcccee---------CCCEEECCCCCcCCcCCCEEEEeecccc
Confidence 579999886543 12346888888774 4667665555533
No 26
>1x4u_A Zinc finger, FYVE domain containing 27 isoform B; phosphoinositide binding, zinc binding, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=22.63 E-value=62 Score=23.22 Aligned_cols=45 Identities=22% Similarity=0.457 Sum_probs=28.5
Q ss_pred CCCCCCCCCCCCCCCCCCCceeeeecccCCCCCcccccccccccccCCccccccC
Q 025998 4 KWKPDVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGSLRNVPV 58 (245)
Q Consensus 4 ~~~~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~GGtLRnVPV 58 (245)
.|.|. +....|..|... | ++..-||-|+.|.+-.=..=+-..+|+
T Consensus 7 ~W~pd-~~~~~C~~C~~~---F------~~~~RrHHCR~CG~vfC~~Cs~~~~~l 51 (84)
T 1x4u_A 7 GRYPT-NNFGNCTGCSAT---F------SVLKKRRSCSNCGNSFCSRCCSFKVPK 51 (84)
T ss_dssp CSCSC-CCCSSCSSSCCC---C------CSSSCCEECSSSCCEECTTTSCEEECS
T ss_pred ccccC-CCCCcCcCcCCc---c------ccchhhhhhcCCCcEEChhhcCCceec
Confidence 45554 345689988875 3 344788999999886655444333443
No 27
>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=22.08 E-value=22 Score=26.63 Aligned_cols=35 Identities=26% Similarity=0.505 Sum_probs=25.5
Q ss_pred CCCCCCCCCCCceeeeecccCCCCCcccccccccccccCCccccccCCCC
Q 025998 12 APSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWTKGGSLRNVPVGGG 61 (245)
Q Consensus 12 ~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT~GGtLRnVPVGgG 61 (245)
.+.|-.|-... ...+|+||..|. +.||+.|+|--.
T Consensus 15 iLrC~aCf~~t----------~~~~k~FCp~CG-----n~TL~Rvsvsvd 49 (79)
T 2con_A 15 ILRCHGCFKTT----------SDMNRVFCGHCG-----NKTLKKVSVTIN 49 (79)
T ss_dssp EEECSSSCCEE----------SCSSCCSCSSSC-----CSCCEEEECBCC
T ss_pred eeEecccceEC----------CCcccccccccC-----cccceEEEEEEC
Confidence 45677776542 447899999996 479999998554
No 28
>2k4x_A 30S ribosomal protein S27AE; metal-binding, ribonucleoprotein, zinc, zinc-finger, structural genomics, PSI-2; NMR {Thermoplasma acidophilum} SCOP: g.41.8.8
Probab=21.41 E-value=35 Score=23.56 Aligned_cols=27 Identities=30% Similarity=0.609 Sum_probs=17.3
Q ss_pred CCCCCCCCCCCceeeeecccCCCCCccccccccc
Q 025998 12 APSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRR 45 (245)
Q Consensus 12 ~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrR 45 (245)
...||+|.+.-- +- ...-|+.|..|.-
T Consensus 18 ~~fCPkCG~~~~----ma---~~~dr~~C~kCgy 44 (55)
T 2k4x_A 18 HRFCPRCGPGVF----LA---EHADRYSCGRCGY 44 (55)
T ss_dssp SCCCTTTTTTCC----CE---ECSSEEECTTTCC
T ss_pred cccCcCCCCcee----Ee---ccCCEEECCCCCC
Confidence 457999998441 11 1124999999964
No 29
>3j20_Y 30S ribosomal protein S27AE; archaea, archaeal, KINK-turn, protein synthe ribosome; 6.60A {Pyrococcus furiosus}
Probab=20.68 E-value=41 Score=22.80 Aligned_cols=29 Identities=31% Similarity=0.839 Sum_probs=18.9
Q ss_pred CCCCCCCCCCceeeeecccCCCCCcccccccc-cccc
Q 025998 13 PSCPRCASPNTKFCYYNNYSLSQPRYFCKGCR-RYWT 48 (245)
Q Consensus 13 ~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~Cr-RyWT 48 (245)
.-||+|.+.- | ..++ ..|+.|..|. -||.
T Consensus 20 k~CP~CG~~~--f-m~~~----~~R~~C~kCG~t~~~ 49 (50)
T 3j20_Y 20 KFCPRCGPGV--F-MADH----GDRWACGKCGYTEWK 49 (50)
T ss_dssp EECSSSCSSC--E-EEEC----SSEEECSSSCCEEEC
T ss_pred ccCCCCCCce--E-EecC----CCeEECCCCCCEEEC
Confidence 3699998842 3 2222 4799999996 3553
No 30
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB, transcription factor, DNA-binding, DNA-directed RNA polymerase; 4.30A {Saccharomyces cerevisiae}
Probab=20.23 E-value=56 Score=28.50 Aligned_cols=41 Identities=20% Similarity=0.455 Sum_probs=29.1
Q ss_pred CCCCCCCCCCCCCCCCCCCceeeeecccCCCCCcccccccccccc
Q 025998 4 KWKPDVETAPSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRYWT 48 (245)
Q Consensus 4 ~~~~~~e~~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRyWT 48 (245)
.|++.......||.|.+..+++.+ ...+--..|.+|.--+.
T Consensus 13 ~~~~~ln~~~~CPECGs~~t~IV~----D~erGE~VCsdCGLVLE 53 (197)
T 3k1f_M 13 RRGPNLNIVLTCPECKVYPPKIVE----RFSEGDVVCALCGLVLS 53 (197)
T ss_dssp CCSSCCCCCCCCTTTCCSSCCEEE----EGGGTEEEETTTCBBCC
T ss_pred ccccccccCeECcCCCCcCCeEEE----eCCCCEEEEcCCCCCcC
Confidence 467777788899999996565544 12255689999976553
No 31
>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=20.19 E-value=56 Score=27.07 Aligned_cols=29 Identities=21% Similarity=0.666 Sum_probs=20.7
Q ss_pred CCCCCCCCCCCceeeeecccCCCCCcccccccccc
Q 025998 12 APSCPRCASPNTKFCYYNNYSLSQPRYFCKGCRRY 46 (245)
Q Consensus 12 ~~~CPRC~S~nTKFcYyNNy~~~QPR~fCk~CrRy 46 (245)
..+||-|.+.+. |-.|.. .-++|..|..+
T Consensus 14 ~~~CP~Cg~~d~-~~~~~d-----g~~~C~~Cg~~ 42 (255)
T 1nui_A 14 HIPCDNCGSSDG-NSLFSD-----GHTFCYVCEKW 42 (255)
T ss_dssp EECCSSSCCSSC-EEEETT-----SCEEETTTCCE
T ss_pred CCcCCCCCCCCC-ceEeCC-----CCeecccCCCc
Confidence 458999998653 665643 24999999853
Done!