Query 007660
Match_columns 594
No_of_seqs 271 out of 994
Neff 4.1
Searched_HMMs 29240
Date Mon Mar 25 07:20:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/007660.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/007660hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2dmn_A Homeobox protein TGIF2L 99.7 3.6E-18 1.2E-22 144.0 4.6 66 494-559 7-72 (83)
2 2lk2_A Homeobox protein TGIF1; 99.7 1.3E-17 4.3E-22 144.1 5.9 62 499-560 10-71 (89)
3 3k2a_A Homeobox protein MEIS2; 99.7 2.3E-17 7.7E-22 134.2 6.2 62 499-560 3-64 (67)
4 1x2n_A Homeobox protein pknox1 99.7 6.9E-17 2.4E-21 132.2 6.9 65 494-558 7-71 (73)
5 1du6_A PBX1, homeobox protein 99.6 3E-16 1E-20 125.3 6.8 61 495-555 4-64 (64)
6 1puf_B PRE-B-cell leukemia tra 99.6 6.6E-16 2.3E-20 126.4 7.4 64 495-558 2-65 (73)
7 1k61_A Mating-type protein alp 99.6 7.7E-16 2.6E-20 121.4 7.0 58 498-555 2-59 (60)
8 1b72_B Protein (PBX1); homeodo 99.6 8.8E-16 3E-20 129.4 7.4 65 495-559 2-66 (87)
9 1le8_B Mating-type protein alp 99.6 2.5E-15 8.6E-20 126.4 6.7 61 499-559 7-67 (83)
10 1mnm_C Protein (MAT alpha-2 tr 99.6 3.7E-15 1.3E-19 126.1 7.5 60 495-554 28-87 (87)
11 2ecc_A Homeobox and leucine zi 99.5 4.2E-14 1.4E-18 118.8 6.4 60 496-558 5-64 (76)
12 1akh_A Protein (mating-type pr 99.5 6.2E-14 2.1E-18 110.7 6.2 57 494-553 5-61 (61)
13 1bw5_A ISL-1HD, insulin gene e 99.4 1.9E-13 6.6E-18 109.7 6.5 59 495-556 4-62 (66)
14 1jgg_A Segmentation protein EV 99.4 3.3E-13 1.1E-17 106.5 6.9 58 495-555 2-59 (60)
15 1ig7_A Homeotic protein MSX-1; 99.4 3.5E-13 1.2E-17 105.4 7.0 57 495-554 1-57 (58)
16 2dmu_A Homeobox protein goosec 99.4 3.8E-13 1.3E-17 109.2 7.0 60 494-556 7-66 (70)
17 2hdd_A Protein (engrailed home 99.4 4.1E-13 1.4E-17 106.3 6.6 57 495-554 4-60 (61)
18 2da4_A Hypothetical protein DK 99.4 1.7E-13 5.8E-18 114.1 4.5 62 494-555 8-70 (80)
19 2cra_A Homeobox protein HOX-B1 99.4 4.9E-13 1.7E-17 108.7 7.0 60 494-556 7-66 (70)
20 2e1o_A Homeobox protein PRH; D 99.4 6E-13 2.1E-17 108.2 7.1 59 494-555 7-65 (70)
21 2da2_A Alpha-fetoprotein enhan 99.4 6.2E-13 2.1E-17 107.8 7.0 60 494-556 7-66 (70)
22 2h1k_A IPF-1, pancreatic and d 99.4 6.6E-13 2.3E-17 105.9 7.0 58 495-555 4-61 (63)
23 2dmq_A LIM/homeobox protein LH 99.4 7.4E-13 2.5E-17 109.9 7.4 61 494-557 7-67 (80)
24 2da3_A Alpha-fetoprotein enhan 99.4 5.3E-13 1.8E-17 110.4 6.3 60 494-556 17-76 (80)
25 2djn_A Homeobox protein DLX-5; 99.4 5E-13 1.7E-17 108.6 5.9 59 494-555 7-65 (70)
26 2da1_A Alpha-fetoprotein enhan 99.4 5.4E-13 1.8E-17 108.1 6.1 60 494-556 7-66 (70)
27 1fjl_A Paired protein; DNA-bin 99.4 9.3E-13 3.2E-17 109.8 7.3 61 493-556 17-77 (81)
28 2k40_A Homeobox expressed in E 99.4 6.3E-13 2.2E-17 107.0 6.1 60 495-557 2-61 (67)
29 2dmt_A Homeobox protein BARH-l 99.4 9.4E-13 3.2E-17 109.7 7.3 60 494-556 17-76 (80)
30 2vi6_A Homeobox protein nanog; 99.4 1.1E-12 3.8E-17 104.1 7.0 58 495-555 4-61 (62)
31 3a02_A Homeobox protein arista 99.3 1.2E-12 4E-17 103.3 6.5 55 498-555 3-57 (60)
32 2l7z_A Homeobox protein HOX-A1 99.3 1.4E-12 4.7E-17 107.1 7.0 60 494-556 7-66 (73)
33 3rkq_A Homeobox protein NKX-2. 99.3 1.2E-12 4.3E-17 101.5 6.4 56 495-553 3-58 (58)
34 1nk2_P Homeobox protein VND; h 99.3 1.5E-12 5.2E-17 107.7 7.2 62 494-558 9-70 (77)
35 2cue_A Paired box protein PAX6 99.3 1.4E-12 4.9E-17 108.6 6.9 63 494-559 7-69 (80)
36 2dms_A Homeobox protein OTX2; 99.3 1.7E-12 5.6E-17 108.1 7.0 60 494-556 7-66 (80)
37 1puf_A HOX-1.7, homeobox prote 99.3 2.5E-12 8.7E-17 106.4 7.8 62 494-558 13-74 (77)
38 1ahd_P Antennapedia protein mu 99.3 1.4E-12 4.9E-17 105.6 6.0 59 495-556 3-61 (68)
39 1zq3_P PRD-4, homeotic bicoid 99.3 1.8E-12 6.2E-17 104.9 6.3 59 495-556 3-61 (68)
40 1ftt_A TTF-1 HD, thyroid trans 99.3 2.3E-12 8E-17 104.3 6.8 59 495-556 3-61 (68)
41 2dn0_A Zinc fingers and homeob 99.3 2.1E-12 7.1E-17 106.7 6.4 58 496-556 10-67 (76)
42 2kt0_A Nanog, homeobox protein 99.3 3.4E-12 1.2E-16 106.8 7.3 59 494-555 22-80 (84)
43 1uhs_A HOP, homeodomain only p 99.3 3E-12 1E-16 104.6 6.6 58 496-556 3-61 (72)
44 1yz8_P Pituitary homeobox 2; D 99.3 9.1E-13 3.1E-17 106.5 3.5 59 495-556 4-62 (68)
45 2ecb_A Zinc fingers and homeob 99.3 1.1E-12 3.6E-17 113.1 4.1 57 497-556 14-70 (89)
46 3a03_A T-cell leukemia homeobo 99.3 3.4E-12 1.2E-16 99.7 6.3 53 500-555 3-55 (56)
47 1b8i_A Ultrabithorax, protein 99.3 3.4E-12 1.2E-16 106.8 6.6 59 495-556 21-79 (81)
48 1wh5_A ZF-HD homeobox family p 99.3 3.8E-12 1.3E-16 106.9 6.6 61 494-554 17-78 (80)
49 2hi3_A Homeodomain-only protei 99.3 5.6E-12 1.9E-16 103.3 7.1 58 496-556 4-62 (73)
50 3nau_A Zinc fingers and homeob 99.3 3.9E-12 1.3E-16 104.5 6.1 55 500-557 10-64 (66)
51 2da5_A Zinc fingers and homeob 99.3 4.9E-12 1.7E-16 104.4 6.8 57 496-555 9-65 (75)
52 2m0c_A Homeobox protein arista 99.3 5.8E-12 2E-16 102.8 7.0 58 495-555 10-67 (75)
53 2ly9_A Zinc fingers and homeob 99.3 6.8E-12 2.3E-16 102.6 7.4 59 494-555 6-64 (74)
54 3a01_A Homeodomain-containing 99.3 2.8E-12 9.5E-17 110.2 5.4 63 494-559 17-79 (93)
55 3nar_A ZHX1, zinc fingers and 99.3 6.5E-12 2.2E-16 108.2 7.5 64 494-560 25-88 (96)
56 2cuf_A FLJ21616 protein; homeo 99.2 6.8E-12 2.3E-16 107.8 6.6 60 494-556 7-81 (95)
57 2d5v_A Hepatocyte nuclear fact 99.2 7.4E-12 2.5E-16 116.8 6.9 61 494-557 97-157 (164)
58 2r5y_A Homeotic protein sex co 99.2 6.7E-12 2.3E-16 106.3 5.8 60 493-555 27-86 (88)
59 3d1n_I POU domain, class 6, tr 99.2 1E-11 3.6E-16 114.8 7.3 58 494-554 93-150 (151)
60 1b72_A Protein (homeobox prote 99.2 1.1E-11 3.8E-16 106.8 6.0 60 494-556 34-93 (97)
61 2dmp_A Zinc fingers and homeob 99.2 1.9E-11 6.4E-16 104.4 6.9 55 497-554 16-70 (89)
62 2e19_A Transcription factor 8; 99.2 3.6E-11 1.2E-15 97.2 6.0 54 498-554 7-60 (64)
63 1wh7_A ZF-HD homeobox family p 99.1 3.2E-11 1.1E-15 101.6 5.8 60 494-554 17-78 (80)
64 1au7_A Protein PIT-1, GHF-1; c 99.1 5.4E-11 1.9E-15 109.9 7.1 59 494-555 87-145 (146)
65 1e3o_C Octamer-binding transcr 99.1 5.7E-11 2E-15 111.0 6.9 59 494-555 101-159 (160)
66 2cqx_A LAG1 longevity assuranc 99.1 3.2E-11 1.1E-15 99.4 4.3 58 496-556 10-68 (72)
67 2l9r_A Homeobox protein NKX-3. 99.1 8.3E-11 2.8E-15 96.8 6.2 53 501-556 11-63 (69)
68 2xsd_C POU domain, class 3, tr 99.1 6.5E-11 2.2E-15 111.5 6.4 60 494-556 99-158 (164)
69 1wi3_A DNA-binding protein SAT 99.1 1.2E-10 4.2E-15 96.5 6.8 59 493-554 6-65 (71)
70 2da6_A Hepatocyte nuclear fact 99.1 1.2E-10 4.1E-15 102.9 7.2 63 494-559 6-89 (102)
71 1lfb_A Liver transcription fac 99.0 1.6E-10 5.5E-15 101.1 5.4 61 494-557 9-90 (99)
72 3l1p_A POU domain, class 5, tr 99.0 1.2E-10 4.3E-15 108.4 4.7 59 494-555 96-154 (155)
73 1x2m_A LAG1 longevity assuranc 99.0 3E-10 1E-14 92.6 4.5 51 503-555 9-59 (64)
74 1mh3_A Maltose binding-A1 home 98.9 1.2E-09 4.2E-14 111.1 5.8 52 499-553 370-421 (421)
75 2h8r_A Hepatocyte nuclear fact 98.9 2.2E-09 7.6E-14 106.0 6.5 58 493-553 141-219 (221)
76 1ic8_A Hepatocyte nuclear fact 98.8 1.8E-09 6.2E-14 104.7 4.2 58 494-554 115-193 (194)
77 2da7_A Zinc finger homeobox pr 98.8 7.4E-09 2.5E-13 86.1 5.9 46 503-551 14-59 (71)
78 2nzz_A Penetratin conjugated G 95.9 0.0013 4.3E-08 48.5 -0.0 23 539-561 1-23 (37)
79 2ys9_A Homeobox and leucine zi 94.1 0.028 9.4E-07 46.8 2.9 44 501-547 13-56 (70)
80 3hug_A RNA polymerase sigma fa 77.5 1.8 6.1E-05 35.6 3.6 51 500-558 37-87 (92)
81 1hlv_A CENP-B, major centromer 71.4 8.2 0.00028 33.1 6.4 49 496-550 3-51 (131)
82 2o8x_A Probable RNA polymerase 69.7 2.8 9.6E-05 31.9 2.7 52 499-558 14-65 (70)
83 3mzy_A RNA polymerase sigma-H 68.6 3.5 0.00012 35.5 3.5 50 500-558 109-158 (164)
84 1ku3_A Sigma factor SIGA; heli 66.3 5.1 0.00018 31.4 3.7 53 499-559 9-66 (73)
85 2glo_A Brinker CG9653-PA; prot 63.8 11 0.00036 28.7 4.9 46 498-547 3-48 (59)
86 1tty_A Sigma-A, RNA polymerase 62.8 5 0.00017 32.8 3.1 52 500-559 18-73 (87)
87 3t72_q RNA polymerase sigma fa 60.2 9.1 0.00031 32.9 4.4 61 500-564 19-79 (99)
88 2p7v_B Sigma-70, RNA polymeras 59.3 4.2 0.00014 31.5 1.9 56 500-559 5-60 (68)
89 1tc3_C Protein (TC3 transposas 57.0 12 0.0004 25.7 3.8 43 499-549 4-46 (51)
90 1rp3_A RNA polymerase sigma fa 56.4 5.7 0.0002 36.5 2.6 51 499-557 186-236 (239)
91 2rnj_A Response regulator prot 55.2 19 0.00065 29.4 5.4 55 499-562 28-82 (91)
92 1or7_A Sigma-24, RNA polymeras 55.1 7.1 0.00024 34.9 3.0 48 501-556 141-188 (194)
93 1s7o_A Hypothetical UPF0122 pr 54.3 12 0.00042 32.5 4.3 50 500-557 22-71 (113)
94 2elh_A CG11849-PA, LD40883P; s 53.4 17 0.00058 29.7 4.8 43 496-546 18-60 (87)
95 1fse_A GERE; helix-turn-helix 53.1 20 0.0007 27.3 5.0 59 495-562 6-64 (74)
96 1xsv_A Hypothetical UPF0122 pr 51.7 11 0.00037 32.7 3.5 51 500-558 25-75 (113)
97 1je8_A Nitrate/nitrite respons 48.4 20 0.00069 28.9 4.4 55 499-562 20-74 (82)
98 2q1z_A RPOE, ECF SIGE; ECF sig 48.2 5.8 0.0002 35.3 1.2 49 500-556 135-183 (184)
99 1x3u_A Transcriptional regulat 45.1 21 0.00073 27.7 4.0 54 501-563 17-70 (79)
100 1p4w_A RCSB; solution structur 40.4 57 0.0019 27.7 6.2 58 497-563 31-88 (99)
101 1jko_C HIN recombinase, DNA-in 37.1 22 0.00075 24.8 2.6 41 500-548 5-45 (52)
102 3c57_A Two component transcrip 35.2 42 0.0014 27.8 4.5 52 499-559 26-77 (95)
103 3clo_A Transcriptional regulat 34.4 44 0.0015 32.1 5.1 56 499-563 196-251 (258)
104 2a6c_A Helix-turn-helix motif; 31.7 47 0.0016 26.3 4.1 36 527-562 34-69 (83)
105 1iuf_A Centromere ABP1 protein 31.2 47 0.0016 29.6 4.4 52 495-549 6-61 (144)
106 3b7h_A Prophage LP1 protein 11 31.1 44 0.0015 25.4 3.7 32 528-559 24-55 (78)
107 3lsg_A Two-component response 31.0 68 0.0023 26.2 5.1 41 505-548 3-43 (103)
108 2jpc_A SSRB; DNA binding prote 30.4 52 0.0018 24.2 3.9 36 528-563 17-52 (61)
109 1l0o_C Sigma factor; bergerat 29.3 11 0.00039 34.4 0.0 47 499-553 197-243 (243)
110 2xi8_A Putative transcription 29.2 49 0.0017 24.1 3.5 22 528-549 18-39 (66)
111 2q0o_A Probable transcriptiona 28.2 61 0.0021 30.6 4.9 56 498-562 173-228 (236)
112 3qq6_A HTH-type transcriptiona 26.8 56 0.0019 25.6 3.7 33 528-560 27-59 (78)
113 2rn7_A IS629 ORFA; helix, all 25.2 1.3E+02 0.0044 24.8 5.8 51 498-549 4-55 (108)
114 2r1j_L Repressor protein C2; p 25.0 38 0.0013 24.9 2.3 23 527-549 21-43 (68)
115 3bd1_A CRO protein; transcript 24.9 69 0.0024 24.9 3.9 34 527-562 14-47 (79)
116 2lfw_A PHYR sigma-like domain; 24.0 18 0.00062 32.1 0.3 52 497-556 90-141 (157)
117 1zug_A Phage 434 CRO protein; 24.0 39 0.0013 25.1 2.2 24 527-550 19-42 (71)
118 3ulq_B Transcriptional regulat 23.1 1.1E+02 0.0037 25.3 4.9 56 498-562 27-82 (90)
119 2b5a_A C.BCLI; helix-turn-heli 23.1 73 0.0025 24.0 3.6 22 528-549 27-48 (77)
120 2jn6_A Protein CGL2762, transp 22.2 68 0.0023 26.1 3.5 47 498-550 3-49 (97)
121 3bs3_A Putative DNA-binding pr 22.0 47 0.0016 25.1 2.3 23 527-549 26-48 (76)
122 1adr_A P22 C2 repressor; trans 21.9 47 0.0016 25.0 2.3 24 527-550 21-44 (76)
123 1r69_A Repressor protein CI; g 21.6 76 0.0026 23.3 3.3 24 527-550 17-40 (69)
124 1l3l_A Transcriptional activat 21.5 1E+02 0.0034 29.0 4.9 56 498-562 171-226 (234)
125 1uxc_A FRUR (1-57), fructose r 21.4 88 0.003 24.6 3.8 34 527-560 3-38 (65)
126 1l9z_H Sigma factor SIGA; heli 21.2 83 0.0028 33.7 4.8 57 499-559 374-431 (438)
127 1y7y_A C.AHDI; helix-turn-heli 20.5 92 0.0032 23.2 3.7 22 527-548 29-50 (74)
128 2wiu_B HTH-type transcriptiona 20.5 1.1E+02 0.0036 23.8 4.2 35 527-562 28-62 (88)
No 1
>2dmn_A Homeobox protein TGIF2LX; TGFB-induced factor 2-like protein, X-linked TGF(beta) induced transcription factor 2-like protein, TGIF-like on the X; NMR {Homo sapiens}
Probab=99.71 E-value=3.6e-18 Score=144.05 Aligned_cols=66 Identities=39% Similarity=0.767 Sum_probs=61.2
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHH
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEE 559 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee 559 (594)
.+|+|+.|+++++.+|++||.+|..||||+.++|..||.+|||+..||++||+|+|+|.|++++++
T Consensus 7 ~rk~R~~~s~~q~~~L~~~f~~~~~~pYPs~~~r~~LA~~~gLs~~qV~~WFqNrR~r~k~~~~~~ 72 (83)
T 2dmn_A 7 GKKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRRILPDMLQQ 72 (83)
T ss_dssp CCCCCSSCCHHHHHHHHHHHHHTTTTCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHTHHHHTCC
T ss_pred CCCCCCcCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHCcCHHHhhHHhhhhHhhhcHHHHHh
Confidence 345666799999999999999999999999999999999999999999999999999999988764
No 2
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast structural genomics CON PSI-biology, transcription; NMR {Homo sapiens}
Probab=99.69 E-value=1.3e-17 Score=144.09 Aligned_cols=62 Identities=42% Similarity=0.784 Sum_probs=59.0
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEM 560 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~ 560 (594)
.-||++++++|++||.+|+.+|||++++|..||++|||+++||+|||+|+|+|.|++++++.
T Consensus 10 ~~l~~~~~~iL~~W~~~h~~npYPs~~ek~~LA~~tgLt~~QV~~WF~NrR~R~kk~~~~~~ 71 (89)
T 2lk2_A 10 HMLPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDMLRKD 71 (89)
T ss_dssp CCCCHHHHHHHHHHHHHTSGGGSCCHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ccCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHhhhHHHHhc
Confidence 34999999999999999999999999999999999999999999999999999999998763
No 3
>3k2a_A Homeobox protein MEIS2; homeobox domain, DNA-binding, transcription, nucleus, phosphoprotein, DNA bindi protein; 1.95A {Homo sapiens} SCOP: a.4.1.1
Probab=99.69 E-value=2.3e-17 Score=134.23 Aligned_cols=62 Identities=47% Similarity=0.913 Sum_probs=54.6
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEM 560 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~ 560 (594)
..||++++.+|+.||.+|+.+|||+.++|..||..|||+..||++||+|+|+|.|++++++.
T Consensus 3 g~f~~~~~~~L~~~f~~h~~~pyp~~~~r~~La~~~~l~~~qV~~WFqNrR~r~kk~~~~~~ 64 (67)
T 3k2a_A 3 GIFPKVATNIMRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMIDQS 64 (67)
T ss_dssp ---CHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHSCC----
T ss_pred CcCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhCcCHHHhhhhhHHHHHHHhHHHHHHh
Confidence 56999999999999999999999999999999999999999999999999999999998764
No 4
>1x2n_A Homeobox protein pknox1; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.67 E-value=6.9e-17 Score=132.24 Aligned_cols=65 Identities=40% Similarity=0.701 Sum_probs=60.5
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHH
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIE 558 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmie 558 (594)
.+|+|..|++.++.+|+.||.+|..+|||+.++|..||.++||++.||.+||+|+|+|.|+++++
T Consensus 7 ~rr~R~~~~~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~~~~ 71 (73)
T 1x2n_A 7 GKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQSGPS 71 (73)
T ss_dssp SCCSSCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHTTTS
T ss_pred CCCCCCcCCHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHCcCHHHHHHHhHHHHhhccccccc
Confidence 35566679999999999999999999999999999999999999999999999999999998864
No 5
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus musculus} SCOP: a.4.1.1
Probab=99.63 E-value=3e-16 Score=125.26 Aligned_cols=61 Identities=34% Similarity=0.629 Sum_probs=57.4
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
+|+|+.|++.++.+|+.||.+|..+|||+.+++..||..+||+..||.+||+|+|+|.||+
T Consensus 4 rr~R~~ft~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~ 64 (64)
T 1du6_A 4 HIEGRHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKN 64 (64)
T ss_dssp CCCCCSSTTTHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHTTTSSCC
T ss_pred CCCCCcCCHHHHHHHHHHHHHcccCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHhccC
Confidence 4666779999999999999999999999999999999999999999999999999999874
No 6
>1puf_B PRE-B-cell leukemia transcription factor-1; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Homo sapiens} SCOP: a.4.1.1 PDB: 1b8i_B* 2r5y_B* 2r5z_B*
Probab=99.61 E-value=6.6e-16 Score=126.39 Aligned_cols=64 Identities=34% Similarity=0.646 Sum_probs=59.5
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHH
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIE 558 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmie 558 (594)
+|+|+.|++.++.+|+.||.+|..+|||+.+++..||..+||+..||.+||+|+|+|.|+....
T Consensus 2 rr~R~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~~~~ 65 (73)
T 1puf_B 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGK 65 (73)
T ss_dssp CCCCCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHCTTT
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHhhccccccc
Confidence 4667789999999999999999999999999999999999999999999999999999886643
No 7
>1k61_A Mating-type protein alpha-2; protein-DNA complex, homeodomain, hoogsteen base PAIR, transcription/DNA complex; HET: 5IU; 2.10A {Synthetic} SCOP: a.4.1.1
Probab=99.61 E-value=7.7e-16 Score=121.45 Aligned_cols=58 Identities=24% Similarity=0.449 Sum_probs=55.1
Q ss_pred CCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 498 QRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 498 RR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
++.|+++++.+|+.||..|+.+|||+.+++..||+++||++.||.+||+|+|+|.++.
T Consensus 2 r~~ft~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~gl~~~qV~~WFqNrR~r~kk~ 59 (60)
T 1k61_A 2 GHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 59 (60)
T ss_dssp CCSCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCC
T ss_pred cCcCCHHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHcccccC
Confidence 5679999999999999999999999999999999999999999999999999998864
No 8
>1b72_B Protein (PBX1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1 PDB: 1lfu_P
Probab=99.60 E-value=8.8e-16 Score=129.38 Aligned_cols=65 Identities=34% Similarity=0.616 Sum_probs=60.3
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHH
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEE 559 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee 559 (594)
+|+|+.|++.++.+|+.||.+|..+|||+.++|..||+.+||+..||.+||+|+|+|.|+.+...
T Consensus 2 rr~R~~ft~~q~~~Le~~f~~h~~~~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~r~kk~~~~~ 66 (87)
T 1b72_B 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKF 66 (87)
T ss_dssp -CCCCCCCHHHHHHHHHHHHTTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHCGGGG
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHhhhccccc
Confidence 46677899999999999999999999999999999999999999999999999999999987654
No 9
>1le8_B Mating-type protein alpha-2; matalpha2, isothermal titration calorimetry, protein-DNA complex, transcription/DNA complex; 2.30A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1akh_B* 1apl_C* 1yrn_B*
Probab=99.57 E-value=2.5e-15 Score=126.40 Aligned_cols=61 Identities=23% Similarity=0.443 Sum_probs=57.2
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEE 559 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee 559 (594)
+.|+++++.+|+.||..|+.+|||+.+++..||..+||+..||.+||+|+|+|.++..+..
T Consensus 7 ~rft~~q~~~Le~~f~~h~~~~yP~~~~r~~La~~~gLt~~qV~~WFqNrR~r~kk~~~~~ 67 (83)
T 1le8_B 7 HRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTITIAP 67 (83)
T ss_dssp CCCCHHHHHHHHHHHHHTSSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTTSCCCH
T ss_pred CCCCHHHHHHHHHHHHhhCCCCCcCHHHHHHHHHHHCCCHHHcccccHHHHccccccccCH
Confidence 3499999999999999999999999999999999999999999999999999999877643
No 10
>1mnm_C Protein (MAT alpha-2 transcriptional repressor); transcription regulation, transcriptional repression, DNA- binding protein; HET: DNA; 2.25A {Saccharomyces cerevisiae} SCOP: a.4.1.1
Probab=99.56 E-value=3.7e-15 Score=126.09 Aligned_cols=60 Identities=23% Similarity=0.406 Sum_probs=55.4
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhch
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWK 554 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkK 554 (594)
+|+|+.|+++++.+|+.||..|+.+|||+.++|..||+.+||+..||.+||+|+|+|.|.
T Consensus 28 ~k~r~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~gL~~~qV~~WFqNrR~r~k~ 87 (87)
T 1mnm_C 28 PYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 87 (87)
T ss_dssp CCTTCCCCHHHHHHHHHHHHHTTSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTC
T ss_pred CCCCCcCCHHHHHHHHHHHHHhCCCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHhhccC
Confidence 344556999999999999999999999999999999999999999999999999999763
No 11
>2ecc_A Homeobox and leucine zipper protein homez; homeobox domain, transcription factor, leucine zipper- containing factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.47 E-value=4.2e-14 Score=118.85 Aligned_cols=60 Identities=17% Similarity=0.425 Sum_probs=55.7
Q ss_pred CCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHH
Q 007660 496 RPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIE 558 (594)
Q Consensus 496 RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmie 558 (594)
++++.|+++++.+|++||..+ |||+.++++.||+.|||++.||.+||+|+|.|.|+..+.
T Consensus 5 ~~r~kfT~~Ql~~Le~~F~~~---~YPs~~er~~LA~~tgLte~qIkvWFqNrR~k~Kk~~l~ 64 (76)
T 2ecc_A 5 SSGKRKTKEQLAILKSFFLQC---QWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQLK 64 (76)
T ss_dssp CCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHTCCS
T ss_pred CCCCCCCHHHHHHHHHHHHHC---CCCCHHHHHHHHHHHCcCHHHhhHHhHhhHHHHHHHHHH
Confidence 456779999999999999999 999999999999999999999999999999999887654
No 12
>1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding proteins/DNA), complex, DNA- binding protein, DNA; HET: DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1f43_A 1yrn_A*
Probab=99.46 E-value=6.2e-14 Score=110.67 Aligned_cols=57 Identities=26% Similarity=0.337 Sum_probs=48.1
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhc
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLW 553 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlk 553 (594)
.+|+|..|+..++.+|+.||..+ |||+..++..||..+||+..||.+||+|+|.|.+
T Consensus 5 ~rr~Rt~ft~~q~~~Le~~f~~~---~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~k~k 61 (61)
T 1akh_A 5 SPKGKSSISPQARAFLEEVFRRK---QSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61 (61)
T ss_dssp -------CCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-
T ss_pred CCCCCCCCCHHHHHHHHHHHHhC---CCcCHHHHHHHHHHHCcCHHHHHHHHHHHHhccC
Confidence 34566679999999999999998 9999999999999999999999999999999864
No 13
>1bw5_A ISL-1HD, insulin gene enhancer protein ISL-1; DNA-binding protein, homeodomain, LIM domain; NMR {Rattus norvegicus} SCOP: a.4.1.1
Probab=99.42 E-value=1.9e-13 Score=109.74 Aligned_cols=59 Identities=31% Similarity=0.379 Sum_probs=54.9
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
+|+|..|+++++.+|+.||..+ |||+..++..||..+||+..||.+||+|+|.|.++..
T Consensus 4 rr~Rt~ft~~q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~~ 62 (66)
T 1bw5_A 4 TRVRTVLNEKQLHTLRTCYAAN---PRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRS 62 (66)
T ss_dssp SCCCCCCSHHHHHHHHHHHHHC---SCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHCSSCC
T ss_pred CCCCCCCCHHHHHHHHHHHhcC---CCcCHHHHHHHHHHHCcCHHHHHHHhHHHHHHHhHHh
Confidence 4667779999999999999998 9999999999999999999999999999999988754
No 14
>1jgg_A Segmentation protein EVEN-skipped; homeodomain, protein-DNA complex, transcription/DNA complex; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1
Probab=99.40 E-value=3.3e-13 Score=106.48 Aligned_cols=58 Identities=17% Similarity=0.330 Sum_probs=54.0
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
+|+|..|+.+++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++.
T Consensus 2 rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kr~ 59 (60)
T 1jgg_A 2 RRYRTAFTRDQLGRLEKEFYKE---NYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59 (60)
T ss_dssp -CCCCCCCHHHHHHHHHHHHHC---SCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHC
T ss_pred CCCCCCCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHCcCHHHHHHhhHHHHhHhhcc
Confidence 5677789999999999999998 999999999999999999999999999999998864
No 15
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Probab=99.40 E-value=3.5e-13 Score=105.35 Aligned_cols=57 Identities=26% Similarity=0.351 Sum_probs=53.4
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhch
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWK 554 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkK 554 (594)
+|+|..|+.+++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++
T Consensus 1 rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kr 57 (58)
T 1ig7_A 1 RKPRTPFTTAQLLALERKFRQK---QYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57 (58)
T ss_dssp CCCCCCCCHHHHHHHHHHHHHC---SCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHhcC---CCcCHHHHHHHHHHHCcCHHHhhhhhhHhhhhhcc
Confidence 3566779999999999999988 99999999999999999999999999999999875
No 16
>2dmu_A Homeobox protein goosecoid; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.40 E-value=3.8e-13 Score=109.16 Aligned_cols=60 Identities=22% Similarity=0.341 Sum_probs=55.3
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|+.+++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++..
T Consensus 7 ~rr~Rt~ft~~q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~rr~~ 66 (70)
T 2dmu_A 7 GRRHRTIFTDEQLEALENLFQET---KYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRRSG 66 (70)
T ss_dssp SCCCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHTS
T ss_pred CCCCCCCCCHHHHHHHHHHHHcc---CCCCHHHHHHHHHHHCCCHHHeehccccccccccccC
Confidence 35666779999999999999998 9999999999999999999999999999999988753
No 17
>2hdd_A Protein (engrailed homeodomain Q50K); DNA binding, complex (DNA binding protein/DNA), transcription/DNA complex; HET: DNA; 1.90A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1hdd_C* 2jwt_A 3hdd_A 1p7j_A* 1p7i_A* 2hos_A 2hot_A 1du0_A* 1ztr_A 1enh_A 2p81_A
Probab=99.39 E-value=4.1e-13 Score=106.31 Aligned_cols=57 Identities=25% Similarity=0.477 Sum_probs=52.0
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhch
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWK 554 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkK 554 (594)
+|+|..|+..++.+|+.+|..+ |||+..++..||..+||+..||.+||+|+|.|.+|
T Consensus 4 rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk 60 (61)
T 2hdd_A 4 KRPRTAFSSEQLARLKREFNEN---RYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60 (61)
T ss_dssp ---CCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHT
T ss_pred CCCCCCCCHHHHHHHHHHHHcc---CCCCHHHHHHHHHHHCcCHHHHHHHhhhhcccccc
Confidence 4566779999999999999998 99999999999999999999999999999999886
No 18
>2da4_A Hypothetical protein DKFZP686K21156; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.39 E-value=1.7e-13 Score=114.07 Aligned_cols=62 Identities=10% Similarity=0.100 Sum_probs=56.3
Q ss_pred cCCCCCCCChhHHHHHHHHHHHc-cCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQN-FLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH-~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
.+|+|..|+.+++.+|+.||..+ ..+|||+.+++..||+.+||++.||.+||+|+|+|.++.
T Consensus 8 ~rr~Rt~ft~~Q~~~Le~~F~~~~~~~~yp~~~~r~~La~~lgL~~~qV~vWFqNrR~k~rk~ 70 (80)
T 2da4_A 8 ALQDRTQFSDRDLATLKKYWDNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKYRLM 70 (80)
T ss_dssp CCCSSCCCCHHHHHHHHHHHTTTTTCCSHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHHhCCCCCCCcCHHHHHHHHHHhCCCHHHhhHhHHHHHHHHhhc
Confidence 35566679999999999999887 677999999999999999999999999999999998873
No 19
>2cra_A Homeobox protein HOX-B13; DNA-binding, transcription regulation, helix-turn-helix, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.39 E-value=4.9e-13 Score=108.66 Aligned_cols=60 Identities=17% Similarity=0.230 Sum_probs=55.3
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|+++++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++..
T Consensus 7 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kk~~ 66 (70)
T 2cra_A 7 GRKKRIPYSKGQLRELEREYAAN---KFITKDKRRKISAATSLSERQITIWFQNRRVKEKKSG 66 (70)
T ss_dssp CCCSCCCSCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHTTTSSC
T ss_pred CCCCCCcCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHCCCHHHhhHhhHhHHHHhcccC
Confidence 35666779999999999999988 9999999999999999999999999999999998754
No 20
>2e1o_A Homeobox protein PRH; DNA binding protein, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.38 E-value=6e-13 Score=108.16 Aligned_cols=59 Identities=22% Similarity=0.235 Sum_probs=54.7
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
.+|+|..|+++++.+|+.||..+ |||+..++..||..+||++.||.+||+|+|.|.++.
T Consensus 7 ~~r~R~~ft~~q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~rr~ 65 (70)
T 2e1o_A 7 GKGGQVRFSNDQTIELEKKFETQ---KYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRRS 65 (70)
T ss_dssp CCCCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHHcC---CCcCHHHHHHHHHHHCCCHHHhhHhhHhhHhhcCCC
Confidence 35566779999999999999988 999999999999999999999999999999998875
No 21
>2da2_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens}
Probab=99.37 E-value=6.2e-13 Score=107.76 Aligned_cols=60 Identities=27% Similarity=0.358 Sum_probs=55.3
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|+.+++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++..
T Consensus 7 ~rr~Rt~ft~~q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~kk~~ 66 (70)
T 2da2_A 7 GRSSRTRFTDYQLRVLQDFFDAN---AYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARKSG 66 (70)
T ss_dssp SCCCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHSCCCHHHHHHHHHHHHHHHCCCS
T ss_pred CCCCCCCCCHHHHHHHHHHHHcC---CCcCHHHHHHHHHHhCCCHHHhHHhhHhhhHHHhhcc
Confidence 45666779999999999999998 9999999999999999999999999999999998753
No 22
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA complex, transcription/DNA complex; 2.42A {Mesocricetus auratus}
Probab=99.37 E-value=6.6e-13 Score=105.87 Aligned_cols=58 Identities=22% Similarity=0.300 Sum_probs=53.9
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
+|+|..|+..++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++.
T Consensus 4 rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~kk~ 61 (63)
T 2h1k_A 4 KRTRTAYTRAQLLELEKEFLFN---KYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKE 61 (63)
T ss_dssp -CCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCHHHHHHHHHHHhcC---CCcCHHHHHHHHHHhCcCHHHhhHHHHhhhhhhhhh
Confidence 4667779999999999999988 999999999999999999999999999999998874
No 23
>2dmq_A LIM/homeobox protein LHX9; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.37 E-value=7.4e-13 Score=109.88 Aligned_cols=61 Identities=23% Similarity=0.446 Sum_probs=56.2
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhH
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMI 557 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmi 557 (594)
.+|+|..|+.+++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++...
T Consensus 7 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~~~ 67 (80)
T 2dmq_A 7 GKRMRTSFKHHQLRTMKSYFAIN---HNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLL 67 (80)
T ss_dssp CCCCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHhCCCHHHhhHccHHHHHHHHHHHH
Confidence 45667779999999999999988 99999999999999999999999999999999988653
No 24
>2da3_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens}
Probab=99.37 E-value=5.3e-13 Score=110.41 Aligned_cols=60 Identities=22% Similarity=0.288 Sum_probs=55.2
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|+.+++.+|+.+|..+ |||+.+++..||+++||++.||.+||+|+|.|.++..
T Consensus 17 ~rr~Rt~ft~~Ql~~Le~~f~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~~ 76 (80)
T 2da3_A 17 DKRLRTTITPEQLEILYQKYLLD---SNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERKSG 76 (80)
T ss_dssp CTTCCSSCCTTTHHHHHHHHHHC---SSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHSSC
T ss_pred CCCCCCCCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHCcCHHHhHHHhHHHHHhHhhhc
Confidence 45566779999999999999998 9999999999999999999999999999999998753
No 25
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=99.37 E-value=5e-13 Score=108.64 Aligned_cols=59 Identities=29% Similarity=0.374 Sum_probs=54.5
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
.+|+|..|+..++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.++.
T Consensus 7 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~ 65 (70)
T 2djn_A 7 GRKPRTIYSSFQLAALQRRFQKT---QYLALPERAELAASLGLTQTQVKIWFQNKRSKIKKS 65 (70)
T ss_dssp CCCSSCSSCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHSSCCHHHHHHHHHHHHHTCSSS
T ss_pred CCCCCCCCCHHHHHHHHHHHcCC---CCCCHHHHHHHHHHhCCCHHHHHHHHHHHhhhhccc
Confidence 35666779999999999999887 999999999999999999999999999999999874
No 26
>2da1_A Alpha-fetoprotein enhancer binding protein; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics; NMR {Homo sapiens}
Probab=99.37 E-value=5.4e-13 Score=108.12 Aligned_cols=60 Identities=25% Similarity=0.407 Sum_probs=55.3
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|+.+++.+|+.+|..+ |||+..++..||..+||+..||.+||+|+|.|.++..
T Consensus 7 ~rr~Rt~ft~~q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~kk~~ 66 (70)
T 2da1_A 7 GKRPRTRITDDQLRVLRQYFDIN---NSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQSG 66 (70)
T ss_dssp CCSCSCCCCHHHHHHHHHHHHHC---SSCCTTHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCC
T ss_pred CCCCCCCCCHHHHHHHHHHHHHC---CCCCHHHHHHHHHHhCCCHHHHHHHhhhhhHHHhhhc
Confidence 45667779999999999999988 9999999999999999999999999999999988753
No 27
>1fjl_A Paired protein; DNA-binding protein, paired BOX, transcription regulation; HET: DNA; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 3a01_B
Probab=99.36 E-value=9.3e-13 Score=109.84 Aligned_cols=61 Identities=25% Similarity=0.397 Sum_probs=55.7
Q ss_pred ccCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 493 QIWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 493 ~~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
..+|+|..|+..++.+|+.||..+ |||+..++..||+.+||++.||.+||+|+|.|.++..
T Consensus 17 ~~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~rk~~ 77 (81)
T 1fjl_A 17 KQRRSRTTFSASQLDELERAFERT---QYPDIYTREELAQRTNLTEARIQVWFQNRRARLRKQH 77 (81)
T ss_dssp CCCCCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHHCcCHHHHHHHHHHHhhhhhhhc
Confidence 345666779999999999999988 9999999999999999999999999999999998754
No 28
>2k40_A Homeobox expressed in ES cells 1; thermostable homeodomain variant, DNA binding protein, developmental protein, disease mutation, DNA-binding; NMR {Homo sapiens}
Probab=99.36 E-value=6.3e-13 Score=107.03 Aligned_cols=60 Identities=27% Similarity=0.365 Sum_probs=54.9
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhH
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMI 557 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmi 557 (594)
+|+|..|++.++.+|+.+|..+ |||+.+++..||..+||++.||.+||+|+|.|.++...
T Consensus 2 rr~Rt~ft~~q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kr~~~ 61 (67)
T 2k40_A 2 RRPRTAFTQNQIEVLENVFRVN---CYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHR 61 (67)
T ss_dssp CCCSCCCCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHCSCC
T ss_pred cCCCCCCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHCcCHHHhhHhhHhHHHHHhHhch
Confidence 4567779999999999999877 99999999999999999999999999999999887543
No 29
>2dmt_A Homeobox protein BARH-like 1; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.36 E-value=9.4e-13 Score=109.71 Aligned_cols=60 Identities=23% Similarity=0.288 Sum_probs=55.4
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|+..++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.++..
T Consensus 17 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kk~~ 76 (80)
T 2dmt_A 17 GRRSRTVFTELQLMGLEKRFEKQ---KYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKWKKSG 76 (80)
T ss_dssp CCCSCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHSCCC
T ss_pred CCCCCCCCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHhCCCHHHeeeccHHHHHHhhccc
Confidence 45666679999999999999998 9999999999999999999999999999999998754
No 30
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription, transcription facto developmental protein, transcription regulation, NUC homeobox; 2.6A {Mus musculus}
Probab=99.35 E-value=1.1e-12 Score=104.12 Aligned_cols=58 Identities=17% Similarity=0.243 Sum_probs=51.8
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
+|+|..|+.+++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++.
T Consensus 4 rr~Rt~ft~~q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~kr~ 61 (62)
T 2vi6_A 4 QKMRTVFSQAQLCALKDRFQKQ---KYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 61 (62)
T ss_dssp ----CCCCHHHHHHHHHHHHHC---SCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHTCGGG
T ss_pred CCCCCCCCHHHHHHHHHHHHhC---CCCCHHHHHHHHHHhCCCHHHhhHHhHHhhcchhhc
Confidence 4566679999999999999988 999999999999999999999999999999998873
No 31
>3a02_A Homeobox protein aristaless; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.00A {Drosophila melanogaster} PDB: 3lnq_A 3cmy_A
Probab=99.34 E-value=1.2e-12 Score=103.33 Aligned_cols=55 Identities=27% Similarity=0.414 Sum_probs=49.8
Q ss_pred CCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 498 QRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 498 RR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
|..|+.+++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++.
T Consensus 3 Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~rk~ 57 (60)
T 3a02_A 3 HMTFTSFQLEELEKAFSRT---HYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57 (60)
T ss_dssp --CCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHC--
T ss_pred CcccCHHHHHHHHHHHHcC---CCcCHHHHHHHHHHHCcCHHHHHHHhhhhhhhhHhh
Confidence 4669999999999999988 999999999999999999999999999999999874
No 32
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB: 2ld5_A*
Probab=99.34 E-value=1.4e-12 Score=107.11 Aligned_cols=60 Identities=18% Similarity=0.255 Sum_probs=55.2
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|++.++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++..
T Consensus 7 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~ 66 (73)
T 2l7z_A 7 GRKKRVPYTKVQLKELEREYATN---KFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVI 66 (73)
T ss_dssp CCCCCCCSCHHHHHHHHHHHHHT---SCCCHHHHHHHHHHHTSCSHHHHHHHHHHHHHHTTSS
T ss_pred CCCCCCCCCHHHHHHHHHHHhhC---CCcCHHHHHHHHHHHCCCHHHHHHHHHHHhHHHHHHh
Confidence 35566679999999999999998 9999999999999999999999999999999998754
No 33
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus, transcription-DNA CO; 1.70A {Homo sapiens}
Probab=99.34 E-value=1.2e-12 Score=101.54 Aligned_cols=56 Identities=30% Similarity=0.338 Sum_probs=51.6
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhc
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLW 553 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlk 553 (594)
+|+|..|+..++.+|+.+|..+ |||+..++..||..+||+..||.+||+|+|.|.|
T Consensus 3 rr~Rt~~t~~q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~k 58 (58)
T 3rkq_A 3 RKPRVLFSQAQVYELERRFKQQ---RYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58 (58)
T ss_dssp CCCCCCCCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHC
T ss_pred CCCCCCcCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHhCcCHHHHHHhhHHhhccCC
Confidence 3556679999999999999877 9999999999999999999999999999999865
No 34
>1nk2_P Homeobox protein VND; homeodomain, DNA-binding protein, embryonic development, complex (homeodomain/DNA); HET: DNA; NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 1nk3_P* 1vnd_A 1qry_A
Probab=99.34 E-value=1.5e-12 Score=107.70 Aligned_cols=62 Identities=26% Similarity=0.239 Sum_probs=56.2
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHH
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIE 558 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmie 558 (594)
.+|+|..|+..++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++...+
T Consensus 9 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNRR~k~kr~~~~ 70 (77)
T 1nk2_P 9 KRKRRVLFTKAQTYELERRFRQQ---RYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKRAQNE 70 (77)
T ss_dssp CCCCCCCCCHHHHHHHHHHHHHC---SCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCccCCHHHHHHHHHHHhhc---CCCCHHHHHHHHHHhCCCHHHHHHHhHHhhcchhhhhcc
Confidence 34556679999999999999988 999999999999999999999999999999999886544
No 35
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.33 E-value=1.4e-12 Score=108.59 Aligned_cols=63 Identities=19% Similarity=0.294 Sum_probs=57.1
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHH
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEE 559 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee 559 (594)
.+|+|..|+++++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++.....
T Consensus 7 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~~~~ 69 (80)
T 2cue_A 7 GQRNRTSFTQEQIEALEKEFERT---HYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRREEKLR 69 (80)
T ss_dssp SCCCCCCSCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCccCHHHHHHHHHHHhcc---CCCCHHHHHHHHHHhCCCHHHhhHHHHHHHHHHHHHhhhh
Confidence 35666779999999999999887 9999999999999999999999999999999999876544
No 36
>2dms_A Homeobox protein OTX2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Mus musculus}
Probab=99.33 E-value=1.7e-12 Score=108.08 Aligned_cols=60 Identities=23% Similarity=0.366 Sum_probs=55.2
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|+.+++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.++..
T Consensus 7 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNRR~k~rk~~ 66 (80)
T 2dms_A 7 GRRERTTFTRAQLDVLEALFAKT---RYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQ 66 (80)
T ss_dssp CCCCCSSCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHTTCCHHHHHHHHHHHHTHHHHTT
T ss_pred CCCCCCCCCHHHHHHHHHHHHcc---CCCCHHHHHHHHHHHCcCHHHhhhhhHHHhHHhhHHH
Confidence 45666779999999999999998 9999999999999999999999999999999988743
No 37
>1puf_A HOX-1.7, homeobox protein HOX-A9; homeodomian, protein-DNA complex, HOX hexapeptide, TALE homeodomain, homeodomain interaction; 1.90A {Mus musculus} SCOP: a.4.1.1 PDB: 1san_A
Probab=99.32 E-value=2.5e-12 Score=106.38 Aligned_cols=62 Identities=21% Similarity=0.214 Sum_probs=56.5
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHH
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIE 558 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmie 558 (594)
.+|+|..|+..++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++...+
T Consensus 13 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~k~ 74 (77)
T 1puf_A 13 TRKKRCPYTKHQTLELEKEFLFN---MYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKKINKD 74 (77)
T ss_dssp TSCCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHhcc---CCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHhhhh
Confidence 45566779999999999999988 999999999999999999999999999999999886543
No 38
>1ahd_P Antennapedia protein mutant; DNA binding protein/DNA; HET: DNA; NMR {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 2hoa_A 1hom_A 1ftz_A
Probab=99.32 E-value=1.4e-12 Score=105.65 Aligned_cols=59 Identities=22% Similarity=0.227 Sum_probs=54.3
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
+|+|..|+..++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++..
T Consensus 3 rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~vWFqNRR~k~kk~~ 61 (68)
T 1ahd_P 3 KRGRQTYTRYQTLELEKEFHFN---RYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEN 61 (68)
T ss_dssp SCTTCCCCHHHHHHHHHHHHHC---SSCCTTHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHS
T ss_pred CCCCCCcCHHHHHHHHHHHccC---CCCCHHHHHHHHHHHCcCHhhhhHHhHHHHhHHhHhc
Confidence 3556679999999999999988 9999999999999999999999999999999988743
No 39
>1zq3_P PRD-4, homeotic bicoid protein; protein-DNA complex, double helix, helix-turn-helix; NMR {Drosophila melanogaster} SCOP: a.4.1.1
Probab=99.31 E-value=1.8e-12 Score=104.90 Aligned_cols=59 Identities=24% Similarity=0.284 Sum_probs=54.6
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
+|+|..|+..++.+|+.+|..+ |||+..++..||..+||+..||.+||+|+|.|.++..
T Consensus 3 rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNRR~k~kk~~ 61 (68)
T 1zq3_P 3 RRTRTTFTSSQIAELEQHFLQG---RYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQS 61 (68)
T ss_dssp SCCSCCCCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCHHHHHHHHHHHhcC---CCcCHHHHHHHHHHhCcCHHHhhHhhHHHHHHHHHHh
Confidence 4566779999999999999887 9999999999999999999999999999999988754
No 40
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Probab=99.31 E-value=2.3e-12 Score=104.28 Aligned_cols=59 Identities=27% Similarity=0.307 Sum_probs=54.3
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
+|+|..|+..++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++..
T Consensus 3 rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kr~~ 61 (68)
T 1ftt_A 3 RKRRVLFSQAQVYELERRFKQQ---KYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQA 61 (68)
T ss_dssp SSSCSSCCHHHHHHHHHHHHHS---SSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTT
T ss_pred CCCCCccCHHHHHHHHHHHHhC---CCCCHHHHHHHHHHhCCCHHHhHHHhHHHhhhhhhhh
Confidence 3455669999999999999988 9999999999999999999999999999999998754
No 41
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein, KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.31 E-value=2.1e-12 Score=106.67 Aligned_cols=58 Identities=21% Similarity=0.362 Sum_probs=53.7
Q ss_pred CCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 496 RPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 496 RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
+.|+.|+++++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.|+..
T Consensus 10 ~~R~~ft~~Ql~~Le~~F~~~---~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~k~kk~~ 67 (76)
T 2dn0_A 10 IYKNKKSHEQLSALKGSFCRN---QFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCRNLK 67 (76)
T ss_dssp CCCCCCCHHHHHHHHHHHHHS---SSCCSHHHHHHHHHHCCCHHHHHHHHHHHHHHSSSCC
T ss_pred CCCccCCHHHHHHHHHHHhcC---CCcCHHHHHHHHHHhCCChHHhhHHhHHHhHHHHHhc
Confidence 346679999999999999998 9999999999999999999999999999999998743
No 42
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics, protein structure initiative, PSI, center for eukaryotic structural genomics; NMR {Homo sapiens}
Probab=99.30 E-value=3.4e-12 Score=106.78 Aligned_cols=59 Identities=19% Similarity=0.233 Sum_probs=54.7
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
.+|+|..|+..++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.++.
T Consensus 22 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~vWFqNRR~k~kk~ 80 (84)
T 2kt0_A 22 KQKTRTVFSSTQLCVLNDRFQRQ---KYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKRW 80 (84)
T ss_dssp SCCCSSCCCHHHHHHHHHHHHHS---SSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHTTTSC
T ss_pred CCCCCCCCCHHHHHHHHHHHHhC---CCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHH
Confidence 45666679999999999999988 999999999999999999999999999999998874
No 43
>1uhs_A HOP, homeodomain only protein; structural genomics, cardiac development, riken structural genomics/proteomics initiative, RSGI, transcription; NMR {Mus musculus} SCOP: a.4.1.1
Probab=99.30 E-value=3e-12 Score=104.59 Aligned_cols=58 Identities=22% Similarity=0.341 Sum_probs=53.5
Q ss_pred CCCCCCChhHHHHHHHHHHH-ccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 496 RPQRGLPEKSVSVLRAWMFQ-NFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 496 RkRR~fpk~a~~iLr~Wf~e-H~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
++|+.|+..++.+|+.+|.. + |||+..++..||+.+||++.||.+||+|+|.|.++..
T Consensus 3 k~Rt~ft~~Q~~~Le~~F~~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~rk~~ 61 (72)
T 1uhs_A 3 EGAATMTEDQVEILEYNFNKVN---KHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 61 (72)
T ss_dssp CCCCCCCHHHHHHHHHHHHSSC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCccCCHHHHHHHHHHHHccC---CCCCHHHHHHHHHHHCcCHHHhhHHhHHHHHHHhhhc
Confidence 45667999999999999985 7 9999999999999999999999999999999998743
No 44
>1yz8_P Pituitary homeobox 2; DNA binding protein, transcription/DNA complex; NMR {Homo sapiens} SCOP: a.4.1.1 PDB: 2l7f_P 2lkx_A* 2l7m_P
Probab=99.30 E-value=9.1e-13 Score=106.54 Aligned_cols=59 Identities=25% Similarity=0.404 Sum_probs=54.4
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
+|+|..|+..++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++..
T Consensus 4 rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~rk~~ 62 (68)
T 1yz8_P 4 RRQRTHFTSQQLQQLEATFQRN---RYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKRE 62 (68)
T ss_dssp SCSCCCCCHHHHHHHHHHHTTC---SSCCTTTTTHHHHHTTSCHHHHHHHHHHHHHHHHHHT
T ss_pred CCCCCCCCHHHHHHHHHHHHcc---CCCCHHHHHHHHHHHCcCHHHHHHHHHHHhHHHHHHh
Confidence 4566679999999999999887 9999999999999999999999999999999988754
No 45
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.29 E-value=1.1e-12 Score=113.10 Aligned_cols=57 Identities=19% Similarity=0.278 Sum_probs=52.4
Q ss_pred CCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 497 PQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 497 kRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
+.+.|+.+++.+|+.||..+ +||+..+|..||..+||++.||.+||+|+|.|.++..
T Consensus 14 k~k~~t~~Ql~~Le~~F~~~---~yp~~~~r~~LA~~lgLte~qVkvWFqNRR~k~rk~~ 70 (89)
T 2ecb_A 14 KFKEKTAEQLRVLQASFLNS---SVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKE 70 (89)
T ss_dssp CCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHSCC
T ss_pred hhccCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHhCcChHHCeecccccchHHHHHH
Confidence 44579999999999999998 9999999999999999999999999999999887643
No 46
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.54A {Homo sapiens}
Probab=99.29 E-value=3.4e-12 Score=99.69 Aligned_cols=53 Identities=26% Similarity=0.419 Sum_probs=50.0
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
.|+++++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.++.
T Consensus 3 ~ft~~Ql~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kr~ 55 (56)
T 3a03_A 3 SFSRSQVLELERRFLRQ---KYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55 (56)
T ss_dssp -CCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHH
T ss_pred ccCHHHHHHHHHHHHhc---CCcCHHHHHHHHHHhCcCHHHhhHhhHHhhhhhccc
Confidence 58999999999999988 999999999999999999999999999999998874
No 47
>1b8i_A Ultrabithorax, protein (ultrabithorax homeotic protein IV); DNA binding, homeodomain, homeotic proteins, development, specificity; HET: DNA; 2.40A {Drosophila melanogaster} SCOP: a.4.1.1 PDB: 9ant_A*
Probab=99.29 E-value=3.4e-12 Score=106.84 Aligned_cols=59 Identities=24% Similarity=0.304 Sum_probs=53.3
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
+|+|..|+..++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.||..
T Consensus 21 rr~Rt~ft~~Ql~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~ 79 (81)
T 1b8i_A 21 RRGRQTYTRYQTLELEKEFHTN---HYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKKEI 79 (81)
T ss_dssp ---CCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHTTC
T ss_pred CCCCcccCHHHHHHHHHHHhcC---CCCCHHHHHHHHHHhCCCHHHHHHHhHHhhhhhhhhc
Confidence 4566779999999999999998 9999999999999999999999999999999998864
No 48
>1wh5_A ZF-HD homeobox family protein; structural genomics, zinc finger homeobox family protein, riken structural genomics/proteomics initiative; NMR {Arabidopsis thaliana} SCOP: a.4.1.1
Probab=99.28 E-value=3.8e-12 Score=106.90 Aligned_cols=61 Identities=11% Similarity=0.106 Sum_probs=54.8
Q ss_pred cCCCCCCCChhHHHHHHHHHHH-ccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhch
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQ-NFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWK 554 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~e-H~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkK 554 (594)
.+|+|..|+.+++..|+.+|.. ++.+|||+..+++.||..+||++.||++||+|+|.|+++
T Consensus 17 ~rR~Rt~ft~~Ql~~Le~~f~~~~~~~~yp~~~~r~~La~~lgL~~~~VkvWFqNrRaK~~~ 78 (80)
T 1wh5_A 17 RKRHRTKFTAEQKERMLALAERIGWRIQRQDDEVIQRFCQETGVPRQVLKVWLHNNKHSGPS 78 (80)
T ss_dssp SCCCSCCCCHHHHHHHHHHHHHHTSCCCTTTHHHHHHHHHHSCCCHHHHHHHHHHHSSSSSC
T ss_pred CCCCCccCCHHHHHHHHHHHHhccCcCCCcCHHHHHHHHHHhCCCcccccCCccccCcCCCC
Confidence 4556667999999999999987 455599999999999999999999999999999999875
No 49
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP: a.4.1.1
Probab=99.27 E-value=5.6e-12 Score=103.34 Aligned_cols=58 Identities=24% Similarity=0.367 Sum_probs=53.1
Q ss_pred CCCCCCChhHHHHHHHHHHH-ccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 496 RPQRGLPEKSVSVLRAWMFQ-NFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 496 RkRR~fpk~a~~iLr~Wf~e-H~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
++|..|+++++.+|+.+|.. + |||+..++..||..+||++.||.+||+|+|.|.++..
T Consensus 4 k~Rt~ft~~Q~~~Le~~F~~~~---~yp~~~~r~~LA~~~~l~~~qV~~WFqNRR~k~rk~~ 62 (73)
T 2hi3_A 4 QTVSGPTEDQVEILEYNFNKVN---KHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 62 (73)
T ss_dssp SCCSSCCHHHHHHHHHHHHHTT---SSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHhc
Confidence 44566999999999999985 7 9999999999999999999999999999999988743
No 50
>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor, homeodomain, domain swapping, structural oxford protein production facility, OPPF; 2.70A {Homo sapiens}
Probab=99.27 E-value=3.9e-12 Score=104.45 Aligned_cols=55 Identities=27% Similarity=0.534 Sum_probs=51.2
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhH
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMI 557 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmi 557 (594)
+-+++++.+|+.+|..+ |||+.+++..||+.|||++.||.+||+|+|.|+|+..+
T Consensus 10 ~~~~~Ql~~LE~~F~~~---~YPs~~er~eLA~~tgLt~~qVkvWFqNRR~k~Kkg~~ 64 (66)
T 3nau_A 10 KKTKEQIAHLKASFLQS---QFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQRGIV 64 (66)
T ss_dssp -CCHHHHHHHHHHHHGG---GSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHHHHhcC---CCCCHHHHHHHHHHhCcCHHHhhHhcccchhhhhccCc
Confidence 34799999999999999 99999999999999999999999999999999987654
No 51
>2da5_A Zinc fingers and homeoboxes protein 3; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.27 E-value=4.9e-12 Score=104.44 Aligned_cols=57 Identities=23% Similarity=0.398 Sum_probs=53.1
Q ss_pred CCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 496 RPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 496 RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
++++.|+.+++.+|+.+|..+ |||+..++..||+.+||+..||.+||+|+|.|.++.
T Consensus 9 ~kr~~~t~~Ql~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kk~ 65 (75)
T 2da5_A 9 TKYKERAPEQLRALESSFAQN---PLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAE 65 (75)
T ss_dssp CCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHCCCHHHHHHHHHHHTTHHHHS
T ss_pred CCCccCCHHHHHHHHHHHhcc---CCCCHHHHHHHHHHhCCCHHHhhHhhHHHHHHHHHh
Confidence 455669999999999999998 999999999999999999999999999999998864
No 52
>2m0c_A Homeobox protein aristaless-like 4; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}
Probab=99.27 E-value=5.8e-12 Score=102.84 Aligned_cols=58 Identities=26% Similarity=0.414 Sum_probs=54.0
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
+|+|..|+..++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++.
T Consensus 10 rr~Rt~ft~~q~~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~ 67 (75)
T 2m0c_A 10 RRNRTTFTSYQLEELEKVFQKT---HYPDVYAREQLAMRTDLTEARVQVWFQNRRAKWRKR 67 (75)
T ss_dssp CSCSCSSCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTCC
T ss_pred CCCCCCCCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHhCCCHHHHHHHhHHHHHHHHHH
Confidence 4556679999999999999988 999999999999999999999999999999998874
No 53
>2ly9_A Zinc fingers and homeoboxes protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}
Probab=99.27 E-value=6.8e-12 Score=102.64 Aligned_cols=59 Identities=20% Similarity=0.408 Sum_probs=54.8
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
.++.|..|+++++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++.
T Consensus 6 ~~~~Rt~ft~~Ql~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~ 64 (74)
T 2ly9_A 6 SFGIRAKKTKEQLAELKVSYLKN---QFPHDSEIIRLMKITGLTKGEIKKWFSDTRYNQRNS 64 (74)
T ss_dssp CCCTTCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHTTTT
T ss_pred CCCCCcCCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHhCcCHHHeeeCChhHhHHHHhh
Confidence 35567779999999999999988 999999999999999999999999999999998874
No 54
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex, DNA-binding, homeobox, NUC developmental protein; 2.70A {Drosophila melanogaster}
Probab=99.27 E-value=2.8e-12 Score=110.20 Aligned_cols=63 Identities=27% Similarity=0.402 Sum_probs=56.8
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHH
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEE 559 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee 559 (594)
.+|+|..|+.+++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.++...++
T Consensus 17 ~rr~Rt~ft~~Ql~~Le~~F~~~---~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr~~~~~ 79 (93)
T 3a01_A 17 RKKPRTSFTRIQVAELEKRFHKQ---KYLASAERAALARGLKMTDAQVKTWFQNRRTKWRRQTAEE 79 (93)
T ss_dssp CCCCCCCCCHHHHHHHHHHHHHC---SCCCHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHTCC
T ss_pred CCCCCcCCCHHHHHHHHHHHHcC---CCcCHHHHHHHHHHhCCChhhcccccHhhhhhhhhhhHHH
Confidence 34566679999999999999998 9999999999999999999999999999999999866543
No 55
>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor, homeodomain, structural genomics, oxford production facility, OPPF, transcription; 2.60A {Homo sapiens}
Probab=99.27 E-value=6.5e-12 Score=108.23 Aligned_cols=64 Identities=20% Similarity=0.283 Sum_probs=57.4
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHH
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEM 560 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~ 560 (594)
.+|+|+.|++.++.+|+.+|..+ +||+..++..||+.+||++.||.+||+|+|.|.|+..++-+
T Consensus 25 ~~r~Rt~ft~~Ql~~Le~~F~~~---~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kk~~lk~~ 88 (96)
T 3nar_A 25 STGKICKKTPEQLHMLKSAFVRT---QWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNGNLKWY 88 (96)
T ss_dssp --CCSSSSCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTTTCCHHH
T ss_pred CCCCCccCCHHHHHHHHHHHHHc---CCCCHHHHHHHHHHhCCCHHHeeecchhhhhHhhhhcccHH
Confidence 34667779999999999999988 99999999999999999999999999999999998876554
No 56
>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription factor, structural genomics, loop insertion, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.25 E-value=6.8e-12 Score=107.78 Aligned_cols=60 Identities=22% Similarity=0.404 Sum_probs=55.2
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhC---------------CChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSG---------------LTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TG---------------LS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|++.++.+|+.||.++ |||+..+++.||..++ |+..||.+||+|+|.|.++..
T Consensus 7 ~rr~R~~ft~~ql~~Le~~F~~~---~yP~~~~r~~lA~~l~~~~~~~~~~~~~~~~ls~~qV~~WFqNRR~k~kr~~ 81 (95)
T 2cuf_A 7 GRGSRFTWRKECLAVMESYFNEN---QYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWFANRRKEIKRRA 81 (95)
T ss_dssp CCCCSCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHHHHHCCTTCCCCTTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCcCCHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHCchhhcccccccccCcCCHHHHHHHHHHHHHHHHHHh
Confidence 35566679999999999999997 9999999999999999 999999999999999998754
No 57
>2d5v_A Hepatocyte nuclear factor 6; transcription factor, transcription-DNA complex; 2.00A {Rattus norvegicus} PDB: 1s7e_A
Probab=99.24 E-value=7.4e-12 Score=116.83 Aligned_cols=61 Identities=25% Similarity=0.321 Sum_probs=53.7
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhH
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMI 557 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmi 557 (594)
.+|+|..|++.++.+|+.||..+ |||+.++|..||+.+||++.||.+||+|+|+|.|+...
T Consensus 97 ~rr~Rt~ft~~q~~~Le~~F~~~---~yp~~~~r~~la~~l~L~~~qV~~WFqNrR~r~k~~~~ 157 (164)
T 2d5v_A 97 PKKPRLVFTDVQRRTLHAIFKEN---KRPSKELQITISQQLGLELSTVSNFFMNARRRSLDKWL 157 (164)
T ss_dssp ---CCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHTSSCC--
T ss_pred CCCCCCcCCHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHCcCHHHhhhcChhhhccccccCC
Confidence 45666779999999999999999 99999999999999999999999999999999987543
No 58
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A {Drosophila melanogaster} PDB: 2r5z_A*
Probab=99.24 E-value=6.7e-12 Score=106.29 Aligned_cols=60 Identities=22% Similarity=0.248 Sum_probs=53.1
Q ss_pred ccCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 493 QIWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 493 ~~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
..+|+|..|+..++.+|+.+|..+ |||+..++..||+.+||+..||.+||+|+|.|.++.
T Consensus 27 ~~rr~Rt~ft~~Ql~~Le~~F~~~---~yp~~~~r~~La~~l~l~~~qV~vWFqNRR~k~kk~ 86 (88)
T 2r5y_A 27 ETKRQRTSYTRYQTLELEKEFHFN---RYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKE 86 (88)
T ss_dssp ----CCCCCCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTT
T ss_pred CCCCCCCCcCHHHHHHHHHHHhcc---CCCCHHHHHHHHHHhCcCHHHhhHHhHHHHHHhHhh
Confidence 345667779999999999999877 999999999999999999999999999999998874
No 59
>3d1n_I POU domain, class 6, transcription factor 1; protein-DNA complex, helix-turn-helix (HTH), DNA-binding, homeobox, nucleus, transcription regulation; 2.51A {Homo sapiens}
Probab=99.23 E-value=1e-11 Score=114.78 Aligned_cols=58 Identities=24% Similarity=0.398 Sum_probs=53.7
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhch
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWK 554 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkK 554 (594)
.+|+|..|+..++.+|+.||..+ |||+..++..||+.+||++.||.+||+|+|.|.||
T Consensus 93 ~rr~Rt~ft~~q~~~Le~~F~~~---~yp~~~~r~~LA~~l~L~~~qV~vWFqNrR~k~Kk 150 (151)
T 3d1n_I 93 KRKRRTSFTPQAIEALNAYFEKN---PLPTGQEITEMAKELNYDREVVRVWFSNRRQTLKN 150 (151)
T ss_dssp CCCCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHTC
T ss_pred CCCCCcccCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHCCCHHHhHHHHHHHHhccCC
Confidence 34556669999999999999998 99999999999999999999999999999999886
No 60
>1b72_A Protein (homeobox protein HOX-B1); homeodomain, DNA, complex, DNA-binding protein, protein/DNA complex; HET: DNA; 2.35A {Homo sapiens} SCOP: a.4.1.1
Probab=99.21 E-value=1.1e-11 Score=106.78 Aligned_cols=60 Identities=23% Similarity=0.256 Sum_probs=53.4
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|+..++.+|+.+|..+ +||+..++..||..+||++.||.+||+|+|.|.++..
T Consensus 34 ~rr~Rt~ft~~Ql~~Le~~F~~~---~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~ 93 (97)
T 1b72_A 34 PSGLRTNFTTRQLTELEKEFHFN---KYLSRARRVEIAATLELNETQVKIWFQNRRMKQKKRE 93 (97)
T ss_dssp ---CCCCCCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCcCcCHHHHHHHHHHHhcc---CCCCHHHHHHHHHHhCCCHHHhHHHHHHHhHHHhHHh
Confidence 35566779999999999999887 9999999999999999999999999999999988754
No 61
>2dmp_A Zinc fingers and homeoboxes protein 2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.20 E-value=1.9e-11 Score=104.38 Aligned_cols=55 Identities=20% Similarity=0.384 Sum_probs=50.9
Q ss_pred CCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhch
Q 007660 497 PQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWK 554 (594)
Q Consensus 497 kRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkK 554 (594)
+++.|+.+++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.++
T Consensus 16 k~k~~t~~Ql~~Le~~F~~~---~yp~~~~r~~La~~~~l~~~qV~vWFqNRR~k~r~ 70 (89)
T 2dmp_A 16 KFKEKTQGQVKILEDSFLKS---SFPTQAELDRLRVETKLSRREIDSWFSERRKLRDS 70 (89)
T ss_dssp CCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHT
T ss_pred ccccCCHHHHHHHHHHHccC---CCCCHHHHHHHHHHhCCCHHhccHhhHhHHHHHHH
Confidence 34459999999999999998 99999999999999999999999999999988765
No 62
>2e19_A Transcription factor 8; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=99.15 E-value=3.6e-11 Score=97.19 Aligned_cols=54 Identities=20% Similarity=0.251 Sum_probs=49.7
Q ss_pred CCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhch
Q 007660 498 QRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWK 554 (594)
Q Consensus 498 RR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkK 554 (594)
...+.++++.+|+.+|..+ +||+..++..||+.+||++.||.+||+|+|.|.++
T Consensus 7 ~~~p~~~Ql~~Le~~F~~~---~yp~~~~r~~LA~~l~L~e~qVqvWFqNRRak~~~ 60 (64)
T 2e19_A 7 GQPPLKNLLSLLKAYYALN---AQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQIS 60 (64)
T ss_dssp CCCCCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHTCSC
T ss_pred CCCccHHHHHHHHHHHhcC---CCcCHHHHHHHHHHhCcChhhcCcchhcccCCCCC
Confidence 3457799999999999877 99999999999999999999999999999998775
No 63
>1wh7_A ZF-HD homeobox family protein; homeobox domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; NMR {Arabidopsis thaliana} SCOP: a.4.1.1
Probab=99.15 E-value=3.2e-11 Score=101.56 Aligned_cols=60 Identities=10% Similarity=0.075 Sum_probs=52.9
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccC--CCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhch
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFL--HPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWK 554 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~--~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkK 554 (594)
.+|+|..|+.+++.+|+ -|.+++. +|||+..+++.||..+||++.||++||+|+|.|+++
T Consensus 17 ~rR~Rt~ft~~Ql~~Le-~F~~~~~w~~~yp~~~~r~~La~~lgL~e~qVkvWFqNrR~k~~~ 78 (80)
T 1wh7_A 17 TKRFRTKFTAEQKEKML-AFAERLGWRIQKHDDVAVEQFCAETGVRRQVLKIWMHNNKNSGPS 78 (80)
T ss_dssp SSCCCCCCCHHHHHHHH-HHHHHHTSCCCSSTTHHHHHHHHHSCCCHHHHHHHHHTTSCCSCC
T ss_pred CCCCCccCCHHHHHHHH-HHHHHcCcCCCCCCHHHHHHHHHHhCcCcCcccccccccccCCCC
Confidence 35566679999999999 5888433 699999999999999999999999999999999876
No 64
>1au7_A Protein PIT-1, GHF-1; complex (DNA-binding protein/DNA), pituitary, CPHD, POU domain, transcription factor, transcription/DNA complex; HET: DNA; 2.30A {Rattus norvegicus} SCOP: a.4.1.1 a.35.1.1
Probab=99.13 E-value=5.4e-11 Score=109.90 Aligned_cols=59 Identities=19% Similarity=0.225 Sum_probs=53.6
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
.+|+|..|+..++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.||.
T Consensus 87 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr~ 145 (146)
T 1au7_A 87 KRKRRTTISIAAKDALERHFGEH---SKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKRV 145 (146)
T ss_dssp --CCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHTTSC
T ss_pred CCCCCcCccHHHHHHHHHHHHHc---CCCCHHHHHHHHHHhCCChhhchhhhHhhhhhhhcc
Confidence 34566679999999999999998 999999999999999999999999999999998863
No 65
>1e3o_C Octamer-binding transcription factor 1; transcription factor, POU domain, dimer, DNA binding; 1.9A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1 PDB: 1gt0_C 1hf0_A* 1cqt_A* 1o4x_A 1oct_C* 1pou_A 1pog_A 1hdp_A
Probab=99.12 E-value=5.7e-11 Score=111.05 Aligned_cols=59 Identities=15% Similarity=0.270 Sum_probs=53.2
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
.+|+|..|+..++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.||.
T Consensus 101 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr~ 159 (160)
T 1e3o_C 101 RRKKRTSIETNIRVALEKSFMEN---QKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKRI 159 (160)
T ss_dssp ---CCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTSC
T ss_pred CCcCccccCHHHHHHHHHHHhhc---CCCCHHHHHHHHHHHCCChHHhhHhhHHhhhhhhcc
Confidence 34566679999999999999998 999999999999999999999999999999999874
No 66
>2cqx_A LAG1 longevity assurance homolog 5; homeodomain, DNA binding domain, transcription, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1
Probab=99.12 E-value=3.2e-11 Score=99.41 Aligned_cols=58 Identities=12% Similarity=0.121 Sum_probs=52.5
Q ss_pred CCCCCCChhHHHHHHHHH-HHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 496 RPQRGLPEKSVSVLRAWM-FQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 496 RkRR~fpk~a~~iLr~Wf-~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
++++.++.+++.+|+..| ..+ +||+..++..||+++||++.||.+||+|+|.|.++.+
T Consensus 10 k~r~r~~~~ql~~LE~~F~~~~---~yp~~~~r~~LA~~l~l~e~qVqvWFqNRR~k~r~~~ 68 (72)
T 2cqx_A 10 KDSPVNKVEPNDTLEKVFVSVT---KYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPSG 68 (72)
T ss_dssp CCCCCSCSCSTTHHHHHHHHTC---SSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHSSCC
T ss_pred CCCCCCCHHHHHHHHHHHHhcC---CCcCHHHHHHHHHHhCCChhhcchhhhhcccCCCCCC
Confidence 455668889999999999 777 9999999999999999999999999999999988754
No 67
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}
Probab=99.11 E-value=8.3e-11 Score=96.77 Aligned_cols=53 Identities=28% Similarity=0.339 Sum_probs=50.4
Q ss_pred CChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 501 LPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 501 fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
++..++..|+.+|..+ |||+..++..||+.+||++.||++||+|+|.|.|+..
T Consensus 11 ~t~~ql~~LE~~F~~~---~yp~~~~r~~LA~~l~Lte~qVqvWFqNRRak~kr~~ 63 (69)
T 2l9r_A 11 MSHTQVIELERKFSHQ---KYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 63 (69)
T ss_dssp CCHHHHHHHHHHHHHC---SCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHSCCSS
T ss_pred CCHHHHHHHHHHHhcC---CCCCHHHHHHHHHHhCCChhheeecchhhhhhhhhhh
Confidence 7899999999999998 9999999999999999999999999999999988754
No 68
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA complex, SOX; 2.05A {Mus musculus}
Probab=99.10 E-value=6.5e-11 Score=111.49 Aligned_cols=60 Identities=20% Similarity=0.241 Sum_probs=51.1
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.+|+|..|+..++.+|+.+|..+ |||+..++..||+.+||++.||.+||+|+|.|.||..
T Consensus 99 ~rr~Rt~ft~~Ql~~LE~~F~~~---~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr~~ 158 (164)
T 2xsd_C 99 KRKKRTSIEVGVKGALESHFLKC---PKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEKRMT 158 (164)
T ss_dssp -------CCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTBSC
T ss_pred CCCCceeccHHHHHHHHHHHhcC---CCCCHHHHHHHHHHHCCChhhhhhhhHHhhHHHhhcc
Confidence 34566679999999999999998 9999999999999999999999999999999998754
No 69
>1wi3_A DNA-binding protein SATB2; homeodomain, helix-turn-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.09 E-value=1.2e-10 Score=96.48 Aligned_cols=59 Identities=17% Similarity=0.357 Sum_probs=54.9
Q ss_pred ccCCCCCCCChhHHHHHHHHHHH-ccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhch
Q 007660 493 QIWRPQRGLPEKSVSVLRAWMFQ-NFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWK 554 (594)
Q Consensus 493 ~~~RkRR~fpk~a~~iLr~Wf~e-H~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkK 554 (594)
..+|+|+.|+.+|..+|+..|.. + |||+.++++.||.+|||++.+|..||+|+|--.+.
T Consensus 6 ~~kR~RT~~s~eQL~~Lqs~f~~~~---~yPd~~~r~~La~~tGL~~~~IqVWFQNrR~~~~~ 65 (71)
T 1wi3_A 6 SGPRSRTKISLEALGILQSFIHDVG---LYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKH 65 (71)
T ss_dssp CCCCCCCCCCSHHHHHHHHHHHHHC---SCCCHHHHHHHHHHSCCCHHHHHHHHHHHHHHCCS
T ss_pred CCCCCCccCCHHHHHHHHHHHHhcC---CCCCHHHHHHHHHHhCCCHHHHHHhhccceeeecC
Confidence 55778888999999999999999 8 99999999999999999999999999999987664
No 70
>2da6_A Hepatocyte nuclear factor 1-beta; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.09 E-value=1.2e-10 Score=102.90 Aligned_cols=63 Identities=21% Similarity=0.132 Sum_probs=56.6
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHh---------------------CCChhhHhhhhhhhhhhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKS---------------------GLTRTQVSNWFINARVRL 552 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~T---------------------GLS~~QVsNWFiNaRrRl 552 (594)
.+|.|..|++.++.+|+.+|..+ |||+.++|+.||..+ +|++.+|.+||+|+|+|.
T Consensus 6 ~Rr~Rt~ft~~ql~~Le~~F~~~---~yPs~~~Re~LA~~ln~~~c~q~g~~~~~~~GL~~~~lte~~V~~WFqNRR~k~ 82 (102)
T 2da6_A 6 SGRNRFKWGPASQQILYQAYDRQ---KNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANRRKEE 82 (102)
T ss_dssp SCCCCCCCCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHHHHHHHHHTSCCTTCGGGGGGGCCCHHHHHHHHHHHHHHH
T ss_pred CCCCCccCCHHHHHHHHHHHcCC---CCCCHHHHHHHHHHHHHhhhcccccccchhcccccccccccceeeeecchHHHH
Confidence 45566679999999999999999 999999999999999 799999999999999999
Q ss_pred chhhHHH
Q 007660 553 WKPMIEE 559 (594)
Q Consensus 553 kKpmiee 559 (594)
++.....
T Consensus 83 kr~~~~~ 89 (102)
T 2da6_A 83 AFRQKLA 89 (102)
T ss_dssp HHHHHHH
T ss_pred HHhhHhh
Confidence 8765544
No 71
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Probab=99.03 E-value=1.6e-10 Score=101.08 Aligned_cols=61 Identities=23% Similarity=0.192 Sum_probs=52.4
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHH------------------hC---CChhhHhhhhhhhhhhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMK------------------SG---LTRTQVSNWFINARVRL 552 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~------------------TG---LS~~QVsNWFiNaRrRl 552 (594)
.+|+|..|++.++.+|+.+|..+ |||+..+|+.||.. +| |+..||.+||+|+|++.
T Consensus 9 ~rr~Rt~ft~~Ql~~LE~~F~~~---~yP~~~~R~eLA~~~n~~~~~~~g~~~~~~~~lg~~~lse~qV~vWFqNRR~k~ 85 (99)
T 1lfb_A 9 GRRNRFKWGPASQQILFQAYERQ---KNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEE 85 (99)
T ss_dssp ----CCCCCHHHHHHHHHHHTTC---SSCCHHHHHHHHHHHHHHHHTTTTCCTTCTTTTGGGCCCHHHHHHHHHHHHHTT
T ss_pred CCCCCcCcCHHHHHHHHHHHhcC---CCCCHHHHHHHHHHhccccccccccccccccccCccccCcceeeeccHHHHHHH
Confidence 35566679999999999999988 99999999999999 88 99999999999999998
Q ss_pred chhhH
Q 007660 553 WKPMI 557 (594)
Q Consensus 553 kKpmi 557 (594)
++...
T Consensus 86 k~k~~ 90 (99)
T 1lfb_A 86 AFRHK 90 (99)
T ss_dssp SCCC-
T ss_pred HHhch
Confidence 76553
No 72
>3l1p_A POU domain, class 5, transcription factor 1; POU, transcription factor DNA complex, pore, stem cells; HET: DNA; 2.80A {Mus musculus} PDB: 1ocp_A
Probab=99.03 E-value=1.2e-10 Score=108.36 Aligned_cols=59 Identities=20% Similarity=0.305 Sum_probs=53.4
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
.+|+|..|+..++.+|+.+|..+ |||+..++..||..+||++.||.+||+|+|.|.||.
T Consensus 96 ~rr~Rt~ft~~Q~~~Le~~F~~~---~yps~~~r~~LA~~l~L~~~qV~vWFqNRR~k~Kr~ 154 (155)
T 3l1p_A 96 RKRKRTSIENRVRWSLETMFLKS---PKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKRS 154 (155)
T ss_dssp SCCCCCCCCHHHHHHHHTTTTTC---SCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHC-
T ss_pred CCCCCcccCHHHHHHHHHHHccC---CCCCHHHHHHHHHHcCCChhheeeccccccccccCC
Confidence 34566679999999999999877 999999999999999999999999999999998873
No 73
>1x2m_A LAG1 longevity assurance homolog 6; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Mus musculus} SCOP: a.4.1.1
Probab=98.98 E-value=3e-10 Score=92.57 Aligned_cols=51 Identities=12% Similarity=0.158 Sum_probs=45.0
Q ss_pred hhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchh
Q 007660 503 EKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKP 555 (594)
Q Consensus 503 k~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKp 555 (594)
..+..+|+..|..+ ++||+..++..||+++||++.||.+||+|+|.+.|+.
T Consensus 9 ~~~~~~LE~~F~~~--~~yp~~~~r~~LA~~l~LterQVkvWFqNRR~k~k~~ 59 (64)
T 1x2m_A 9 AQPNAILEKVFTAI--TKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKPS 59 (64)
T ss_dssp SCHHHHHHHHHHTT--CSSCCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSCCS
T ss_pred chHHHHHHHHHHHc--CCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHhccCCC
Confidence 34689999999542 3999999999999999999999999999999998864
No 74
>1mh3_A Maltose binding-A1 homeodomain protein chimera; MATA1, binding cooperativity, maltose binding protein, MBP, sugar binding, DNA binding protein; 2.10A {Escherichia coli} SCOP: a.4.1.1 c.94.1.1 PDB: 1mh4_A 1le8_A
Probab=98.88 E-value=1.2e-09 Score=111.10 Aligned_cols=52 Identities=29% Similarity=0.393 Sum_probs=49.5
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhc
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLW 553 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlk 553 (594)
+.|.+.++..|+++|..| |||+..+|++||++|||+++||++||+|+|+|.|
T Consensus 370 ~~~~~~q~~~Le~~f~~~---~yp~~~~~~~la~~~~l~~~qv~~wf~n~r~~~~ 421 (421)
T 1mh3_A 370 AAISPQARAFLEQVFRRK---QSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421 (421)
T ss_dssp CSSCHHHHHHHHHHHHHC---SCCCHHHHHHHHHHHTSCHHHHHHHHHHHHCCCC
T ss_pred hhhcchHHHHHHHHHhcC---CCcCHHHHHHHHHHHCcCHHHhhHhhhhcccccC
Confidence 558999999999999998 9999999999999999999999999999999975
No 75
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo, protein-DNA, human disease; 3.20A {Homo sapiens}
Probab=98.85 E-value=2.2e-09 Score=106.03 Aligned_cols=58 Identities=22% Similarity=0.276 Sum_probs=52.3
Q ss_pred ccCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhC---------------------CChhhHhhhhhhhhhh
Q 007660 493 QIWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSG---------------------LTRTQVSNWFINARVR 551 (594)
Q Consensus 493 ~~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TG---------------------LS~~QVsNWFiNaRrR 551 (594)
..+|.|..|++.++.+|+.||..+ |||+..+|+.||+.|+ ||..||.+||+|+|++
T Consensus 141 k~RR~R~~ft~~ql~~Le~~F~~~---~YP~~~~ReeLA~~~n~~~~~~rg~~~~~~~~L~~~~lte~~V~~WFqNRR~~ 217 (221)
T 2h8r_A 141 KMRRNRFKWGPASQQILYQAYDRQ---KNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANRRKE 217 (221)
T ss_dssp -CCCCCCCCCHHHHHHHHHHHHHC---SSCCHHHHHHHHHHHHHHHHHHTTCCSTTGGGGTTSCCCHHHHHHHHHHHHTT
T ss_pred CCCCCCcCCCHHHHHHHHHHHHcC---CCCCHHHHHHHHHHHChhhhcccccccchhccccccccCHHHHHHHhHHhhhh
Confidence 345666779999999999999998 9999999999999998 8999999999999987
Q ss_pred hc
Q 007660 552 LW 553 (594)
Q Consensus 552 lk 553 (594)
..
T Consensus 218 ~~ 219 (221)
T 2h8r_A 218 EA 219 (221)
T ss_dssp CC
T ss_pred hh
Confidence 53
No 76
>1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation, DNA-binding, POU domain, diabetes, disease mutation, MODY3, transcription/DNA comple; 2.60A {Homo sapiens} SCOP: a.4.1.1 a.35.1.1
Probab=98.81 E-value=1.8e-09 Score=104.66 Aligned_cols=58 Identities=22% Similarity=0.203 Sum_probs=52.4
Q ss_pred cCCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhC---------------------CChhhHhhhhhhhhhhh
Q 007660 494 IWRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSG---------------------LTRTQVSNWFINARVRL 552 (594)
Q Consensus 494 ~~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TG---------------------LS~~QVsNWFiNaRrRl 552 (594)
.+|.|..|++.++.+|+.+|..+ |||+..+|+.||..++ |+..||.+||+|+|++.
T Consensus 115 ~rr~R~~ft~~ql~~Le~~F~~~---~yp~~~~Re~la~~~~~~~~~~~G~~~~~~~glg~~~lte~~V~~WFqNRR~~~ 191 (194)
T 1ic8_A 115 GRRNRFKWGPASQQILFQAYERQ---KNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRKEE 191 (194)
T ss_dssp --CCCCCCCHHHHHHHHHHHHHH---CCCCTTTTHHHHHHHHHHHHHHSSCCCTTCCTTGGGCCCHHHHHHHHHHHHHHC
T ss_pred CCCCCcccCHHHHHHHHHHHHhc---CCCCHHHHHHHHHHhCchhhccccccccccccccccccCccccchhchhhhhhh
Confidence 35666779999999999999999 9999999999999999 99999999999999997
Q ss_pred ch
Q 007660 553 WK 554 (594)
Q Consensus 553 kK 554 (594)
+.
T Consensus 192 k~ 193 (194)
T 1ic8_A 192 AF 193 (194)
T ss_dssp C-
T ss_pred hc
Confidence 74
No 77
>2da7_A Zinc finger homeobox protein 1B; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=98.77 E-value=7.4e-09 Score=86.12 Aligned_cols=46 Identities=28% Similarity=0.472 Sum_probs=44.1
Q ss_pred hhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhh
Q 007660 503 EKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVR 551 (594)
Q Consensus 503 k~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrR 551 (594)
++++.+|+++|..+ |||+.+++..||..+||++.+|+.||+|+|.+
T Consensus 14 k~ql~~Lk~yF~~n---~~Ps~eei~~LA~~lgL~~~VVrVWFqNrRa~ 59 (71)
T 2da7_A 14 KDHMSVLKAYYAMN---MEPNSDELLKISIAVGLPQEFVKEWFEQRKVY 59 (71)
T ss_dssp THHHHHHHHHHHHC---SSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhC---CCCCHHHHHHHHHHhCCCHHHHHHHHhhcccc
Confidence 67899999999999 99999999999999999999999999999974
No 78
>2nzz_A Penetratin conjugated GAS (374-394) peptide; conformational analysis, G protein, GAS subunit, A2A adenosine receptor, cell-penetrating peptides; NMR {Synthetic} PDB: 2o00_A
Probab=95.92 E-value=0.0013 Score=48.53 Aligned_cols=23 Identities=26% Similarity=0.526 Sum_probs=19.5
Q ss_pred hhHhhhhhhhhhhhchhhHHHHH
Q 007660 539 TQVSNWFINARVRLWKPMIEEMY 561 (594)
Q Consensus 539 ~QVsNWFiNaRrRlkKpmiee~~ 561 (594)
.||.+||+|+|.|.||...+..+
T Consensus 1 rQVkIWFQNRRaK~Kk~~~~~~~ 23 (37)
T 2nzz_A 1 RQIKIWFQNRRMKWKKRVFNDAR 23 (37)
T ss_dssp CCTTTTTTCSHHHHTSSHHHHTT
T ss_pred CCceeccHHHHHHHHHHhHHHHH
Confidence 48999999999999998877543
No 79
>2ys9_A Homeobox and leucine zipper protein homez; homeodomain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=94.12 E-value=0.028 Score=46.79 Aligned_cols=44 Identities=20% Similarity=0.351 Sum_probs=40.3
Q ss_pred CChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhh
Q 007660 501 LPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFIN 547 (594)
Q Consensus 501 fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiN 547 (594)
.++-..++|+++|.+| ....+++...|+.+++|+..||..||.-
T Consensus 13 ~~p~~~e~L~~Yy~~h---k~L~EeDl~~L~~kskms~qqvkdwFa~ 56 (70)
T 2ys9_A 13 PPPPDIQPLERYWAAH---QQLRETDIPQLSQASRLSTQQVLDWFDS 56 (70)
T ss_dssp CCCCCCHHHHHHHHHT---CCCCTTHHHHHHHHTTCCHHHHHHHHHH
T ss_pred CCCCcchHHHHHHHHh---cccchhhHHHHHHHhCCCHHHHHHHHHh
Confidence 4566789999999999 8899999999999999999999999964
No 80
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis}
Probab=77.52 E-value=1.8 Score=35.65 Aligned_cols=51 Identities=16% Similarity=0.210 Sum_probs=42.6
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHH
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIE 558 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmie 558 (594)
.||+..+.+|.-.|.+.+ .-.++|+.+|++...|.++...+|+++++.+.+
T Consensus 37 ~L~~~~r~vl~l~~~~g~--------s~~eIA~~lgis~~tV~~~l~ra~~~Lr~~l~~ 87 (92)
T 3hug_A 37 QLSAEHRAVIQRSYYRGW--------STAQIATDLGIAEGTVKSRLHYAVRALRLTLQE 87 (92)
T ss_dssp TSCHHHHHHHHHHHTSCC--------CHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHcCC--------CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 489999999988776663 235899999999999999999999999876654
No 81
>1hlv_A CENP-B, major centromere autoantigen B; helix-turn-helix, protein-DNA complex, riken structural genomics/proteomics initiative, RSGI; 2.50A {Homo sapiens} SCOP: a.4.1.7 a.4.1.7 PDB: 1bw6_A
Probab=71.44 E-value=8.2 Score=33.13 Aligned_cols=49 Identities=18% Similarity=0.165 Sum_probs=38.8
Q ss_pred CCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhh
Q 007660 496 RPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARV 550 (594)
Q Consensus 496 RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRr 550 (594)
++|+.|+.+.+..+-.++.++ +.++. ..+|+..|++...|..|..+++.
T Consensus 3 ~~r~~~t~e~K~~iv~~~~~~---g~~~~---~~~A~~~gvs~stl~~~~~~~~~ 51 (131)
T 1hlv_A 3 PKRRQLTFREKSRIIQEVEEN---PDLRK---GEIARRFNIPPSTLSTILKNKRA 51 (131)
T ss_dssp CSSCCCCHHHHHHHHHHHHHC---TTSCH---HHHHHHHTCCHHHHHHHHHTHHH
T ss_pred CcceeCCHHHHHHHHHHHHHC---CCCcH---HHHHHHhCCCHHHHHHHHhchhh
Confidence 356779999988887777676 66653 36899999999999999877654
No 82
>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis}
Probab=69.74 E-value=2.8 Score=31.93 Aligned_cols=52 Identities=13% Similarity=-0.001 Sum_probs=40.1
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIE 558 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmie 558 (594)
..||+..+.+|.-.|.+.+ .-.++|+..|++...|.+|...+|.++++.+.+
T Consensus 14 ~~L~~~~r~il~l~~~~g~--------s~~eIA~~lgis~~tv~~~~~ra~~~l~~~l~~ 65 (70)
T 2o8x_A 14 ADLTTDQREALLLTQLLGL--------SYADAAAVCGCPVGTIRSRVARARDALLADAEP 65 (70)
T ss_dssp TSSCHHHHHHHHHHHTSCC--------CHHHHHHHHTSCHHHHHHHHHHHHHHHHC----
T ss_pred HhCCHHHHHHHHHHHHcCC--------CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhhc
Confidence 4589999999988766552 235899999999999999999999999876543
No 83
>3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp}
Probab=68.63 E-value=3.5 Score=35.50 Aligned_cols=50 Identities=14% Similarity=0.131 Sum_probs=40.4
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHH
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIE 558 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmie 558 (594)
.||+..+.++. .+.+. | .-.++|+.+|++...|.++...+|+++++.+.+
T Consensus 109 ~L~~~~r~v~~-~~~~g----~----s~~EIA~~lgis~~tV~~~~~ra~~~Lr~~l~~ 158 (164)
T 3mzy_A 109 NFSKFEKEVLT-YLIRG----Y----SYREIATILSKNLKSIDNTIQRIRKKSEEWIKE 158 (164)
T ss_dssp HSCHHHHHHHH-HHTTT----C----CHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHH-HHHcC----C----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 48999999998 54444 2 235799999999999999999999999876654
No 84
>1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H 3n97_A*
Probab=66.29 E-value=5.1 Score=31.43 Aligned_cols=53 Identities=17% Similarity=0.082 Sum_probs=40.8
Q ss_pred CCCChhHHHHHHHHHH----HccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhc-hhhHHH
Q 007660 499 RGLPEKSVSVLRAWMF----QNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLW-KPMIEE 559 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~----eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlk-Kpmiee 559 (594)
..||+..+.+|.-.|. +. + .-.++|+.+|++...|..|...++.+++ ..+..+
T Consensus 9 ~~L~~~er~il~l~~~l~~~~~----~----s~~eIA~~l~is~~tV~~~~~ra~~kLr~~~~~~~ 66 (73)
T 1ku3_A 9 SKLSEREAMVLKMRKGLIDGRE----H----TLEEVGAYFGVTRERIRQIENKALRKLKYHESRTR 66 (73)
T ss_dssp TTSCHHHHHHHHHHHTTTTSSC----C----CHHHHHHHHTCCHHHHHHHHHHHHHHHHHTTC---
T ss_pred HhCCHHHHHHHHHHHhcccCCC----C----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhhHhhHH
Confidence 4589999999988775 33 2 1248999999999999999999999998 655443
No 85
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster}
Probab=63.81 E-value=11 Score=28.69 Aligned_cols=46 Identities=13% Similarity=0.125 Sum_probs=32.1
Q ss_pred CCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhh
Q 007660 498 QRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFIN 547 (594)
Q Consensus 498 RR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiN 547 (594)
++.|+.+.+......+... ++.......+|+..|++..+|.+|...
T Consensus 3 r~~ys~efK~~~~~~~~~g----~s~~~~~~~vA~~~gIs~~tl~~W~~~ 48 (59)
T 2glo_A 3 RRIFTPHFKLQVLESYRND----NDCKGNQRATARKYNIHRRQIQKWLQC 48 (59)
T ss_dssp CCCCCHHHHHHHHHHHHHC----TTTTTCHHHHHHHTTSCHHHHHHHHTT
T ss_pred CCcCCHHHHHHHHHHHHcC----CCcchHHHHHHHHHCcCHHHHHHHHHH
Confidence 4678888876665554433 221223568999999999999999653
No 86
>1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2
Probab=62.83 E-value=5 Score=32.78 Aligned_cols=52 Identities=17% Similarity=0.136 Sum_probs=42.1
Q ss_pred CCChhHHHHHHHHHH----HccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHH
Q 007660 500 GLPEKSVSVLRAWMF----QNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEE 559 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~----eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee 559 (594)
.||+..+.+|.-.|. +. + .-.++|..+|++...|.++...+++++++.+...
T Consensus 18 ~L~~~er~vl~l~~~l~~~~~----~----s~~EIA~~lgis~~tV~~~~~ra~~kLr~~l~~~ 73 (87)
T 1tty_A 18 TLSPREAMVLRMRYGLLDGKP----K----TLEEVGQYFNVTRERIRQIEVKALRKLRHPSRSK 73 (87)
T ss_dssp TSCHHHHHHHHHHHTTTTSSC----C----CHHHHHHHHTCCHHHHHHHHHHHHHHHBTTBSSH
T ss_pred hCCHHHHHHHHHHHccCCCCC----C----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 489999999988775 33 1 2357899999999999999999999998876544
No 87
>3t72_q RNA polymerase sigma factor RPOD, DNA-directed RN polymerase subunit beta; winged-helix motif, transcription activation, DNA-binding; 4.33A {Escherichia coli} PDB: 1tlh_B
Probab=60.19 E-value=9.1 Score=32.89 Aligned_cols=61 Identities=21% Similarity=0.241 Sum_probs=46.4
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHHHh
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYREV 564 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~e~ 564 (594)
.||+..+.++.-.|...-..++ .-.++|+.+|++...|.+....+++++++.+..+...+.
T Consensus 19 ~Lp~reR~Vi~Lry~l~~~e~~----s~~EIA~~lgiS~~tVr~~~~rAlkkLR~~~~~~~l~~~ 79 (99)
T 3t72_q 19 GLTAREAKVLRMRFGIDMNTDY----TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSG 79 (99)
T ss_pred cCCHHHHHHHHHHHhcCCCCCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4899999999887753200122 235799999999999999999999999998876655543
No 88
>2p7v_B Sigma-70, RNA polymerase sigma factor RPOD; RSD, regulator of sigma 70, sigma 70 domain 4, transcription, regulation, helix-turn-helix; 2.60A {Escherichia coli} SCOP: a.4.13.2
Probab=59.30 E-value=4.2 Score=31.51 Aligned_cols=56 Identities=21% Similarity=0.243 Sum_probs=41.2
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHH
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEE 559 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee 559 (594)
.||+..+.+|.-.|.-.-...+ .-.++|+.+|++...|..+...+++++++.+..+
T Consensus 5 ~L~~~er~il~l~~~l~~~~g~----s~~eIA~~lgis~~tV~~~~~ra~~kLr~~~~~~ 60 (68)
T 2p7v_B 5 GLTAREAKVLRMRFGIDMNTDY----TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSE 60 (68)
T ss_dssp CCCHHHHHHHHHHTTTTSSSCC----CHHHHHHHHTCCHHHHHHHHHHHHHGGGSCCGGG
T ss_pred cCCHHHHHHHHHHHccCCCCCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4889999999877621000122 2257999999999999999999999998766543
No 89
>1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2
Probab=56.97 E-value=12 Score=25.74 Aligned_cols=43 Identities=14% Similarity=0.169 Sum_probs=29.6
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhh
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINAR 549 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaR 549 (594)
+.++++.+..+...+.+. + ...++|+.+|++...|..|....+
T Consensus 4 ~~l~~~~~~~i~~~~~~g----~----s~~~IA~~lgis~~Tv~~~~~~~~ 46 (51)
T 1tc3_C 4 SALSDTERAQLDVMKLLN----V----SLHEMSRKISRSRHCIRVYLKDPV 46 (51)
T ss_dssp CCCCHHHHHHHHHHHHTT----C----CHHHHHHHHTCCHHHHHHHHHCST
T ss_pred CCCCHHHHHHHHHHHHcC----C----CHHHHHHHHCcCHHHHHHHHhhHH
Confidence 357777765544444333 2 255889999999999999986543
No 90
>1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A
Probab=56.41 E-value=5.7 Score=36.51 Aligned_cols=51 Identities=20% Similarity=0.201 Sum_probs=42.2
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMI 557 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmi 557 (594)
..||+..+.+|.-.|.+. | .-.++|+.+|++...|..+...+|+++++.+.
T Consensus 186 ~~L~~~~r~vl~l~~~~g----~----s~~EIA~~lgis~~~V~~~~~ra~~~Lr~~l~ 236 (239)
T 1rp3_A 186 SKLPEREKLVIQLIFYEE----L----PAKEVAKILETSVSRVSQLKAKALERLREMLS 236 (239)
T ss_dssp TTSCHHHHHHHHHHHTSC----C----CHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH
T ss_pred HcCCHHHHHHHHHHHhcC----C----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHh
Confidence 459999999998877654 2 23579999999999999999999999987653
No 91
>2rnj_A Response regulator protein VRAR; HTH LUXR-type domain, DNA binding domain, activator, antibiotic resistance, cytoplasm, DNA-binding; NMR {Staphylococcus aureus}
Probab=55.23 E-value=19 Score=29.38 Aligned_cols=55 Identities=16% Similarity=0.116 Sum_probs=43.2
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYR 562 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~ 562 (594)
..|++..+.+|.- +.+.+.+ .++|+.+|++...|.++....|++++.....++..
T Consensus 28 ~~Lt~~e~~vl~l-~~~g~s~--------~eIA~~l~is~~tV~~~l~r~~~kL~~~~~~~l~~ 82 (91)
T 2rnj_A 28 EMLTEREMEILLL-IAKGYSN--------QEIASASHITIKTVKTHVSNILSKLEVQDRTQAVI 82 (91)
T ss_dssp GGCCSHHHHHHHH-HHTTCCT--------THHHHHHTCCHHHHHHHHHHHHHHTTCCSSHHHHH
T ss_pred hcCCHHHHHHHHH-HHcCCCH--------HHHHHHHCcCHHHHHHHHHHHHHHHCCCCHHHHHH
Confidence 4589999999977 4444222 37999999999999999999999998776665543
No 92
>1or7_A Sigma-24, RNA polymerase sigma-E factor; regulation, DNA-binding, transmembrane, transcription; 2.00A {Escherichia coli} SCOP: a.4.13.2 a.177.1.1 PDB: 2h27_A
Probab=55.12 E-value=7.1 Score=34.94 Aligned_cols=48 Identities=15% Similarity=0.104 Sum_probs=39.8
Q ss_pred CChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 501 LPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 501 fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
||+..+.+|.-.+.+.+ + -.++|+.+|++...|.++...+|+++++.+
T Consensus 141 L~~~~r~vl~l~~~~g~--s------~~EIA~~lgis~~tV~~~l~ra~~~Lr~~l 188 (194)
T 1or7_A 141 LPEDLRMAITLRELDGL--S------YEEIAAIMDCPVGTVRSRIFRAREAIDNKV 188 (194)
T ss_dssp SCHHHHHHHHHHHTTCC--C------HHHHHHHTTSCHHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHhHHHHHcCC--C------HHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 88889999977766552 1 247999999999999999999999998755
No 93
>1s7o_A Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA binding protein, structural genomics; 2.31A {Streptococcus pyogenes serotype M3} SCOP: a.4.13.3
Probab=54.32 E-value=12 Score=32.54 Aligned_cols=50 Identities=14% Similarity=0.148 Sum_probs=41.4
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhH
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMI 557 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmi 557 (594)
.||+..+.++.-.+.+.+ .-.++|+.+|+++..|.+|...+|.++++.+.
T Consensus 22 ~L~~~~r~vl~l~y~~g~--------s~~EIA~~lgiS~~tV~~~l~ra~~kLr~~l~ 71 (113)
T 1s7o_A 22 LLTDKQMNYIELYYADDY--------SLAEIADEFGVSRQAVYDNIKRTEKILETYEM 71 (113)
T ss_dssp GSCHHHHHHHHHHHHTCC--------CHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHcCC--------CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHH
Confidence 489999999988776652 23589999999999999999999999876554
No 94
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster}
Probab=53.42 E-value=17 Score=29.68 Aligned_cols=43 Identities=19% Similarity=0.297 Sum_probs=30.4
Q ss_pred CCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhh
Q 007660 496 RPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFI 546 (594)
Q Consensus 496 RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFi 546 (594)
++++.|+.+.+......+... + -...+|+++|+++..|..|..
T Consensus 18 ~~~~~ys~e~k~~~v~~~~~g----~----s~~~iA~~~gIs~sTl~rW~k 60 (87)
T 2elh_A 18 RPLRSLTPRDKIHAIQRIHDG----E----SKASVARDIGVPESTLRGWCK 60 (87)
T ss_dssp SCCSSCCHHHHHHHHHHHHHT----C----CHHHHHHHHTCCHHHHHHHHH
T ss_pred CCCCCCCHHHHHHHHHHHHCC----C----CHHHHHHHHCcCHHHHHHHHH
Confidence 345678888865554454332 1 245889999999999999974
No 95
>1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulat transcription; 2.05A {Bacillus subtilis} SCOP: a.4.6.2
Probab=53.06 E-value=20 Score=27.27 Aligned_cols=59 Identities=15% Similarity=0.077 Sum_probs=44.3
Q ss_pred CCCCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHH
Q 007660 495 WRPQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYR 562 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~ 562 (594)
.+....|++....+|.-+ .+ .+ .-.++|+.+|++...|..+....+.++......++..
T Consensus 6 ~~~~~~L~~~e~~il~~~-~~----g~----s~~eIA~~l~is~~tV~~~~~~~~~kl~~~~~~~~~~ 64 (74)
T 1fse_A 6 FQSKPLLTKREREVFELL-VQ----DK----TTKEIASELFISEKTVRNHISNAMQKLGVKGRSQAVV 64 (74)
T ss_dssp --CCCCCCHHHHHHHHHH-TT----TC----CHHHHHHHHTSCHHHHHHHHHHHHHHHTCSSHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHH-Hc----CC----CHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHH
Confidence 344566999999999774 33 23 2357999999999999999999999988776655443
No 96
>1xsv_A Hypothetical UPF0122 protein SAV1236; helix-turn-helix, putative DNA-binding protein, signal recognition particle, unknown function; 1.70A {Staphylococcus aureus subsp} SCOP: a.4.13.3
Probab=51.66 E-value=11 Score=32.69 Aligned_cols=51 Identities=12% Similarity=0.053 Sum_probs=41.9
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHH
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIE 558 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmie 558 (594)
.||+..+.++.-.+.+.+ .-.++|+.+|++...|.++...+|.++++.+..
T Consensus 25 ~L~~~~r~vl~l~~~~g~--------s~~EIA~~lgiS~~tV~~~l~ra~~kLr~~l~~ 75 (113)
T 1xsv_A 25 LLTNKQRNYLELFYLEDY--------SLSEIADTFNVSRQAVYDNIRRTGDLVEDYEKK 75 (113)
T ss_dssp GSCHHHHHHHHHHHTSCC--------CHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHHcCC--------CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 489999999988766652 235899999999999999999999999876543
No 97
>1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A
Probab=48.39 E-value=20 Score=28.91 Aligned_cols=55 Identities=13% Similarity=0.090 Sum_probs=43.8
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYR 562 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~ 562 (594)
..|++..+++|.-+ .+. + .-.++|+.+|++...|.++..+.+++++.....++..
T Consensus 20 ~~Lt~~e~~vl~l~-~~g----~----s~~eIA~~l~is~~tV~~~l~r~~~kL~~~~~~~l~~ 74 (82)
T 1je8_A 20 NQLTPRERDILKLI-AQG----L----PNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAV 74 (82)
T ss_dssp GGSCHHHHHHHHHH-TTT----C----CHHHHHHHHTSCHHHHHHHHHHHHHHTTCSSHHHHHH
T ss_pred ccCCHHHHHHHHHH-HcC----C----CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 34899999999774 333 2 3458999999999999999999999998877766554
No 98
>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc bindin transcription factor; 2.40A {Rhodobacter sphaeroides} PDB: 2z2s_A
Probab=48.20 E-value=5.8 Score=35.31 Aligned_cols=49 Identities=27% Similarity=0.340 Sum_probs=41.1
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
.||+..+.+|.-.+.+.+... ++|+.+|+++..|.++...+|+++++.+
T Consensus 135 ~L~~~~r~vl~l~~~~g~s~~--------eIA~~lgis~~tV~~~l~ra~~~Lr~~l 183 (184)
T 2q1z_A 135 RLPEAQRALIERAFFGDLTHR--------ELAAETGLPLGTIKSRIRLALDRLRQHM 183 (184)
T ss_dssp TSCHHHHHHHHHHHHSCCSSC--------CSTTTCCCCCHHHHHHHHHHHHHHHHHC
T ss_pred hCCHHHHHHHHHHHHcCCCHH--------HHHHHHCcCHHHHHHHHHHHHHHHHHHh
Confidence 489999999988777764333 7899999999999999999999988643
No 99
>1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti}
Probab=45.14 E-value=21 Score=27.69 Aligned_cols=54 Identities=19% Similarity=0.222 Sum_probs=42.0
Q ss_pred CChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHHH
Q 007660 501 LPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYRE 563 (594)
Q Consensus 501 fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~e 563 (594)
|++....+|.-+ .+. +. -.++|+.+|++...|..+....+.+++.....++..-
T Consensus 17 L~~~e~~vl~l~-~~g----~s----~~eIA~~l~is~~tV~~~~~r~~~kl~~~~~~~l~~~ 70 (79)
T 1x3u_A 17 LSERERQVLSAV-VAG----LP----NKSIAYDLDISPRTVEVHRANVMAKMKAKSLPHLVRM 70 (79)
T ss_dssp HCHHHHHHHHHH-TTT----CC----HHHHHHHTTSCHHHHHHHHHHHHHHTTCCSHHHHHHH
T ss_pred CCHHHHHHHHHH-HcC----CC----HHHHHHHHCcCHHHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 677788888764 333 22 2489999999999999999999999998777765543
No 100
>1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2
Probab=40.37 E-value=57 Score=27.67 Aligned_cols=58 Identities=19% Similarity=0.099 Sum_probs=44.7
Q ss_pred CCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHHH
Q 007660 497 PQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYRE 563 (594)
Q Consensus 497 kRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~e 563 (594)
+...|++..+++|.-+ .+.+ .-.++|+.+|++...|.++..+.++|+.-....++...
T Consensus 31 ~~~~Lt~re~~Vl~l~-~~G~--------s~~EIA~~L~iS~~TV~~~l~ri~~KLgv~~r~elv~~ 88 (99)
T 1p4w_A 31 GDKRLSPKESEVLRLF-AEGF--------LVTEIAKKLNRSIKTISSQKKSAMMKLGVDNDIALLNY 88 (99)
T ss_dssp SSSSCCHHHHHHHHHH-HHTC--------CHHHHHHHHTSCHHHHHHHHHHHHHHHTCSSHHHHHHH
T ss_pred ccCCCCHHHHHHHHHH-HcCC--------CHHHHHHHHCcCHHHHHHHHHHHHHHHCCCCHHHHHHH
Confidence 3456999999999664 4542 12689999999999999999999999876666555443
No 101
>1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C
Probab=37.07 E-value=22 Score=24.84 Aligned_cols=41 Identities=10% Similarity=0.202 Sum_probs=27.5
Q ss_pred CCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhh
Q 007660 500 GLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINA 548 (594)
Q Consensus 500 ~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNa 548 (594)
.++.+....+...+.+. + ...++|+.+|++...|..|+...
T Consensus 5 ~~~~~~~~~i~~l~~~g----~----s~~~ia~~lgvs~~Tv~r~l~~~ 45 (52)
T 1jko_C 5 AINKHEQEQISRLLEKG----H----PRQQLAIIFGIGVSTLYRYFPAS 45 (52)
T ss_dssp SSCTTHHHHHHHHHHTT----C----CHHHHHHTTSCCHHHHHHHSCTT
T ss_pred CCCHHHHHHHHHHHHcC----C----CHHHHHHHHCCCHHHHHHHHHHc
Confidence 46655555444444332 1 24689999999999999998643
No 102
>3c57_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A
Probab=35.22 E-value=42 Score=27.76 Aligned_cols=52 Identities=15% Similarity=0.173 Sum_probs=40.9
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEE 559 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee 559 (594)
..|++..+++|.-. .+.+ .-.++|+.+|++...|.++..+.|++++.....+
T Consensus 26 ~~Lt~~e~~vl~l~-~~g~--------s~~eIA~~l~is~~tV~~~l~r~~~kL~~~~~~~ 77 (95)
T 3c57_A 26 SGLTDQERTLLGLL-SEGL--------TNKQIADRMFLAEKTVKNYVSRLLAKLGMERRTQ 77 (95)
T ss_dssp -CCCHHHHHHHHHH-HTTC--------CHHHHHHHHTCCHHHHHHHHHHHHHHHTCCCCCC
T ss_pred hcCCHHHHHHHHHH-HcCC--------CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCCHHH
Confidence 46999999999875 4432 1268999999999999999999999987665443
No 103
>3clo_A Transcriptional regulator; NP_811094.1, bacterial regulatory proteins, LUXR family, structural genomics; 2.04A {Bacteroides thetaiotaomicron vpi-5482}
Probab=34.36 E-value=44 Score=32.12 Aligned_cols=56 Identities=18% Similarity=0.073 Sum_probs=45.5
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHHH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYRE 563 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~e 563 (594)
..||+..+.+|.-. .+. + .-.++|+.+|+++..|.+...++|++++.....++..-
T Consensus 196 ~~L~~~erevl~L~-~~G----~----s~~EIA~~L~iS~~TVk~~l~ra~~kL~~~~~~~~~~~ 251 (258)
T 3clo_A 196 NILSEREKEILRCI-RKG----L----SSKEIAATLYISVNTVNRHRQNILEKLSVGNSIEACRA 251 (258)
T ss_dssp TSSCHHHHHHHHHH-HTT----C----CHHHHHHHHTCCHHHHHHHHHHHHHHTTCSSHHHHHHH
T ss_pred ccCCHHHHHHHHHH-HcC----C----CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCCHHHHHHH
Confidence 46999999999886 444 2 23478999999999999999999999998877766543
No 104
>2a6c_A Helix-turn-helix motif; putative transcriptional regulator, structural genomics, JOI for structural genomics, JCSG; HET: CIT; 1.90A {Nitrosomonas europaea} SCOP: a.35.1.13
Probab=31.65 E-value=47 Score=26.27 Aligned_cols=36 Identities=17% Similarity=0.076 Sum_probs=26.0
Q ss_pred HHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHH
Q 007660 527 KHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYR 562 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~ 562 (594)
..+||+.+|++...|+.|..+++.+..-..+.++..
T Consensus 34 q~elA~~~gis~~~is~~e~g~~~~~~~~~l~~la~ 69 (83)
T 2a6c_A 34 QFKAAELLGVTQPRVSDLMRGKIDLFSLESLIDMIT 69 (83)
T ss_dssp HHHHHHHHTSCHHHHHHHHTTCGGGCCHHHHHHHHH
T ss_pred HHHHHHHHCcCHHHHHHHHcCCCCCCCHHHHHHHHH
Confidence 357999999999999999988764444444444433
No 105
>1iuf_A Centromere ABP1 protein; riken structural genomics/proteomics initiative, RSGI, structural genomics, DNA binding protein; NMR {Schizosaccharomyces pombe} SCOP: a.4.1.7 a.4.1.7
Probab=31.17 E-value=47 Score=29.59 Aligned_cols=52 Identities=13% Similarity=0.092 Sum_probs=37.6
Q ss_pred CCCCCCCChhHHHHHHHHH-HHccCCCCCCHHHHHHHHH-Hh--CCChhhHhhhhhhhh
Q 007660 495 WRPQRGLPEKSVSVLRAWM-FQNFLHPYPKDAEKHLLAM-KS--GLTRTQVSNWFINAR 549 (594)
Q Consensus 495 ~RkRR~fpk~a~~iLr~Wf-~eH~~~PYPS~eEK~~LA~-~T--GLS~~QVsNWFiNaR 549 (594)
.++|+.|+-+++..+..|+ .+| |-.+..+....|+ +. +++..+|+.|..|+-
T Consensus 6 ~~~R~~lT~~qK~~i~~~~~~~~---~~~~q~~la~wa~~~f~~~is~stis~ilk~k~ 61 (144)
T 1iuf_A 6 KIKRRAITEHEKRALRHYFFQLQ---NRSGQQDLIEWFREKFGKDISQPSVSQILSSKY 61 (144)
T ss_dssp CCSSSCCCSHHHHHHHHHHHSSS---SCCCHHHHHHHHHHHHSSCCSSSSTTHHHHHHH
T ss_pred CCcCccCCHHHHHHHHHHHHHhC---CCCCHHHHHHHHHHHHCCCCcHHHHHHHHhhHH
Confidence 4567779999999999998 566 6655544333222 67 789999999987643
No 106
>3b7h_A Prophage LP1 protein 11; structural genomics, PSI2, MCSG, protein structure initiative, midwest center for structural genomics; 2.00A {Lactobacillus plantarum WCFS1}
Probab=31.08 E-value=44 Score=25.41 Aligned_cols=32 Identities=22% Similarity=0.239 Sum_probs=21.9
Q ss_pred HHHHHHhCCChhhHhhhhhhhhhhhchhhHHH
Q 007660 528 HLLAMKSGLTRTQVSNWFINARVRLWKPMIEE 559 (594)
Q Consensus 528 ~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee 559 (594)
..||+.+|++...|+.|..+.+.......+.+
T Consensus 24 ~~lA~~~gis~~~i~~~e~g~~~~~~~~~l~~ 55 (78)
T 3b7h_A 24 NRVATLAGLNQSTVNAMFEGRSKRPTITTIRK 55 (78)
T ss_dssp HHHHHHHTCCHHHHHHHHCTTCCCCCHHHHHH
T ss_pred HHHHHHHCcCHHHHHHHHcCCCCCCCHHHHHH
Confidence 46888888888888888887663343333433
No 107
>3lsg_A Two-component response regulator YESN; structural genomics, PSI-2, protein structure initiative, MCSG; 2.05A {Fusobacterium nucleatum}
Probab=31.04 E-value=68 Score=26.17 Aligned_cols=41 Identities=12% Similarity=0.131 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhh
Q 007660 505 SVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINA 548 (594)
Q Consensus 505 a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNa 548 (594)
.++.+.+|+.+|+..|-++ ...||+.+|+++..+...|.-.
T Consensus 3 ~~~~i~~~i~~~~~~~~~~---~~~lA~~~~~S~~~l~r~fk~~ 43 (103)
T 3lsg_A 3 AKELIQNIIEESYTDSQFT---LSVLSEKLDLSSGYLSIMFKKN 43 (103)
T ss_dssp HHHHHHHHHHHHTTCTTCC---HHHHHHHTTCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHccCCCCC---HHHHHHHHCcCHHHHHHHHHHH
Confidence 4667788999997765455 4568999999999999998765
No 108
>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium}
Probab=30.40 E-value=52 Score=24.24 Aligned_cols=36 Identities=17% Similarity=0.129 Sum_probs=31.1
Q ss_pred HHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHHH
Q 007660 528 HLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYRE 563 (594)
Q Consensus 528 ~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~e 563 (594)
.++|+.+|+++..|.++..+.+.++......++...
T Consensus 17 ~eIA~~l~is~~tV~~~~~~~~~kl~~~~~~~l~~~ 52 (61)
T 2jpc_A 17 HGISEKLHISIKTVETHRMNMMRKLQVHKVTELLNC 52 (61)
T ss_dssp HHHHHHTCSCHHHHHHHHHHHHHHHTCSSHHHHHHH
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHHHCCCCHHHHHHH
Confidence 489999999999999999999999988777666543
No 109
>1l0o_C Sigma factor; bergerat fold, helix-turn-helix, protein binding; HET: ADP; 2.90A {Geobacillus stearothermophilus} SCOP: a.4.13.2
Probab=29.34 E-value=11 Score=34.36 Aligned_cols=47 Identities=13% Similarity=0.159 Sum_probs=0.0
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhc
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLW 553 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlk 553 (594)
..||+..+.+|.-.|.+.+ .-.++|+.+|++...|..+...+|++++
T Consensus 197 ~~L~~~~r~vl~l~~~~g~--------s~~EIA~~lgis~~tV~~~~~ra~~~Lr 243 (243)
T 1l0o_C 197 EELDERERLIVYLRYYKDQ--------TQSEVASRLGISQVQMSRLEKKILQHIK 243 (243)
T ss_dssp -------------------------------------------------------
T ss_pred HhCCHHHHHHHHHHHhcCC--------CHHHHHHHHCcCHHHHHHHHHHHHHHcC
Confidence 4588889999887666552 2358999999999999999999998864
No 110
>2xi8_A Putative transcription regulator; HTH DNA-binding motif; HET: GOL; 1.21A {Enterococcus faecalis} PDB: 2gzu_A 1utx_A* 2xj3_A 2xiu_A
Probab=29.18 E-value=49 Score=24.11 Aligned_cols=22 Identities=18% Similarity=0.061 Sum_probs=18.3
Q ss_pred HHHHHHhCCChhhHhhhhhhhh
Q 007660 528 HLLAMKSGLTRTQVSNWFINAR 549 (594)
Q Consensus 528 ~~LA~~TGLS~~QVsNWFiNaR 549 (594)
.+||+.+|++...|+.|..+.+
T Consensus 18 ~~lA~~~gis~~~i~~~e~g~~ 39 (66)
T 2xi8_A 18 SELAALLEVSRQTINGIEKNKY 39 (66)
T ss_dssp HHHHHHHTSCHHHHHHHHTTSC
T ss_pred HHHHHHHCcCHHHHHHHHcCCC
Confidence 5688889999999999988754
No 111
>2q0o_A Probable transcriptional activator protein TRAR; helix-turn-helix, two-helix coiled coil; HET: LAE; 2.00A {Rhizobium SP}
Probab=28.21 E-value=61 Score=30.56 Aligned_cols=56 Identities=16% Similarity=0.291 Sum_probs=42.9
Q ss_pred CCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHH
Q 007660 498 QRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYR 562 (594)
Q Consensus 498 RR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~ 562 (594)
...|++..+++| .|+.+- + .-.++|+.+|+++..|.+...+.++|+.-....+...
T Consensus 173 ~~~Lt~~e~~vl-~~~~~g----~----s~~eIa~~l~is~~tV~~~~~~~~~kl~~~~~~~~~~ 228 (236)
T 2q0o_A 173 KQMLSPREMLCL-VWASKG----K----TASVTANLTGINARTVQHYLDKARAKLDAESVPQLVA 228 (236)
T ss_dssp GGSCCHHHHHHH-HHHHTT----C----CHHHHHHHHCCCHHHHHHHHHHHHHHHTCSSHHHHHH
T ss_pred cCCCCHHHHHHH-HHHHcC----C----CHHHHHHHHCcCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 345999999999 455544 2 2257899999999999999999999987666655443
No 112
>3qq6_A HTH-type transcriptional regulator SINR; helix-turn-helix motif, biofilm, repressor, SINI; 1.90A {Bacillus subtilis}
Probab=26.77 E-value=56 Score=25.65 Aligned_cols=33 Identities=21% Similarity=0.217 Sum_probs=21.1
Q ss_pred HHHHHHhCCChhhHhhhhhhhhhhhchhhHHHH
Q 007660 528 HLLAMKSGLTRTQVSNWFINARVRLWKPMIEEM 560 (594)
Q Consensus 528 ~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~ 560 (594)
.+||+.+|++...|+.|-.+.++...-..+.++
T Consensus 27 ~elA~~~gis~~~is~~E~G~~~~p~~~~l~~i 59 (78)
T 3qq6_A 27 SELAEKAGVAKSYLSSIERNLQTNPSIQFLEKV 59 (78)
T ss_dssp HHHHHHHTCCHHHHHHHHTTSCCCCBHHHHHHH
T ss_pred HHHHHHHCcCHHHHHHHHcCCCCCCCHHHHHHH
Confidence 467777888888888887774444444444443
No 113
>2rn7_A IS629 ORFA; helix, all alpha, unknown function, structural genomics, PSI-2, protein structure initiative; NMR {Shigella flexneri}
Probab=25.19 E-value=1.3e+02 Score=24.82 Aligned_cols=51 Identities=14% Similarity=0.146 Sum_probs=32.9
Q ss_pred CCCCChhHHHHHHHHHHHccCCCCCCH-HHHHHHHHHhCCChhhHhhhhhhhh
Q 007660 498 QRGLPEKSVSVLRAWMFQNFLHPYPKD-AEKHLLAMKSGLTRTQVSNWFINAR 549 (594)
Q Consensus 498 RR~fpk~a~~iLr~Wf~eH~~~PYPS~-eEK~~LA~~TGLS~~QVsNWFiNaR 549 (594)
++.|+.+.+...-..+.++- .-|++. .....+|+..|++..+|.+|..-.+
T Consensus 4 ~~~ys~e~K~~~v~~~~~~~-~~~~s~g~s~~~va~~~gIs~~tl~~W~~~~~ 55 (108)
T 2rn7_A 4 NTRFSPEVRQRAVRMVLESQ-GEYDSQWATICSIAPKIGCTPETLRVWVRQHE 55 (108)
T ss_dssp SCCCCHHHHHHHHHHHHHHH-HHCCCHHHHHHHHHHHHTSCHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHhcc-cccccccccHHHHHHHHCcCHHHHHHHHHHHH
Confidence 45688887654444443320 012333 3567899999999999999976543
No 114
>2r1j_L Repressor protein C2; protein-DNA complex, helix-turn-helix, DNA-binding, transcription, transcription regulation; 1.53A {Enterobacteria phage P22} SCOP: a.35.1.2 PDB: 3jxb_C 3jxc_L 3jxd_L
Probab=24.96 E-value=38 Score=24.86 Aligned_cols=23 Identities=17% Similarity=0.361 Sum_probs=20.2
Q ss_pred HHHHHHHhCCChhhHhhhhhhhh
Q 007660 527 KHLLAMKSGLTRTQVSNWFINAR 549 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNaR 549 (594)
...||+.+|+++..|+.|..+.+
T Consensus 21 ~~~lA~~~gis~~~i~~~e~g~~ 43 (68)
T 2r1j_L 21 QAALGKMVGVSNVAISQWERSET 43 (68)
T ss_dssp HHHHHHHHTSCHHHHHHHHTTSS
T ss_pred HHHHHHHHCCCHHHHHHHHcCCC
Confidence 45799999999999999998854
No 115
>3bd1_A CRO protein; transcription factor, helix-turn-helix, prophage, structural evolution, transcription; 1.40A {Xylella fastidiosa}
Probab=24.94 E-value=69 Score=24.90 Aligned_cols=34 Identities=26% Similarity=0.377 Sum_probs=24.8
Q ss_pred HHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHH
Q 007660 527 KHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYR 562 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~ 562 (594)
...||+.+|++...|+.|..+.+. . ...+.++..
T Consensus 14 q~~lA~~lgvs~~~is~~e~g~~~-p-~~~l~~ia~ 47 (79)
T 3bd1_A 14 VSALAASLGVRQSAISNWRARGRV-P-AERCIDIER 47 (79)
T ss_dssp HHHHHHHHTCCHHHHHHHHHHTCC-C-GGGHHHHHH
T ss_pred HHHHHHHHCCCHHHHHHHHHCCCC-C-HHHHHHHHH
Confidence 468999999999999999988762 2 444444433
No 116
>2lfw_A PHYR sigma-like domain; signal transduction, response regulator, sigma factor mimicr sigma factor, general stress response, signaling protein; NMR {Sphingomonas SP}
Probab=24.02 E-value=18 Score=32.05 Aligned_cols=52 Identities=12% Similarity=0.031 Sum_probs=40.3
Q ss_pred CCCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhh
Q 007660 497 PQRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPM 556 (594)
Q Consensus 497 kRR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpm 556 (594)
--..||+..+.+|.-.+.+. + .-.++|+.+|++...|.++...+|+++++.+
T Consensus 90 ~l~~Lp~~~r~vl~L~~~~g----~----s~~EIA~~lgis~~tV~~~l~rar~~Lr~~l 141 (157)
T 2lfw_A 90 RLARMTPLSRQALLLTAMEG----F----SPEDAAYLIEVDTSEVETLVTEALAEIEKQT 141 (157)
T ss_dssp TTTTSCTTHHHHHTTTSSSC----C----CHHHHHHTTTSCHHHHHHHHHHHHHHHHTTS
T ss_pred HHHhCCHHHHHHHHHHHHcC----C----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHH
Confidence 33558999999886554444 2 2358999999999999999999999998754
No 117
>1zug_A Phage 434 CRO protein; gene regulating protein, transcription regulation; NMR {Phage 434} SCOP: a.35.1.2 PDB: 2cro_A 3cro_L*
Probab=23.99 E-value=39 Score=25.09 Aligned_cols=24 Identities=17% Similarity=0.156 Sum_probs=21.4
Q ss_pred HHHHHHHhCCChhhHhhhhhhhhh
Q 007660 527 KHLLAMKSGLTRTQVSNWFINARV 550 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNaRr 550 (594)
..+||+.+|++...|+.|..+.+.
T Consensus 19 q~~lA~~~gis~~~i~~~e~g~~~ 42 (71)
T 1zug_A 19 QTELATKAGVKQQSIQLIEAGVTK 42 (71)
T ss_dssp HHHHHHHHTSCHHHHHHHHTTCCS
T ss_pred HHHHHHHhCCCHHHHHHHHcCCCC
Confidence 357999999999999999998776
No 118
>3ulq_B Transcriptional regulatory protein COMA; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} PDB: 2krf_A
Probab=23.12 E-value=1.1e+02 Score=25.31 Aligned_cols=56 Identities=13% Similarity=0.064 Sum_probs=42.5
Q ss_pred CCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHH
Q 007660 498 QRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYR 562 (594)
Q Consensus 498 RR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~ 562 (594)
...|++..+++|.-.. +- | .-.++|+.+|++...|.+...+.++|+.-....++..
T Consensus 27 ~~~Lt~rE~~Vl~l~~-~G----~----s~~eIA~~L~iS~~TV~~~~~~i~~Klgv~~r~~lv~ 82 (90)
T 3ulq_B 27 QDVLTPRECLILQEVE-KG----F----TNQEIADALHLSKRSIEYSLTSIFNKLNVGSRTEAVL 82 (90)
T ss_dssp --CCCHHHHHHHHHHH-TT----C----CHHHHHHHHTCCHHHHHHHHHHHHHHTTCSSHHHHHH
T ss_pred ccCCCHHHHHHHHHHH-cC----C----CHHHHHHHHCcCHHHHHHHHHHHHHHHCCCCHHHHHH
Confidence 3459999999997654 43 2 2458999999999999999999999987666555443
No 119
>2b5a_A C.BCLI; helix-turn-helix motif, gene regulation; 1.54A {Bacillus caldolyticus} SCOP: a.35.1.3
Probab=23.08 E-value=73 Score=24.02 Aligned_cols=22 Identities=36% Similarity=0.273 Sum_probs=16.5
Q ss_pred HHHHHHhCCChhhHhhhhhhhh
Q 007660 528 HLLAMKSGLTRTQVSNWFINAR 549 (594)
Q Consensus 528 ~~LA~~TGLS~~QVsNWFiNaR 549 (594)
..||+.+|++...|+.|..+.+
T Consensus 27 ~~lA~~~gis~~~i~~~e~g~~ 48 (77)
T 2b5a_A 27 EELADLAGLHRTYISEVERGDR 48 (77)
T ss_dssp HHHHHHHTCCHHHHHHHHTTCS
T ss_pred HHHHHHHCCCHHHHHHHHCCCC
Confidence 4677788888888888877654
No 120
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure, structural genomics, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: a.4.1.19
Probab=22.24 E-value=68 Score=26.09 Aligned_cols=47 Identities=19% Similarity=0.191 Sum_probs=31.1
Q ss_pred CCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhh
Q 007660 498 QRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARV 550 (594)
Q Consensus 498 RR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRr 550 (594)
|+.|+.+.+...-..+...- . .....+|+.+|++..+|.+|....+.
T Consensus 3 r~~ys~e~k~~~v~~~~~~~--g----~s~~~ia~~~gIs~~tl~rW~~~~~~ 49 (97)
T 2jn6_A 3 TKTYSEEFKRDAVALYENSD--G----ASLQQIANDLGINRVTLKNWIIKYGS 49 (97)
T ss_dssp CCCCCHHHHHHHHHHHTTGG--G----SCHHHHHHHHTSCHHHHHHHHHHHCC
T ss_pred CCCCCHHHHHHHHHHHHHcC--C----ChHHHHHHHHCcCHHHHHHHHHHHhh
Confidence 45688887654444432210 1 12568999999999999999865544
No 121
>3bs3_A Putative DNA-binding protein; XRE-family, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.65A {Bacteroides fragilis}
Probab=22.00 E-value=47 Score=25.07 Aligned_cols=23 Identities=26% Similarity=0.472 Sum_probs=20.4
Q ss_pred HHHHHHHhCCChhhHhhhhhhhh
Q 007660 527 KHLLAMKSGLTRTQVSNWFINAR 549 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNaR 549 (594)
..+||+.+|+++..|+.|..+.+
T Consensus 26 ~~~lA~~~gis~~~i~~~e~g~~ 48 (76)
T 3bs3_A 26 NRWLAEQMGKSENTISRWCSNKS 48 (76)
T ss_dssp HHHHHHHHTCCHHHHHHHHTTSS
T ss_pred HHHHHHHHCcCHHHHHHHHcCCC
Confidence 35799999999999999998865
No 122
>1adr_A P22 C2 repressor; transcription regulation; NMR {Enterobacteria phage P22} SCOP: a.35.1.2
Probab=21.89 E-value=47 Score=25.02 Aligned_cols=24 Identities=17% Similarity=0.319 Sum_probs=20.6
Q ss_pred HHHHHHHhCCChhhHhhhhhhhhh
Q 007660 527 KHLLAMKSGLTRTQVSNWFINARV 550 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNaRr 550 (594)
..+||+.+|++...|+.|..+.+.
T Consensus 21 ~~~lA~~~gis~~~i~~~e~g~~~ 44 (76)
T 1adr_A 21 QAALGKMVGVSNVAISQWERSETE 44 (76)
T ss_dssp HHHHHHHHTSCHHHHHHHHTTSSC
T ss_pred HHHHHHHHCcCHHHHHHHHcCCCC
Confidence 457999999999999999987543
No 123
>1r69_A Repressor protein CI; gene regulating protein; 2.00A {Phage 434} SCOP: a.35.1.2 PDB: 1pra_A 1per_L 1rpe_L* 2or1_L* 1r63_A 2r63_A 1sq8_A
Probab=21.56 E-value=76 Score=23.32 Aligned_cols=24 Identities=21% Similarity=0.137 Sum_probs=20.6
Q ss_pred HHHHHHHhCCChhhHhhhhhhhhh
Q 007660 527 KHLLAMKSGLTRTQVSNWFINARV 550 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNaRr 550 (594)
..+||+.+|++...|+.|..+.+.
T Consensus 17 q~~lA~~~gis~~~i~~~e~g~~~ 40 (69)
T 1r69_A 17 QAELAQKVGTTQQSIEQLENGKTK 40 (69)
T ss_dssp HHHHHHHHTSCHHHHHHHHTTSCS
T ss_pred HHHHHHHHCcCHHHHHHHHcCCCC
Confidence 457999999999999999888765
No 124
>1l3l_A Transcriptional activator protein TRAR; helix-turn-helix DNA binding motif, alpha/beta/alpha sandwich; HET: LAE; 1.66A {Agrobacterium tumefaciens} SCOP: a.4.6.2 d.110.5.1 PDB: 1h0m_A*
Probab=21.51 E-value=1e+02 Score=29.03 Aligned_cols=56 Identities=18% Similarity=0.116 Sum_probs=42.5
Q ss_pred CCCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHH
Q 007660 498 QRGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYR 562 (594)
Q Consensus 498 RR~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~ 562 (594)
...|++..+++|+ |+.+- + .-.++|+.+|++...|.+...+.|+|+--....++..
T Consensus 171 ~~~Lt~~e~~vl~-~~~~g----~----s~~eIa~~l~is~~tV~~~~~~~~~kl~~~~~~~~~~ 226 (234)
T 1l3l_A 171 AAWLDPKEATYLR-WIAVG----K----TMEEIADVEGVKYNSVRVKLREAMKRFDVRSKAHLTA 226 (234)
T ss_dssp CCCCCHHHHHHHH-HHTTT----C----CHHHHHHHHTCCHHHHHHHHHHHHHHHTCSSHHHHHH
T ss_pred CCCCCHHHHHHHH-HHHcC----C----CHHHHHHHHCcCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 3469999999984 44433 2 2357899999999999999999999987666555443
No 125
>1uxc_A FRUR (1-57), fructose repressor; DNA-binding protein, LACI family, transc regulation; NMR {Escherichia coli} SCOP: a.35.1.5 PDB: 1uxd_A
Probab=21.41 E-value=88 Score=24.63 Aligned_cols=34 Identities=21% Similarity=0.211 Sum_probs=25.6
Q ss_pred HHHHHHHhCCChhhHhhhhhhhhh--hhchhhHHHH
Q 007660 527 KHLLAMKSGLTRTQVSNWFINARV--RLWKPMIEEM 560 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNaRr--RlkKpmiee~ 560 (594)
..+||+.+|++...|+.++-+++. +....+.++.
T Consensus 3 ~~diA~~aGVS~sTVSrvLng~~~~~~vs~et~~rI 38 (65)
T 1uxc_A 3 LDEIARLAGVSRTTASYVINGKAKQYRVSDKTVEKV 38 (65)
T ss_dssp HHHHHHHHTSCHHHHHHHHHTCTTTTTCTTHHHHHH
T ss_pred HHHHHHHHCcCHHHHHHHHcCCCCCCCCCHHHHHHH
Confidence 357999999999999999988762 4555444443
No 126
>1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1
Probab=21.24 E-value=83 Score=33.71 Aligned_cols=57 Identities=16% Similarity=-0.009 Sum_probs=42.7
Q ss_pred CCCChhHHHHHHHHHHHccCCCCCCHHHHHHHHHHhCCChhhHhhhhhhhhhhhc-hhhHHH
Q 007660 499 RGLPEKSVSVLRAWMFQNFLHPYPKDAEKHLLAMKSGLTRTQVSNWFINARVRLW-KPMIEE 559 (594)
Q Consensus 499 R~fpk~a~~iLr~Wf~eH~~~PYPS~eEK~~LA~~TGLS~~QVsNWFiNaRrRlk-Kpmiee 559 (594)
..|++..+.+|.-.|.-.-..+ -.-.++|+.+|+|...|..+...+++|++ +++..+
T Consensus 374 ~~L~ereR~VI~LRygL~~~e~----~TleEIAe~LgIS~erVRqi~~RAlkKLR~~~~~~~ 431 (438)
T 1l9z_H 374 SKLSEREAMVLKLRKGLIDGRE----HTLEEVGAYFGVTRERIRQIENKALRKLKYHESRTR 431 (438)
T ss_pred HhCCHHHHHHHHHHHhccCCCC----CCHHHHHHHHCcCHHHHHHHHHHHHHHHHHhHhhHH
Confidence 3589999999987765110012 24568999999999999999999999999 555433
No 127
>1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein, transcriptional regulator, transcription regulator; 1.69A {Aeromonas hydrophila} SCOP: a.35.1.3
Probab=20.52 E-value=92 Score=23.17 Aligned_cols=22 Identities=32% Similarity=0.294 Sum_probs=17.6
Q ss_pred HHHHHHHhCCChhhHhhhhhhh
Q 007660 527 KHLLAMKSGLTRTQVSNWFINA 548 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNa 548 (594)
..+||+.+|++...|+.|..+.
T Consensus 29 ~~~lA~~~gis~~~i~~~e~g~ 50 (74)
T 1y7y_A 29 QETLAFLSGLDRSYVGGVERGQ 50 (74)
T ss_dssp HHHHHHHHTCCHHHHHHHHTTC
T ss_pred HHHHHHHHCcCHHHHHHHHCCC
Confidence 3468888888888888888775
No 128
>2wiu_B HTH-type transcriptional regulator HIPB; transferase transcription complex, serine kinase, DNA-bindin mercury derivative, repressor; 2.35A {Escherichia coli} PDB: 3dnv_B* 3dnw_B* 3hzi_B*
Probab=20.45 E-value=1.1e+02 Score=23.81 Aligned_cols=35 Identities=20% Similarity=0.207 Sum_probs=24.8
Q ss_pred HHHHHHHhCCChhhHhhhhhhhhhhhchhhHHHHHH
Q 007660 527 KHLLAMKSGLTRTQVSNWFINARVRLWKPMIEEMYR 562 (594)
Q Consensus 527 K~~LA~~TGLS~~QVsNWFiNaRrRlkKpmiee~~~ 562 (594)
..+||+.+|++...|+.|..+.+ ......+.++..
T Consensus 28 q~~lA~~~gis~~~i~~~e~g~~-~~~~~~l~~i~~ 62 (88)
T 2wiu_B 28 QSELAKKIGIKQATISNFENNPD-NTTLTTFFKILQ 62 (88)
T ss_dssp HHHHHHHHTCCHHHHHHHHHCGG-GCBHHHHHHHHH
T ss_pred HHHHHHHhCCCHHHHHHHHcCCC-CCCHHHHHHHHH
Confidence 35799999999999999998844 344444444433
Done!