Query psy5541
Match_columns 301
No_of_seqs 332 out of 1895
Neff 7.3
Searched_HMMs 29240
Date Fri Aug 16 20:12:35 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5541.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/5541hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1b72_B Protein (PBX1); homeodo 99.8 2.1E-19 7.2E-24 136.7 7.4 69 109-177 2-70 (87)
2 1au7_A Protein PIT-1, GHF-1; c 99.8 3.1E-20 1E-24 154.7 2.8 126 40-169 2-145 (146)
3 2xsd_C POU domain, class 3, tr 99.8 3E-20 1E-24 157.6 2.6 127 41-171 13-159 (164)
4 3l1p_A POU domain, class 5, tr 99.8 8.7E-20 3E-24 153.4 5.4 124 41-169 10-154 (155)
5 3d1n_I POU domain, class 6, tr 99.8 1.7E-19 5.7E-24 151.1 6.4 126 40-168 3-150 (151)
6 1puf_B PRE-B-cell leukemia tra 99.8 2.7E-19 9.2E-24 131.7 6.5 68 109-176 2-69 (73)
7 2dmn_A Homeobox protein TGIF2L 99.8 6.3E-19 2.2E-23 133.0 6.7 66 106-171 5-70 (83)
8 1du6_A PBX1, homeobox protein 99.8 4E-19 1.4E-23 127.4 4.5 63 107-169 2-64 (64)
9 1x2n_A Homeobox protein pknox1 99.8 1.1E-18 3.9E-23 128.3 6.8 65 107-171 6-70 (73)
10 1e3o_C Octamer-binding transcr 99.7 1.6E-18 5.5E-23 146.4 3.3 126 40-169 6-159 (160)
11 1k61_A Mating-type protein alp 99.7 9E-18 3.1E-22 118.8 6.2 59 111-169 1-59 (60)
12 2hdd_A Protein (engrailed home 99.7 5.8E-18 2E-22 120.2 4.7 59 107-168 2-60 (61)
13 3k2a_A Homeobox protein MEIS2; 99.7 9.3E-18 3.2E-22 121.5 5.4 60 113-172 3-62 (67)
14 1le8_B Mating-type protein alp 99.7 1.2E-17 4.1E-22 126.0 6.2 63 109-171 3-65 (83)
15 2cue_A Paired box protein PAX6 99.7 2.3E-17 7.8E-22 123.5 7.5 64 107-173 6-69 (80)
16 1bw5_A ISL-1HD, insulin gene e 99.7 5.6E-18 1.9E-22 122.2 3.8 62 107-171 2-63 (66)
17 2ecc_A Homeobox and leucine zi 99.7 9.4E-18 3.2E-22 123.8 5.1 59 110-171 5-63 (76)
18 2h1k_A IPF-1, pancreatic and d 99.7 1E-17 3.5E-22 119.7 5.0 59 108-169 3-61 (63)
19 1ig7_A Homeotic protein MSX-1; 99.7 1.4E-17 4.6E-22 117.0 5.4 57 109-168 1-57 (58)
20 1mnm_C Protein (MAT alpha-2 tr 99.7 1.7E-17 5.8E-22 126.2 6.4 62 107-168 26-87 (87)
21 2dmu_A Homeobox protein goosec 99.7 1.3E-17 4.3E-22 121.7 5.3 62 107-171 6-67 (70)
22 2cra_A Homeobox protein HOX-B1 99.7 9.3E-18 3.2E-22 122.5 4.5 62 107-171 6-67 (70)
23 2djn_A Homeobox protein DLX-5; 99.7 1.5E-17 5.2E-22 121.3 5.6 61 107-170 6-66 (70)
24 1zq3_P PRD-4, homeotic bicoid 99.7 3.1E-17 1.1E-21 119.0 6.9 61 108-171 2-62 (68)
25 2vi6_A Homeobox protein nanog; 99.7 1.1E-17 3.8E-22 119.1 4.3 59 108-169 3-61 (62)
26 2k40_A Homeobox expressed in E 99.7 2.1E-17 7.2E-22 119.5 5.8 61 108-171 1-61 (67)
27 1jgg_A Segmentation protein EV 99.7 1.6E-17 5.5E-22 117.5 5.0 58 109-169 2-59 (60)
28 2da2_A Alpha-fetoprotein enhan 99.7 1.5E-17 5E-22 121.3 4.7 63 106-171 5-67 (70)
29 1yz8_P Pituitary homeobox 2; D 99.7 1.5E-17 5.2E-22 120.6 4.6 62 107-171 2-63 (68)
30 2dmt_A Homeobox protein BARH-l 99.7 1.4E-17 4.8E-22 124.7 4.4 63 106-171 15-77 (80)
31 1akh_A Protein (mating-type pr 99.7 1.3E-17 4.4E-22 118.3 3.9 58 107-167 4-61 (61)
32 2e1o_A Homeobox protein PRH; D 99.7 2.5E-17 8.5E-22 120.2 5.4 62 107-171 6-67 (70)
33 2da1_A Alpha-fetoprotein enhan 99.7 1.3E-17 4.3E-22 121.7 3.7 63 106-171 5-67 (70)
34 2l7z_A Homeobox protein HOX-A1 99.7 2.1E-17 7.1E-22 121.6 4.8 63 106-171 5-67 (73)
35 2da4_A Hypothetical protein DK 99.7 2E-17 6.8E-22 123.8 4.5 61 106-169 6-70 (80)
36 1ahd_P Antennapedia protein mu 99.7 1.8E-17 6.2E-22 120.3 4.2 61 108-171 2-62 (68)
37 2dmq_A LIM/homeobox protein LH 99.7 2.7E-17 9.2E-22 123.0 5.2 62 107-171 6-67 (80)
38 3rkq_A Homeobox protein NKX-2. 99.7 5.1E-17 1.8E-21 113.8 6.3 57 108-167 2-58 (58)
39 2dms_A Homeobox protein OTX2; 99.7 3E-17 1E-21 122.9 5.3 63 106-171 5-67 (80)
40 1nk2_P Homeobox protein VND; h 99.7 3.7E-17 1.2E-21 121.5 5.7 63 106-171 7-69 (77)
41 1ftt_A TTF-1 HD, thyroid trans 99.7 3.3E-17 1.1E-21 118.9 5.3 61 108-171 2-62 (68)
42 1fjl_A Paired protein; DNA-bin 99.7 3.5E-17 1.2E-21 122.7 5.6 63 106-171 16-78 (81)
43 3a01_A Homeodomain-containing 99.7 2.9E-17 1E-21 126.4 4.9 67 106-175 15-81 (93)
44 2da3_A Alpha-fetoprotein enhan 99.7 1.9E-17 6.4E-22 123.8 3.7 62 106-170 15-76 (80)
45 1puf_A HOX-1.7, homeobox prote 99.7 5.1E-17 1.7E-21 120.7 5.7 62 107-171 12-73 (77)
46 2kt0_A Nanog, homeobox protein 99.7 3.5E-17 1.2E-21 123.5 4.5 63 106-171 20-82 (84)
47 2r5y_A Homeotic protein sex co 99.7 7.8E-17 2.7E-21 122.8 6.3 61 107-170 27-87 (88)
48 2lk2_A Homeobox protein TGIF1; 99.7 6.5E-17 2.2E-21 122.6 5.8 60 112-171 9-68 (89)
49 1b8i_A Ultrabithorax, protein 99.7 4.2E-17 1.5E-21 122.4 4.6 61 107-170 19-79 (81)
50 1uhs_A HOP, homeodomain only p 99.7 8.9E-17 3E-21 117.9 6.0 59 109-170 2-61 (72)
51 1wh5_A ZF-HD homeobox family p 99.7 3.1E-17 1.1E-21 122.8 3.5 59 107-168 16-78 (80)
52 3a02_A Homeobox protein arista 99.7 4.8E-17 1.6E-21 115.0 4.2 57 111-170 2-58 (60)
53 2hi3_A Homeodomain-only protei 99.7 1.3E-16 4.4E-21 117.4 6.2 59 109-170 3-62 (73)
54 3a03_A T-cell leukemia homeobo 99.6 7.4E-17 2.5E-21 112.6 4.4 54 113-169 2-55 (56)
55 2m0c_A Homeobox protein arista 99.6 8.7E-17 3E-21 118.6 4.6 63 106-171 7-69 (75)
56 1b72_A Protein (homeobox prote 99.6 1.8E-16 6.1E-21 122.9 6.4 62 107-171 33-94 (97)
57 2ly9_A Zinc fingers and homeob 99.6 1.9E-16 6.6E-21 116.6 4.8 63 106-171 4-66 (74)
58 2dn0_A Zinc fingers and homeob 99.6 1.1E-16 3.8E-21 118.6 3.5 62 107-171 7-68 (76)
59 2ecb_A Zinc fingers and homeob 99.6 3.2E-16 1.1E-20 119.4 5.5 57 112-171 15-71 (89)
60 2da5_A Zinc fingers and homeob 99.6 2.5E-16 8.5E-21 116.4 4.6 60 109-171 8-67 (75)
61 1wh7_A ZF-HD homeobox family p 99.6 1.1E-16 3.6E-21 119.8 2.6 58 107-168 16-78 (80)
62 2cuf_A FLJ21616 protein; homeo 99.6 3.2E-16 1.1E-20 121.0 4.7 63 106-171 5-82 (95)
63 3nar_A ZHX1, zinc fingers and 99.6 4.2E-16 1.4E-20 120.6 4.8 64 107-173 24-87 (96)
64 3nau_A Zinc fingers and homeob 99.6 4E-16 1.4E-20 111.4 4.1 51 116-169 12-62 (66)
65 2da6_A Hepatocyte nuclear fact 99.6 2.3E-15 8E-20 116.8 7.0 62 107-171 5-87 (102)
66 1wi3_A DNA-binding protein SAT 99.6 1.5E-15 5E-20 108.4 4.4 59 107-168 6-65 (71)
67 2d5v_A Hepatocyte nuclear fact 99.6 3.9E-16 1.3E-20 132.2 0.9 63 106-171 95-157 (164)
68 2e19_A Transcription factor 8; 99.5 3.6E-15 1.2E-19 106.9 5.2 55 111-168 6-60 (64)
69 2dmp_A Zinc fingers and homeob 99.5 2.6E-15 8.9E-20 114.6 4.7 58 111-171 16-73 (89)
70 1lfb_A Liver transcription fac 99.5 3.6E-15 1.2E-19 115.9 5.1 63 106-171 7-90 (99)
71 2l9r_A Homeobox protein NKX-3. 99.5 2.7E-15 9.3E-20 109.0 3.7 56 113-171 9-64 (69)
72 2cqx_A LAG1 longevity assuranc 99.5 4.5E-15 1.5E-19 108.8 3.0 61 108-170 8-68 (72)
73 1x2m_A LAG1 longevity assuranc 99.5 2.4E-14 8.1E-19 102.2 4.5 51 118-170 10-60 (64)
74 2da7_A Zinc finger homeobox pr 99.3 7.8E-13 2.7E-17 95.0 3.5 46 117-165 14-59 (71)
75 1ic8_A Hepatocyte nuclear fact 99.3 3.1E-13 1.1E-17 117.0 1.3 60 106-168 113-193 (194)
76 2h8r_A Hepatocyte nuclear fact 99.2 3.3E-12 1.1E-16 112.0 3.9 58 106-166 140-218 (221)
77 1mh3_A Maltose binding-A1 home 99.1 1.3E-11 4.5E-16 117.2 2.7 55 110-167 367-421 (421)
78 2nzz_A Penetratin conjugated G 98.4 4.7E-08 1.6E-12 61.6 0.7 20 153-172 1-20 (37)
79 2ys9_A Homeobox and leucine zi 95.1 0.009 3.1E-07 42.5 2.0 41 117-160 15-55 (70)
80 3hug_A RNA polymerase sigma fa 70.3 6.1 0.00021 28.5 4.7 50 114-171 37-86 (92)
81 1hlv_A CENP-B, major centromer 62.1 8 0.00027 29.6 4.1 50 110-165 3-52 (131)
82 2o8x_A Probable RNA polymerase 61.1 5.6 0.00019 26.7 2.7 50 113-170 14-63 (70)
83 1p4w_A RCSB; solution structur 59.3 13 0.00045 27.6 4.7 52 110-170 30-81 (99)
84 2glo_A Brinker CG9653-PA; prot 59.2 4.9 0.00017 26.6 2.0 45 112-160 3-47 (59)
85 3c57_A Two component transcrip 56.7 11 0.00036 27.6 3.8 50 113-171 26-75 (95)
86 3mzy_A RNA polymerase sigma-H 56.6 16 0.00056 28.2 5.2 49 114-171 109-157 (164)
87 1je8_A Nitrate/nitrite respons 55.3 17 0.00057 25.6 4.6 49 113-170 20-68 (82)
88 1x3u_A Transcriptional regulat 51.6 13 0.00043 25.6 3.3 48 115-171 17-64 (79)
89 2rnj_A Response regulator prot 48.8 19 0.00063 25.8 4.0 50 113-171 28-77 (91)
90 1fse_A GERE; helix-turn-helix 48.2 22 0.00076 23.8 4.1 51 111-170 8-58 (74)
91 2elh_A CG11849-PA, LD40883P; s 46.5 36 0.0012 24.1 5.2 44 109-160 17-60 (87)
92 1tty_A Sigma-A, RNA polymerase 46.4 12 0.00042 26.7 2.6 55 114-172 18-72 (87)
93 1ku3_A Sigma factor SIGA; heli 46.2 27 0.00092 23.7 4.3 51 113-167 9-59 (73)
94 1xsv_A Hypothetical UPF0122 pr 41.6 36 0.0012 25.6 4.8 51 114-172 25-75 (113)
95 3lph_A Protein REV; helix-loop 41.1 15 0.0005 25.9 2.1 29 131-173 26-54 (72)
96 2p7v_B Sigma-70, RNA polymeras 41.0 15 0.0005 24.7 2.2 54 114-171 5-58 (68)
97 1s7o_A Hypothetical UPF0122 pr 40.5 27 0.00093 26.4 3.9 50 114-171 22-71 (113)
98 1or7_A Sigma-24, RNA polymeras 39.5 19 0.00065 28.9 3.0 50 114-171 140-189 (194)
99 2jpc_A SSRB; DNA binding prote 38.9 18 0.00061 23.4 2.3 29 142-170 17-45 (61)
100 1rp3_A RNA polymerase sigma fa 38.4 35 0.0012 28.1 4.7 50 113-170 186-235 (239)
101 1tc3_C Protein (TC3 transposas 36.5 28 0.00097 20.7 2.9 39 114-160 5-43 (51)
102 2jn6_A Protein CGL2762, transp 35.8 40 0.0014 24.1 4.1 43 112-161 3-46 (97)
103 2x7l_M HIV REV; nuclear export 35.8 9.2 0.00031 29.4 0.4 31 131-175 23-53 (115)
104 2q1z_A RPOE, ECF SIGE; ECF sig 35.3 19 0.00065 28.7 2.4 27 143-169 156-182 (184)
105 1iuf_A Centromere ABP1 protein 34.6 49 0.0017 25.9 4.7 49 109-162 6-60 (144)
106 3ulq_B Transcriptional regulat 31.2 72 0.0025 22.8 4.8 51 110-169 25-75 (90)
107 3t72_q RNA polymerase sigma fa 29.4 1.2E+02 0.0041 22.2 5.8 54 114-171 19-72 (99)
108 2xi8_A Putative transcription 28.9 20 0.00068 23.2 1.2 23 141-163 17-39 (66)
109 1jko_C HIN recombinase, DNA-in 28.8 17 0.0006 22.2 0.8 22 141-162 24-45 (52)
110 3bd1_A CRO protein; transcript 28.3 22 0.00075 24.4 1.4 23 141-163 14-36 (79)
111 2r1j_L Repressor protein C2; p 28.0 21 0.00072 23.2 1.2 24 141-164 21-44 (68)
112 3clo_A Transcriptional regulat 27.8 65 0.0022 27.6 4.7 50 113-171 196-245 (258)
113 1zug_A Phage 434 CRO protein; 26.7 22 0.00076 23.3 1.2 24 141-164 19-42 (71)
114 2lfw_A PHYR sigma-like domain; 24.5 35 0.0012 26.8 2.1 50 113-170 92-141 (157)
115 3bs3_A Putative DNA-binding pr 24.4 26 0.0009 23.4 1.2 23 141-163 26-48 (76)
116 2q0o_A Probable transcriptiona 24.0 85 0.0029 26.3 4.7 51 111-170 172-222 (236)
117 1adr_A P22 C2 repressor; trans 23.9 28 0.00095 23.2 1.2 24 141-164 21-44 (76)
118 3omt_A Uncharacterized protein 23.6 31 0.001 23.1 1.4 23 141-163 24-46 (73)
119 1r69_A Repressor protein CI; g 22.7 30 0.001 22.5 1.2 24 141-164 17-40 (69)
120 2b5a_A C.BCLI; helix-turn-heli 22.3 30 0.001 23.1 1.2 23 141-163 26-48 (77)
121 1l3l_A Transcriptional activat 22.2 1.2E+02 0.004 25.4 5.1 50 111-169 170-219 (234)
122 2x48_A CAG38821; archeal virus 21.4 35 0.0012 21.5 1.3 20 141-160 34-53 (55)
123 2a6c_A Helix-turn-helix motif; 21.0 38 0.0013 23.5 1.5 23 141-163 34-56 (83)
124 3b7h_A Prophage LP1 protein 11 20.7 34 0.0012 22.9 1.2 23 141-163 23-45 (78)
125 1y7y_A C.AHDI; helix-turn-heli 20.5 35 0.0012 22.5 1.2 23 141-163 29-51 (74)
126 1rzs_A Antirepressor, regulato 20.4 36 0.0012 22.5 1.2 19 141-159 13-31 (61)
No 1
>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=99.78 E-value=2.1e-19 Score=136.70 Aligned_cols=69 Identities=91% Similarity=1.376 Sum_probs=63.8
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhhHHHHH
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGKAQEEA 177 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~~~~~~ 177 (301)
||+|+.|+..|+.+|+.||.+|..++||+..++..||..+||++.||+|||+|||+|+|+.......+.
T Consensus 2 rr~R~~ft~~q~~~Le~~f~~h~~~~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~r~kk~~~~~~~~~ 70 (87)
T 1b72_B 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQEEA 70 (87)
T ss_dssp -CCCCCCCHHHHHHHHHHHHTTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHCGGGGHHHH
T ss_pred CCCCCCCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHhhhccccccccc
Confidence 688999999999999999999999999999999999999999999999999999999999887665543
No 2
>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=99.78 E-value=3.1e-20 Score=154.69 Aligned_cols=126 Identities=24% Similarity=0.337 Sum_probs=91.8
Q ss_pred HHHHHHHHHhHHHHHHHHHHhhcCCCCCChHHH-HHHHHHHhhhhhHHHHHHhhhHHHHHHHhh----------------
Q psy5541 40 LEKYEQACSEFTTHVMNLLREQSRTRPITPKEI-ERMVQIIHRKFSSIQMQLKQSTCEAVMILR---------------- 102 (301)
Q Consensus 40 l~ky~~~~~~f~~~~~~~l~~q~~~~~l~~~~~-~~~~~~~~~~f~~~~~~l~~~~~~~~~~l~---------------- 102 (301)
|+..+++++.|+.+.|.++.+|++++....... ..++++..++|..++..++ +.|..-..|.
T Consensus 2 ~~~l~~fa~~~k~~ri~lg~tQ~~vg~al~~l~g~~~Sqtti~rfe~l~ls~k-nm~kLkPlL~~wl~e~e~~~~~~~~~ 80 (146)
T 1au7_A 2 MRALEQFANEFKVRRIKLGYTQTNVGEALAAVHGSEFSQTTICRFENLQLSFK-NACKLKAILSKWLEEAEQVGALYNEK 80 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHTCCHHHHHHHHHHTTSSCCCHHHHHHHHTTCSBHH-HHHHHHHHHHHHHHHCCC--------
T ss_pred ccHHHHHHHHHHHHHHhccCcHHhhhhhcchhccCCCCcchHHHHhccCCChH-HHHhcchHHHHHHHHhhcccCccCcc
Confidence 345566799999999999999887653221111 1235666777777666554 3343221111
Q ss_pred -hhhhhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 103 -SRFLDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 103 -~~~~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
....++||+|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+||.
T Consensus 81 ~~~~~~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr~ 145 (146)
T 1au7_A 81 VGANERKRKRRTTISIAAKDALERHF---GEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQREKRV 145 (146)
T ss_dssp --------CCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHTTSC
T ss_pred cCCCCCCCCCCcCccHHHHHHHHHHH---HHcCCCCHHHHHHHHHHhCCChhhchhhhHhhhhhhhcc
Confidence 1123467789999999999999999 899999999999999999999999999999999999985
No 3
>2xsd_C POU domain, class 3, transcription factor 1; transcription-DNA complex, SOX; 2.05A {Mus musculus}
Probab=99.78 E-value=3e-20 Score=157.59 Aligned_cols=127 Identities=22% Similarity=0.292 Sum_probs=88.6
Q ss_pred HHHHHHHHhHHHHHHHHHHhhcCCCCCChHHH-HHHHHHHhhhhhHHHHHHhhhHHHHHHHhh-----------------
Q psy5541 41 EKYEQACSEFTTHVMNLLREQSRTRPITPKEI-ERMVQIIHRKFSSIQMQLKQSTCEAVMILR----------------- 102 (301)
Q Consensus 41 ~ky~~~~~~f~~~~~~~l~~q~~~~~l~~~~~-~~~~~~~~~~f~~~~~~l~~~~~~~~~~l~----------------- 102 (301)
+..+++++.|+.+.|.+..+|++++....... ..+.++.+++|+.++..++ +.|..-..+.
T Consensus 13 ~~l~~fa~~fk~~ri~lg~tQ~~vg~alg~l~g~~~Sqtti~rFE~l~ls~k-n~~klkPlL~~wl~eae~~~~~~~~~~ 91 (164)
T 2xsd_C 13 DDLEQFAKQFKQRRIKLGFTQADVGLALGTLYGNVFSQTTICRFEALQLSFK-NMCKLKPLLNKWLEETDSSSGSPTNLD 91 (164)
T ss_dssp HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHSCCCCHHHHHHHHTTCSBHH-HHHHHHHHHHHHHHHHCC---------
T ss_pred hHHHHHHHHHHHHHhhcCCcccccccccccccCCCcCcchhhhhhccCCCHH-HHHHcchhHHHHHhhhccccCCCcccc
Confidence 34456699999999999999988664322211 1235666777776666554 3343221111
Q ss_pred --hhhhhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 103 --SRFLDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 103 --~~~~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
....++||+|+.|+..|+.+|+.+| ..++||+..+|..||..+||++.||+|||||||+|+||...
T Consensus 92 ~~~~~~~~rr~Rt~ft~~Ql~~LE~~F---~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr~~~ 159 (164)
T 2xsd_C 92 KIAAQGRKRKKRTSIEVGVKGALESHF---LKCPKPSAHEITGLADSLQLEKEVVRVWFCNRRQKEKRMTP 159 (164)
T ss_dssp --------------CCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTBSCC
T ss_pred cccccccCCCCceeccHHHHHHHHHHH---hcCCCCCHHHHHHHHHHHCCChhhhhhhhHHhhHHHhhccC
Confidence 0123467789999999999999999 99999999999999999999999999999999999999764
No 4
>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=99.78 E-value=8.7e-20 Score=153.42 Aligned_cols=124 Identities=21% Similarity=0.295 Sum_probs=95.8
Q ss_pred HHHHHHHHhHHHHHHHHHHhhcCCCCCChHHHH-HHHHHHhhhhhHHHHHHhhhHHHHHHHhhhhh--------------
Q psy5541 41 EKYEQACSEFTTHVMNLLREQSRTRPITPKEIE-RMVQIIHRKFSSIQMQLKQSTCEAVMILRSRF-------------- 105 (301)
Q Consensus 41 ~ky~~~~~~f~~~~~~~l~~q~~~~~l~~~~~~-~~~~~~~~~f~~~~~~l~~~~~~~~~~l~~~~-------------- 105 (301)
+..+++++.|+.+.|.++.+|.+++........ .++++.+++|+.++..++ ++|.. .++..+|
T Consensus 10 ~~l~~fa~~fk~~ri~lg~tq~~vg~al~~l~G~~~Sqtti~rfE~l~ls~~-nm~kL-kPlL~~Wl~eae~~~~~~~~~ 87 (155)
T 3l1p_A 10 KELEQFAKLLKQKRITLGYTQADVGLTLGVLFGKVFSQTTISRFEALQLSLK-NMSKL-RPLLEKWVEEADNNENLQEIS 87 (155)
T ss_dssp HHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHSCCCCHHHHHHHHTTCSCHH-HHHHH-HHHHHHHHHHHTTCHHHHHSS
T ss_pred HHHHHHHHHHHhhhheecccHHHHHHHHHhhcCcccccccccccccccCChh-hHhhc-chHHHHHhhhhhcccCccccc
Confidence 344445999999999999999887743333222 355777888888777665 33432 2221111
Q ss_pred ------hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 106 ------LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 106 ------~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
.++||+|+.|+..|+..|+.+| ..++||+..++..||..+||++.||+|||||||+|+||.
T Consensus 88 ~~~~~~~~~rr~Rt~ft~~Q~~~Le~~F---~~~~yps~~~r~~LA~~l~L~~~qV~vWFqNRR~k~Kr~ 154 (155)
T 3l1p_A 88 KSETLVQARKRKRTSIENRVRWSLETMF---LKSPKPSLQQITHIANQLGLEKDVVRVWFSNRRQKGKRS 154 (155)
T ss_dssp CC---CCCSCCCCCCCCHHHHHHHHTTT---TTCSCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHC-
T ss_pred cccccccCCCCCCcccCHHHHHHHHHHH---ccCCCCCHHHHHHHHHHcCCChhheeeccccccccccCC
Confidence 1467889999999999999999 999999999999999999999999999999999999984
No 5
>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=99.78 E-value=1.7e-19 Score=151.05 Aligned_cols=126 Identities=23% Similarity=0.367 Sum_probs=85.9
Q ss_pred HHHHHHHHHhHHHHHHHHHHhhcCCCCCChHH-HHHHHHHHhhhhhHHHH--------------HHhhhHHH-------H
Q psy5541 40 LEKYEQACSEFTTHVMNLLREQSRTRPITPKE-IERMVQIIHRKFSSIQM--------------QLKQSTCE-------A 97 (301)
Q Consensus 40 l~ky~~~~~~f~~~~~~~l~~q~~~~~l~~~~-~~~~~~~~~~~f~~~~~--------------~l~~~~~~-------~ 97 (301)
++..+++++.|+.+.|.++.+|++++...... ...++++.+++|..+.. |+.+.... .
T Consensus 3 ~~~~~~fa~~f~~~ri~lg~tQ~~vg~al~~l~g~~~Sqsti~rfe~l~ls~kn~~klkPll~~Wl~e~e~~~~~~~~~~ 82 (151)
T 3d1n_I 3 MEEIREFAKNFKIRRLSLGLTQTQVGQAMTATEGPAYSQSAISRFEKLDITPKSAQKLKPVLEKWLNEAELRNQEGQQNL 82 (151)
T ss_dssp HHHHHHHHHHHHHHHHTTTCCHHHHHHHHSCSSSCCCCHHHHHHHHTTCSCHHHHHHHHHHHHHHHHHHHHHHHHCSTTH
T ss_pred HHHHHHHHHHHHHHHhhcCCCcccHHHhhccccCCCCCccccccccCCCCChhHHHHhchhHHHHHHHHHhccccCcccc
Confidence 45556679999999999988887653110000 00122333334433222 22111100 0
Q ss_pred HHHhhhhhhhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhh
Q psy5541 98 VMILRSRFLDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168 (301)
Q Consensus 98 ~~~l~~~~~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk 168 (301)
.........++||+|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+||
T Consensus 83 ~~~~~~~~~~~rr~Rt~ft~~q~~~Le~~F---~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNrR~k~Kk 150 (151)
T 3d1n_I 83 MEFVGGEPSKKRKRRTSFTPQAIEALNAYF---EKNPLPTGQEITEMAKELNYDREVVRVWFSNRRQTLKN 150 (151)
T ss_dssp HHHHCSSCCCCCCCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHTC
T ss_pred cccCCCCCCCCCCCCcccCHHHHHHHHHHH---HhcCCCCHHHHHHHHHHHCCCHHHhHHHHHHHHhccCC
Confidence 011112234567889999999999999999 88999999999999999999999999999999999987
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=99.77 E-value=2.7e-19 Score=131.70 Aligned_cols=68 Identities=91% Similarity=1.385 Sum_probs=63.8
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhhHHHH
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGKAQEE 176 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~~~~~ 176 (301)
||+|+.|+..|+.+|+.||.+|..++||+..++..||..+||++.||+|||+|+|+|+|+.......+
T Consensus 2 rr~R~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~~~~~~~e 69 (73)
T 1puf_B 2 RRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQEE 69 (73)
T ss_dssp CCCCCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHCTTTTTTH
T ss_pred CCCCCcCCHHHHHHHHHHHHHhccCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHhhccccccccccc
Confidence 68899999999999999999999999999999999999999999999999999999999987765544
No 7
>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=99.76 E-value=6.3e-19 Score=133.01 Aligned_cols=66 Identities=35% Similarity=0.636 Sum_probs=61.8
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+++++|+.|+.+++.+|+.||.+|..+|||+..+|..||..+||++.||+|||||+|+|+|+...
T Consensus 5 ~~~rk~R~~~s~~q~~~L~~~f~~~~~~pYPs~~~r~~LA~~~gLs~~qV~~WFqNrR~r~k~~~~ 70 (83)
T 2dmn_A 5 SSGKKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRRILPDML 70 (83)
T ss_dssp CCCCCCCSSCCHHHHHHHHHHHHHTTTTCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHTHHHHT
T ss_pred CCCCCCCCcCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHCcCHHHhhHHhhhhHhhhcHHHH
Confidence 356788999999999999999999999999999999999999999999999999999999998754
No 8
>1du6_A PBX1, homeobox protein PBX1; homeodomain, gene regulation; NMR {Mus musculus} SCOP: a.4.1.1
Probab=99.75 E-value=4e-19 Score=127.41 Aligned_cols=63 Identities=79% Similarity=1.245 Sum_probs=59.9
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
.++++|+.|+.+++.+|+.||.+|..++||+..++..||..+||++.||+|||+|+|+|+||.
T Consensus 2 ~~rr~R~~ft~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~ 64 (64)
T 1du6_A 2 SGHIEGRHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKN 64 (64)
T ss_dssp CCCCCCCSSTTTHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTSCHHHHHHHHHHHTTTSSCC
T ss_pred CCCCCCCcCCHHHHHHHHHHHHHcccCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHhccC
Confidence 357889999999999999999999999999999999999999999999999999999999873
No 9
>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=99.75 E-value=1.1e-18 Score=128.34 Aligned_cols=65 Identities=34% Similarity=0.684 Sum_probs=61.4
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+.+++|+.|+..++.+|+.||..|..++||+..++..||..+||++.||+|||+|+|+|+|+...
T Consensus 6 ~~rr~R~~~~~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~~L~~~qV~~WFqNrR~r~kk~~~ 70 (73)
T 1x2n_A 6 SGKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRRILQSGP 70 (73)
T ss_dssp SSCCSSCCCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHTTT
T ss_pred CCCCCCCcCCHHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHCcCHHHHHHHhHHHHhhcccccc
Confidence 45788999999999999999998889999999999999999999999999999999999999764
No 10
>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=99.72 E-value=1.6e-18 Score=146.41 Aligned_cols=126 Identities=21% Similarity=0.312 Sum_probs=82.1
Q ss_pred HHHHHHHHHhHHHHHHHHHHhhcCCCCCChHHH-HHHHHHHhhhhhHHHHHHhhhHHHHHHH------------------
Q psy5541 40 LEKYEQACSEFTTHVMNLLREQSRTRPITPKEI-ERMVQIIHRKFSSIQMQLKQSTCEAVMI------------------ 100 (301)
Q Consensus 40 l~ky~~~~~~f~~~~~~~l~~q~~~~~l~~~~~-~~~~~~~~~~f~~~~~~l~~~~~~~~~~------------------ 100 (301)
++..++++..|..+.+.++.+|+.++....... ..+.++..++|..++..++ .+|..-..
T Consensus 6 ~~~~~~~~~~~k~~r~~lg~tQ~~vg~~lg~l~g~~~sq~ti~rfE~l~lS~k-nm~klkPlL~~WL~e~e~~~~~~~~~ 84 (160)
T 1e3o_C 6 LEELEQFAKTFKQRRIKLGFTQGDVGLAMGKLYGNDFSQTTISRFEALNLSFK-NMSKLKPLLEKWLNDAEANLSSDSSL 84 (160)
T ss_dssp HHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHSCCCCHHHHHHHHHTCSCHH-HHHHHHHHHHHHHHHHC---------
T ss_pred HHHHHHHHHHHHHHHHHcCCCHHHHHHhhccccCCCcCccccccccccCCChH-HHHhcchhHHHHHHhhhcccccCCCC
Confidence 345566688899999888777765442211100 0112333444444332222 11111000
Q ss_pred -----h----hhhhhhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 101 -----L----RSRFLDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 101 -----l----~~~~~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
. .....++||+|+.|+..|+.+|+.+| ..++||+..+|..||..+||++.||+|||||||+|+||.
T Consensus 85 ~s~~~~~~~~~~~~~~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr~ 159 (160)
T 1e3o_C 85 SSPSALNSPGIEGLSRRRKKRTSIETNIRVALEKSF---MENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKRI 159 (160)
T ss_dssp -------------------CCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTSC
T ss_pred CCCCCcCCCCCCCCCCCCcCccccCHHHHHHHHHHH---hhcCCCCHHHHHHHHHHHCCChHHhhHhhHHhhhhhhcc
Confidence 0 01123567899999999999999999 899999999999999999999999999999999999985
No 11
>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=99.71 E-value=9e-18 Score=118.78 Aligned_cols=59 Identities=27% Similarity=0.566 Sum_probs=55.7
Q ss_pred CCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 111 KRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 111 ~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
+|+.|+.+|+.+|+.||..|..++||+..++..||..+||++.||++||+|||+|+|+.
T Consensus 1 rr~~ft~~q~~~Le~~f~~~~~~~yp~~~~r~~La~~~gl~~~qV~~WFqNrR~r~kk~ 59 (60)
T 1k61_A 1 RGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKTI 59 (60)
T ss_dssp CCCSCCHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCC
T ss_pred CcCcCCHHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHcccccC
Confidence 46899999999999999777779999999999999999999999999999999999974
No 12
>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=99.71 E-value=5.8e-18 Score=120.22 Aligned_cols=59 Identities=31% Similarity=0.522 Sum_probs=53.1
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk 168 (301)
+.+|+|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||
T Consensus 2 ~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk 60 (61)
T 2hdd_A 2 AEKRPRTAFSSEQLARLKREF---NENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60 (61)
T ss_dssp -----CCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHT
T ss_pred CCCCCCCCCCHHHHHHHHHHH---HccCCCCHHHHHHHHHHHCcCHHHHHHHhhhhcccccc
Confidence 357899999999999999999 89999999999999999999999999999999999987
No 13
>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=99.70 E-value=9.3e-18 Score=121.49 Aligned_cols=60 Identities=40% Similarity=0.714 Sum_probs=53.8
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGK 172 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~ 172 (301)
..|+++++.+|+.||.+|..+|||+..+|..||..+||++.||+|||+|+|+|+||+...
T Consensus 3 g~f~~~~~~~L~~~f~~h~~~pyp~~~~r~~La~~~~l~~~qV~~WFqNrR~r~kk~~~~ 62 (67)
T 3k2a_A 3 GIFPKVATNIMRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRRIVQPMID 62 (67)
T ss_dssp ---CHHHHHHHHHHHHHTTTSCCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHSCC--
T ss_pred CcCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHhCcCHHHhhhhhHHHHHHHhHHHHH
Confidence 579999999999999999999999999999999999999999999999999999997654
No 14
>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=99.70 E-value=1.2e-17 Score=125.95 Aligned_cols=63 Identities=24% Similarity=0.476 Sum_probs=57.6
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+++|+.|+.+|+.+|+.||..|..++||+..++..||..+||++.||+|||||||+|+|+...
T Consensus 3 ~krr~rft~~q~~~Le~~f~~h~~~~yP~~~~r~~La~~~gLt~~qV~~WFqNrR~r~kk~~~ 65 (83)
T 1le8_B 3 PYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAKEKTITI 65 (83)
T ss_dssp --CCCCCCHHHHHHHHHHHHHTSSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTTSCC
T ss_pred CCCCCCCCHHHHHHHHHHHHhhCCCCCcCHHHHHHHHHHHCCCHHHcccccHHHHcccccccc
Confidence 355667999999999999988888999999999999999999999999999999999999754
No 15
>2cue_A Paired box protein PAX6; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.70 E-value=2.3e-17 Score=123.52 Aligned_cols=64 Identities=27% Similarity=0.544 Sum_probs=59.9
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhhH
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGKA 173 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~~ 173 (301)
+.+++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+||.....
T Consensus 6 ~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~~~~ 69 (80)
T 2cue_A 6 SGQRNRTSFTQEQIEALEKEF---ERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRREEKLR 69 (80)
T ss_dssp SSCCCCCCSCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCccCHHHHHHHHHHH---hccCCCCHHHHHHHHHHhCCCHHHhhHHHHHHHHHHHHHhhhh
Confidence 467899999999999999999 9999999999999999999999999999999999999976543
No 16
>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=99.70 E-value=5.6e-18 Score=122.18 Aligned_cols=62 Identities=26% Similarity=0.409 Sum_probs=58.6
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+++++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+|+...
T Consensus 2 k~rr~Rt~ft~~q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~~~ 63 (66)
T 1bw5_A 2 KTTRVRTVLNEKQLHTLRTCY---AANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKRSI 63 (66)
T ss_dssp CCSCCCCCCSHHHHHHHHHHH---HHCSCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHCSSCCC
T ss_pred CCCCCCCCCCHHHHHHHHHHH---hcCCCcCHHHHHHHHHHHCcCHHHHHHHhHHHHHHHhHHhh
Confidence 467899999999999999999 88999999999999999999999999999999999998753
No 17
>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=99.70 E-value=9.4e-18 Score=123.81 Aligned_cols=59 Identities=20% Similarity=0.420 Sum_probs=55.8
Q ss_pred CCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 110 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 110 r~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+|+.|+.+|+.+|+.+| ..++||+..+|++||..|||++.||+|||+|+|+|+|+...
T Consensus 5 ~~r~kfT~~Ql~~Le~~F---~~~~YPs~~er~~LA~~tgLte~qIkvWFqNrR~k~Kk~~l 63 (76)
T 2ecc_A 5 SSGKRKTKEQLAILKSFF---LQCQWARREDYQKLEQITGLPRPEIIQWFGDTRYALKHGQL 63 (76)
T ss_dssp CCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHTCC
T ss_pred CCCCCCCHHHHHHHHHHH---HHCCCCCHHHHHHHHHHHCcCHHHhhHHhHhhHHHHHHHHH
Confidence 467889999999999999 89999999999999999999999999999999999999754
No 18
>2h1k_A IPF-1, pancreatic and duodenal homeobox 1, homeodomain; protein-DNA complex, transcription/DNA complex; 2.42A {Mesocricetus auratus}
Probab=99.70 E-value=1e-17 Score=119.74 Aligned_cols=59 Identities=32% Similarity=0.542 Sum_probs=55.7
Q ss_pred cCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 108 ~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
.+++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||.
T Consensus 3 ~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~kk~ 61 (63)
T 2h1k_A 3 NKRTRTAYTRAQLLELEKEF---LFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKE 61 (63)
T ss_dssp --CCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCcCHHHHHHHHHHH---hcCCCcCHHHHHHHHHHhCcCHHHhhHHHHhhhhhhhhh
Confidence 47899999999999999999 899999999999999999999999999999999999986
No 19
>1ig7_A Homeotic protein MSX-1; helix-turn-helix, transcription/DNA complex; 2.20A {Mus musculus} SCOP: a.4.1.1
Probab=99.70 E-value=1.4e-17 Score=117.02 Aligned_cols=57 Identities=28% Similarity=0.468 Sum_probs=55.1
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhh
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk 168 (301)
|++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||
T Consensus 1 rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kr 57 (58)
T 1ig7_A 1 RKPRTPFTTAQLLALERKF---RQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57 (58)
T ss_dssp CCCCCCCCHHHHHHHHHHH---HHCSCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHH---hcCCCcCHHHHHHHHHHHCcCHHHhhhhhhHhhhhhcc
Confidence 5789999999999999999 89999999999999999999999999999999999987
No 20
>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=99.70 E-value=1.7e-17 Score=126.19 Aligned_cols=62 Identities=26% Similarity=0.537 Sum_probs=58.0
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk 168 (301)
+++++|+.|+.+|+.+|+.||..|..++||+..+|..||..+||++.||+|||+|||+|+|.
T Consensus 26 ~~~k~r~~ft~~q~~~Le~~f~~~~~~~yP~~~~r~~La~~~gL~~~qV~~WFqNrR~r~k~ 87 (87)
T 1mnm_C 26 TKPYRGHRFTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEKT 87 (87)
T ss_dssp SSCCTTCCCCHHHHHHHHHHHHHTTSSCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTC
T ss_pred CCCCCCCcCCHHHHHHHHHHHHHhCCCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHhhccC
Confidence 45677899999999999999988888999999999999999999999999999999999874
No 21
>2dmu_A Homeobox protein goosecoid; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.69 E-value=1.3e-17 Score=121.72 Aligned_cols=62 Identities=31% Similarity=0.607 Sum_probs=58.5
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+.+|+|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||...
T Consensus 6 ~~rr~Rt~ft~~q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~rr~~~ 67 (70)
T 2dmu_A 6 SGRRHRTIFTDEQLEALENLF---QETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRRSGP 67 (70)
T ss_dssp SSCCCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHTST
T ss_pred CCCCCCCCCCHHHHHHHHHHH---HccCCCCHHHHHHHHHHHCCCHHHeehccccccccccccCC
Confidence 467899999999999999999 88999999999999999999999999999999999999653
No 22
>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=99.69 E-value=9.3e-18 Score=122.46 Aligned_cols=62 Identities=23% Similarity=0.460 Sum_probs=58.5
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+.+++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+||...
T Consensus 6 ~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kk~~~ 67 (70)
T 2cra_A 6 SGRKKRIPYSKGQLRELEREY---AANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKKSGP 67 (70)
T ss_dssp CCCCSCCCSCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHTTTSSCT
T ss_pred CCCCCCCcCCHHHHHHHHHHH---HhcCCCCHHHHHHHHHHHCCCHHHhhHhhHhHHHHhcccCC
Confidence 467899999999999999999 89999999999999999999999999999999999999653
No 23
>2djn_A Homeobox protein DLX-5; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=99.69 E-value=1.5e-17 Score=121.30 Aligned_cols=61 Identities=31% Similarity=0.428 Sum_probs=58.2
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
+.+++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||..
T Consensus 6 ~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~~ 66 (70)
T 2djn_A 6 SGRKPRTIYSSFQLAALQRRF---QKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKKSG 66 (70)
T ss_dssp CCCCSSCSSCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHSSCCHHHHHHHHHHHHHTCSSSS
T ss_pred CCCCCCCCCCHHHHHHHHHHH---cCCCCCCHHHHHHHHHHhCCCHHHHHHHHHHHhhhhcccC
Confidence 467899999999999999999 9999999999999999999999999999999999999864
No 24
>1zq3_P PRD-4, homeotic bicoid protein; protein-DNA complex, double helix, helix-turn-helix; NMR {Drosophila melanogaster} SCOP: a.4.1.1
Probab=99.69 E-value=3.1e-17 Score=118.98 Aligned_cols=61 Identities=30% Similarity=0.453 Sum_probs=58.2
Q ss_pred cCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 108 ~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
++++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.+|+|||+|||+|+|+...
T Consensus 2 ~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNRR~k~kk~~~ 62 (68)
T 1zq3_P 2 PRRTRTTFTSSQIAELEQHF---LQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQSD 62 (68)
T ss_dssp CSCCSCCCCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCCCCCcCHHHHHHHHHHH---hcCCCcCHHHHHHHHHHhCcCHHHhhHhhHHHHHHHHHHhc
Confidence 47899999999999999999 99999999999999999999999999999999999999754
No 25
>2vi6_A Homeobox protein nanog; homeodomain, DNA-binding, transcription, transcription facto developmental protein, transcription regulation, NUC homeobox; 2.6A {Mus musculus}
Probab=99.69 E-value=1.1e-17 Score=119.13 Aligned_cols=59 Identities=29% Similarity=0.476 Sum_probs=52.8
Q ss_pred cCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 108 ~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
++++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.+|++||+|||+|+||.
T Consensus 3 ~rr~Rt~ft~~q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~kr~ 61 (62)
T 2vi6_A 3 KQKMRTVFSQAQLCALKDRF---QKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRW 61 (62)
T ss_dssp -----CCCCHHHHHHHHHHH---HHCSCCCHHHHHHHHHHHTCCHHHHHHHHHHHHHTCGGG
T ss_pred CCCCCCCCCHHHHHHHHHHH---HhCCCCCHHHHHHHHHHhCCCHHHhhHHhHHhhcchhhc
Confidence 46889999999999999999 899999999999999999999999999999999999985
No 26
>2k40_A Homeobox expressed in ES cells 1; thermostable homeodomain variant, DNA binding protein, developmental protein, disease mutation, DNA-binding; NMR {Homo sapiens}
Probab=99.69 E-value=2.1e-17 Score=119.50 Aligned_cols=61 Identities=34% Similarity=0.639 Sum_probs=57.9
Q ss_pred cCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 108 ~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+|++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+|+...
T Consensus 1 ~rr~Rt~ft~~q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kr~~~ 61 (67)
T 2k40_A 1 GRRPRTAFTQNQIEVLENVF---RVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHR 61 (67)
T ss_dssp CCCCSCCCCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHCSCC
T ss_pred CcCCCCCCCHHHHHHHHHHH---HhcCCCCHHHHHHHHHHHCcCHHHhhHhhHhHHHHHhHhch
Confidence 36889999999999999999 99999999999999999999999999999999999998754
No 27
>1jgg_A Segmentation protein EVEN-skipped; homeodomain, protein-DNA complex, transcription/DNA complex; 2.00A {Drosophila melanogaster} SCOP: a.4.1.1
Probab=99.69 E-value=1.6e-17 Score=117.51 Aligned_cols=58 Identities=31% Similarity=0.533 Sum_probs=55.3
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
|++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|+|+|+||+
T Consensus 2 rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kr~ 59 (60)
T 1jgg_A 2 RRYRTAFTRDQLGRLEKEF---YKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59 (60)
T ss_dssp -CCCCCCCHHHHHHHHHHH---HHCSCCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHC
T ss_pred CCCCCCCCHHHHHHHHHHH---HHcCCCCHHHHHHHHHHHCcCHHHHHHhhHHHHhHhhcc
Confidence 5789999999999999999 889999999999999999999999999999999999985
No 28
>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=99.69 E-value=1.5e-17 Score=121.32 Aligned_cols=63 Identities=25% Similarity=0.495 Sum_probs=59.0
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+.+++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||...
T Consensus 5 ~~~rr~Rt~ft~~q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~kk~~~ 67 (70)
T 2da2_A 5 SSGRSSRTRFTDYQLRVLQDFF---DANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARKSGP 67 (70)
T ss_dssp CCSCCCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHSCCCHHHHHHHHHHHHHHHCCCSS
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---HcCCCcCHHHHHHHHHHhCCCHHHhHHhhHhhhHHHhhccc
Confidence 3567899999999999999999 88999999999999999999999999999999999999654
No 29
>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=99.68 E-value=1.5e-17 Score=120.63 Aligned_cols=62 Identities=34% Similarity=0.595 Sum_probs=58.7
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+++++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+|+...
T Consensus 2 ~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~rk~~~ 63 (68)
T 1yz8_P 2 SQRRQRTHFTSQQLQQLEATF---QRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKREE 63 (68)
T ss_dssp CSSCSCCCCCHHHHHHHHHHH---TTCSSCCTTTTTHHHHHTTSCHHHHHHHHHHHHHHHHHHTT
T ss_pred CCCCCCCCCCHHHHHHHHHHH---HccCCCCHHHHHHHHHHHCcCHHHHHHHHHHHhHHHHHHhh
Confidence 357899999999999999999 99999999999999999999999999999999999999754
No 30
>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=99.68 E-value=1.4e-17 Score=124.68 Aligned_cols=63 Identities=27% Similarity=0.431 Sum_probs=58.8
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+.+|+|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+||...
T Consensus 15 ~~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kk~~~ 77 (80)
T 2dmt_A 15 KKGRRSRTVFTELQLMGLEKRF---EKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKWKKSGP 77 (80)
T ss_dssp CCCCCSCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHSCCCS
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---HhcCCCCHHHHHHHHHHhCCCHHHeeeccHHHHHHhhcccC
Confidence 3467889999999999999999 89999999999999999999999999999999999999653
No 31
>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=99.68 E-value=1.3e-17 Score=118.31 Aligned_cols=58 Identities=40% Similarity=0.575 Sum_probs=48.1
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~k 167 (301)
+.+++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||+|||+|||+|+|
T Consensus 4 k~rr~Rt~ft~~q~~~Le~~f---~~~~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~k~k 61 (61)
T 1akh_A 4 KSPKGKSSISPQARAFLEEVF---RRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61 (61)
T ss_dssp --------CCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-
T ss_pred CCCCCCCCCCHHHHHHHHHHH---HhCCCcCHHHHHHHHHHHCcCHHHHHHHHHHHHhccC
Confidence 457889999999999999999 8889999999999999999999999999999999975
No 32
>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=99.68 E-value=2.5e-17 Score=120.16 Aligned_cols=62 Identities=23% Similarity=0.439 Sum_probs=58.3
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+.+++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+|+...
T Consensus 6 ~~~r~R~~ft~~q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~rr~~~ 67 (70)
T 2e1o_A 6 SGKGGQVRFSNDQTIELEKKF---ETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRRSGP 67 (70)
T ss_dssp CCCCCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHSC
T ss_pred CCCCCCCCCCHHHHHHHHHHH---HcCCCcCHHHHHHHHHHHCCCHHHhhHhhHhhHhhcCCCCC
Confidence 457889999999999999999 89999999999999999999999999999999999999653
No 33
>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=99.68 E-value=1.3e-17 Score=121.69 Aligned_cols=63 Identities=25% Similarity=0.455 Sum_probs=59.0
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+.+++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||...
T Consensus 5 ~~~rr~Rt~ft~~q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~kk~~~ 67 (70)
T 2da1_A 5 SSGKRPRTRITDDQLRVLRQYF---DINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQSGP 67 (70)
T ss_dssp CCCCSCSCCCCHHHHHHHHHHH---HHCSSCCTTHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCC
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---HHCCCCCHHHHHHHHHHhCCCHHHHHHHhhhhhHHHhhhcc
Confidence 3567899999999999999999 89999999999999999999999999999999999999754
No 34
>2l7z_A Homeobox protein HOX-A13; gene regulation; NMR {Homo sapiens} PDB: 2ld5_A*
Probab=99.68 E-value=2.1e-17 Score=121.63 Aligned_cols=63 Identities=27% Similarity=0.541 Sum_probs=59.4
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+++++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||++||||||+|+||...
T Consensus 5 ~~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~~ 67 (73)
T 2l7z_A 5 LEGRKKRVPYTKVQLKELEREY---ATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVIN 67 (73)
T ss_dssp SCCCCCCCCSCHHHHHHHHHHH---HHTSCCCHHHHHHHHHHHTSCSHHHHHHHHHHHHHHTTSSS
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---hhCCCcCHHHHHHHHHHHCCCHHHHHHHHHHHhHHHHHHhc
Confidence 4568899999999999999999 89999999999999999999999999999999999999754
No 35
>2da4_A Hypothetical protein DKFZP686K21156; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.68 E-value=2e-17 Score=123.82 Aligned_cols=61 Identities=26% Similarity=0.432 Sum_probs=57.4
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCC----CCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSN----PYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~----~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
.+++++|+.|+.+|+.+|+.+| ..+ +||+..++.+||..+||++.||+|||||||+|+|+.
T Consensus 6 ~~~rr~Rt~ft~~Q~~~Le~~F---~~~~~~~~yp~~~~r~~La~~lgL~~~qV~vWFqNrR~k~rk~ 70 (80)
T 2da4_A 6 SGALQDRTQFSDRDLATLKKYW---DNGMTSLGSVCREKIEAVATELNVDCEIVRTWIGNRRRKYRLM 70 (80)
T ss_dssp CCCCCSSCCCCHHHHHHHHHHH---TTTTTCCSHHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---HhCCCCCCCcCHHHHHHHHHHhCCCHHHhhHhHHHHHHHHhhc
Confidence 3567889999999999999999 788 999999999999999999999999999999999985
No 36
>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=99.68 E-value=1.8e-17 Score=120.27 Aligned_cols=61 Identities=26% Similarity=0.490 Sum_probs=57.8
Q ss_pred cCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 108 ~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
++++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||++||||||+|+||...
T Consensus 2 ~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~vWFqNRR~k~kk~~~ 62 (68)
T 1ahd_P 2 RKRGRQTYTRYQTLELEKEF---HFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKENK 62 (68)
T ss_dssp CSCTTCCCCHHHHHHHHHHH---HHCSSCCTTHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHSC
T ss_pred CCCCCCCcCHHHHHHHHHHH---ccCCCCCHHHHHHHHHHHCcCHhhhhHHhHHHHhHHhHhcc
Confidence 36889999999999999999 89999999999999999999999999999999999999754
No 37
>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=99.68 E-value=2.7e-17 Score=123.02 Aligned_cols=62 Identities=26% Similarity=0.542 Sum_probs=58.6
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+.||+|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||+|||+|||+|+||...
T Consensus 6 ~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~~~ 67 (80)
T 2dmq_A 6 SGKRMRTSFKHHQLRTMKSYF---AINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNLL 67 (80)
T ss_dssp CCCCCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCHHHHHHHHHHH---HHcCCCCHHHHHHHHHHhCCCHHHhhHccHHHHHHHHHHHH
Confidence 467899999999999999999 89999999999999999999999999999999999999753
No 38
>3rkq_A Homeobox protein NKX-2.5; helix-turn-helix, DNA binding, nucleus, transcription-DNA CO; 1.70A {Homo sapiens}
Probab=99.68 E-value=5.1e-17 Score=113.82 Aligned_cols=57 Identities=32% Similarity=0.463 Sum_probs=54.6
Q ss_pred cCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhh
Q psy5541 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167 (301)
Q Consensus 108 ~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~k 167 (301)
++++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||++||||||+|+|
T Consensus 2 ~rr~Rt~~t~~q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~k 58 (58)
T 3rkq_A 2 RRKPRVLFSQAQVYELERRF---KQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58 (58)
T ss_dssp CCCCCCCCCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHC
T ss_pred cCCCCCCcCHHHHHHHHHHH---HHcCCCCHHHHHHHHHHhCcCHHHHHHhhHHhhccCC
Confidence 46789999999999999999 9999999999999999999999999999999999976
No 39
>2dms_A Homeobox protein OTX2; homeobox domain, three helices with the DNA binding helix- turn-helix motif, structural genomics, NPPSFA; NMR {Mus musculus}
Probab=99.67 E-value=3e-17 Score=122.87 Aligned_cols=63 Identities=30% Similarity=0.560 Sum_probs=59.2
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+.+|+|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.+|+|||+|||+|+|+...
T Consensus 5 ~~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNRR~k~rk~~~ 67 (80)
T 2dms_A 5 SSGRRERTTFTRAQLDVLEALF---AKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCRQQQQ 67 (80)
T ss_dssp CCCCCCCSSCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHTHHHHTTC
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---HccCCCCHHHHHHHHHHHCcCHHHhhhhhHHHhHHhhHHHH
Confidence 3567899999999999999999 89999999999999999999999999999999999999754
No 40
>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=99.67 E-value=3.7e-17 Score=121.51 Aligned_cols=63 Identities=30% Similarity=0.431 Sum_probs=58.6
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+++++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+|+...
T Consensus 7 ~~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNRR~k~kr~~~ 69 (77)
T 1nk2_P 7 NKKRKRRVLFTKAQTYELERRF---RQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKRAQN 69 (77)
T ss_dssp CCCCCCCCCCCHHHHHHHHHHH---HHCSCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCccCCHHHHHHHHHHH---hhcCCCCHHHHHHHHHHhCCCHHHHHHHhHHhhcchhhhhc
Confidence 3467889999999999999999 89999999999999999999999999999999999998644
No 41
>1ftt_A TTF-1 HD, thyroid transcription factor 1 homeodomain; DNA binding protein; NMR {Rattus norvegicus} SCOP: a.4.1.1
Probab=99.67 E-value=3.3e-17 Score=118.89 Aligned_cols=61 Identities=31% Similarity=0.462 Sum_probs=58.0
Q ss_pred cCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 108 ~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
++++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.+|++||+|||+|+|+...
T Consensus 2 ~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kr~~~ 62 (68)
T 1ftt_A 2 RRKRRVLFSQAQVYELERRF---KQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQAK 62 (68)
T ss_dssp CSSSCSSCCHHHHHHHHHHH---HHSSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTS
T ss_pred CCCCCCccCHHHHHHHHHHH---HhCCCCCHHHHHHHHHHhCCCHHHhHHHhHHHhhhhhhhhh
Confidence 46889999999999999999 89999999999999999999999999999999999999754
No 42
>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=99.67 E-value=3.5e-17 Score=122.73 Aligned_cols=63 Identities=33% Similarity=0.564 Sum_probs=58.5
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+++++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||...
T Consensus 16 ~~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNrR~k~rk~~~ 78 (81)
T 1fjl_A 16 RKQRRSRTTFSASQLDELERAF---ERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRKQHT 78 (81)
T ss_dssp -CCCCCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---HHcCCCCHHHHHHHHHHHCcCHHHHHHHHHHHhhhhhhhcc
Confidence 3567889999999999999999 88999999999999999999999999999999999999753
No 43
>3a01_A Homeodomain-containing protein; homeodomain, protein-DNA complex, DNA-binding, homeobox, NUC developmental protein; 2.70A {Drosophila melanogaster}
Probab=99.67 E-value=2.9e-17 Score=126.44 Aligned_cols=67 Identities=24% Similarity=0.500 Sum_probs=60.5
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhhHHH
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGKAQE 175 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~~~~ 175 (301)
.+++++|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+|+......+
T Consensus 15 ~~~rr~Rt~ft~~Ql~~Le~~F---~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kr~~~~~~~ 81 (93)
T 3a01_A 15 PKRKKPRTSFTRIQVAELEKRF---HKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRRQTAEERE 81 (93)
T ss_dssp CCCCCCCCCCCHHHHHHHHHHH---HHCSCCCHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHHHTCC--
T ss_pred CCCCCCCcCCCHHHHHHHHHHH---HcCCCcCHHHHHHHHHHhCCChhhcccccHhhhhhhhhhhHHHHH
Confidence 3567889999999999999999 899999999999999999999999999999999999998765443
No 44
>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=99.67 E-value=1.9e-17 Score=123.81 Aligned_cols=62 Identities=24% Similarity=0.424 Sum_probs=58.4
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
.+++|+|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+||..
T Consensus 15 ~~~rr~Rt~ft~~Ql~~Le~~f---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~~ 76 (80)
T 2da3_A 15 QRDKRLRTTITPEQLEILYQKY---LLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERKSG 76 (80)
T ss_dssp CCCTTCCSSCCTTTHHHHHHHH---HHCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHSSC
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---HhcCCCCHHHHHHHHHHHCcCHHHhHHHhHHHHHhHhhhc
Confidence 3467889999999999999999 8899999999999999999999999999999999999964
No 45
>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=99.67 E-value=5.1e-17 Score=120.73 Aligned_cols=62 Identities=35% Similarity=0.523 Sum_probs=58.5
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+.+++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||++||||||+|+|+...
T Consensus 12 ~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~k 73 (77)
T 1puf_A 12 STRKKRCPYTKHQTLELEKEF---LFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKKINK 73 (77)
T ss_dssp TTSCCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCHHHHHHHHHHH---hccCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHhhh
Confidence 457889999999999999999 89999999999999999999999999999999999999754
No 46
>2kt0_A Nanog, homeobox protein nanog; homeodomain, structural genomics, protein structure initiative, PSI, center for eukaryotic structural genomics; NMR {Homo sapiens}
Probab=99.66 E-value=3.5e-17 Score=123.51 Aligned_cols=63 Identities=29% Similarity=0.474 Sum_probs=58.9
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+++++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+||..+
T Consensus 20 ~~~rr~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~vWFqNRR~k~kk~~k 82 (84)
T 2kt0_A 20 VKKQKTRTVFSSTQLCVLNDRF---QRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKRWQK 82 (84)
T ss_dssp SCSCCCSSCCCHHHHHHHHHHH---HHSSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHTTTSCCC
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---HhCCCCCHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHhh
Confidence 3567889999999999999999 89999999999999999999999999999999999998653
No 47
>2r5y_A Homeotic protein sex combs reduced; homeodomain; HET: DNA; 2.60A {Drosophila melanogaster} PDB: 2r5z_A*
Probab=99.66 E-value=7.8e-17 Score=122.75 Aligned_cols=61 Identities=26% Similarity=0.528 Sum_probs=55.4
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
+.+|+|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+||..
T Consensus 27 ~~rr~Rt~ft~~Ql~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~vWFqNRR~k~kk~~ 87 (88)
T 2r5y_A 27 ETKRQRTSYTRYQTLELEKEF---HFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKEH 87 (88)
T ss_dssp ----CCCCCCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHTTC
T ss_pred CCCCCCCCcCHHHHHHHHHHH---hccCCCCHHHHHHHHHHhCcCHHHhhHHhHHHHHHhHhhc
Confidence 457899999999999999999 9999999999999999999999999999999999999864
No 48
>2lk2_A Homeobox protein TGIF1; NESG, structural genomics, northeast structural genomics CON PSI-biology, transcription; NMR {Homo sapiens}
Probab=99.66 E-value=6.5e-17 Score=122.60 Aligned_cols=60 Identities=33% Similarity=0.590 Sum_probs=56.5
Q ss_pred CCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 112 RRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 112 R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
...|+++++.+|+.||.+|..+|||+..+|.+||..|||++.||+|||+|+|+|+|+...
T Consensus 9 ~~~l~~~~~~iL~~W~~~h~~npYPs~~ek~~LA~~tgLt~~QV~~WF~NrR~R~kk~~~ 68 (89)
T 2lk2_A 9 SHMLPKESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRRLLPDML 68 (89)
T ss_dssp CCCCCHHHHHHHHHHHHHTSGGGSCCHHHHHHHHHHSSSCHHHHHHHHHHHHHHHHHHHH
T ss_pred cccCCHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHhhhHHH
Confidence 346899999999999999999999999999999999999999999999999999998754
No 49
>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=99.66 E-value=4.2e-17 Score=122.36 Aligned_cols=61 Identities=30% Similarity=0.522 Sum_probs=54.5
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
+.+|+|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||+|||+|||+|+||..
T Consensus 19 ~~rr~Rt~ft~~Ql~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~ 79 (81)
T 1b8i_A 19 LRRRGRQTYTRYQTLELEKEF---HTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKKEI 79 (81)
T ss_dssp -----CCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHTTC
T ss_pred CCCCCCcccCHHHHHHHHHHH---hcCCCCCHHHHHHHHHHhCCCHHHHHHHhHHhhhhhhhhc
Confidence 457889999999999999999 8999999999999999999999999999999999999974
No 50
>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=99.66 E-value=8.9e-17 Score=117.86 Aligned_cols=59 Identities=19% Similarity=0.328 Sum_probs=56.1
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCCC-CCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHLS-NPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~~-~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
.++|+.|+..|+.+|+.+| .. ++||+..++..||..+||++.||++||+|||+|+||..
T Consensus 2 ~k~Rt~ft~~Q~~~Le~~F---~~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~rk~~ 61 (72)
T 1uhs_A 2 SEGAATMTEDQVEILEYNF---NKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 61 (72)
T ss_dssp CCCCCCCCHHHHHHHHHHH---HSSCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCccCCHHHHHHHHHHH---HccCCCCCHHHHHHHHHHHCcCHHHhhHHhHHHHHHHhhhc
Confidence 4789999999999999999 85 99999999999999999999999999999999999964
No 51
>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=99.66 E-value=3.1e-17 Score=122.81 Aligned_cols=59 Identities=12% Similarity=0.205 Sum_probs=55.8
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCC----CCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLS----NPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~----~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk 168 (301)
++||+|+.|+.+|+..|+.+| .. ++||+..+|.+||..+||++.||+|||||||+|+|+
T Consensus 16 ~~rR~Rt~ft~~Ql~~Le~~f---~~~~~~~~yp~~~~r~~La~~lgL~~~~VkvWFqNrRaK~~~ 78 (80)
T 1wh5_A 16 IRKRHRTKFTAEQKERMLALA---ERIGWRIQRQDDEVIQRFCQETGVPRQVLKVWLHNNKHSGPS 78 (80)
T ss_dssp CSCCCSCCCCHHHHHHHHHHH---HHHTSCCCTTTHHHHHHHHHHSCCCHHHHHHHHHHHSSSSSC
T ss_pred CCCCCCccCCHHHHHHHHHHH---HhccCcCCCcCHHHHHHHHHHhCCCcccccCCccccCcCCCC
Confidence 467889999999999999999 66 999999999999999999999999999999999886
No 52
>3a02_A Homeobox protein aristaless; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.00A {Drosophila melanogaster} PDB: 3lnq_A 3cmy_A
Probab=99.66 E-value=4.8e-17 Score=115.05 Aligned_cols=57 Identities=30% Similarity=0.512 Sum_probs=50.4
Q ss_pred CCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 111 KRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 111 ~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
.|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||..
T Consensus 2 ~Rt~ft~~Q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~rk~~ 58 (60)
T 3a02_A 2 SHMTFTSFQLEELEKAF---SRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQE 58 (60)
T ss_dssp ---CCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHC---
T ss_pred CCcccCHHHHHHHHHHH---HcCCCcCHHHHHHHHHHHCcCHHHHHHHhhhhhhhhHhhc
Confidence 57899999999999999 8899999999999999999999999999999999999864
No 53
>2hi3_A Homeodomain-only protein; transcription; NMR {Mus musculus} SCOP: a.4.1.1
Probab=99.65 E-value=1.3e-16 Score=117.36 Aligned_cols=59 Identities=19% Similarity=0.296 Sum_probs=56.2
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCC-CCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHL-SNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~-~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
+++|+.|+.+|+.+|+.+| . .++||+..++..||..+||++.||++||+|||+|+||..
T Consensus 3 ~k~Rt~ft~~Q~~~Le~~F---~~~~~yp~~~~r~~LA~~~~l~~~qV~~WFqNRR~k~rk~~ 62 (73)
T 2hi3_A 3 AQTVSGPTEDQVEILEYNF---NKVNKHPDPTTLCLIAAEAGLTEEQTQKWFKQRLAEWRRSE 62 (73)
T ss_dssp CSCCSSCCHHHHHHHHHHH---HHTTSSCCHHHHHHHHHHHTSCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHH---HhcCCCCCHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHhc
Confidence 5789999999999999999 8 599999999999999999999999999999999999965
No 54
>3a03_A T-cell leukemia homeobox protein 2; homeodomain, developmental protein, DNA-binding, N gene regulation; 1.54A {Homo sapiens}
Probab=99.65 E-value=7.4e-17 Score=112.55 Aligned_cols=54 Identities=28% Similarity=0.556 Sum_probs=50.8
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
+.|+.+|+..|+.+| ..++||+..++..||..+||++.||++||+|||+|+||.
T Consensus 2 T~ft~~Ql~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kr~ 55 (56)
T 3a03_A 2 TSFSRSQVLELERRF---LRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55 (56)
T ss_dssp --CCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHH
T ss_pred CccCHHHHHHHHHHH---HhcCCcCHHHHHHHHHHhCcCHHHhhHhhHHhhhhhccc
Confidence 579999999999999 899999999999999999999999999999999999985
No 55
>2m0c_A Homeobox protein aristaless-like 4; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}
Probab=99.64 E-value=8.7e-17 Score=118.62 Aligned_cols=63 Identities=32% Similarity=0.548 Sum_probs=58.8
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.++++.|+.|+..++.+|+.+| ..++||+..++..||..+||++.+|++||+|||+|+||...
T Consensus 7 ~~~rr~Rt~ft~~q~~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~~r 69 (75)
T 2m0c_A 7 GKKRRNRTTFTSYQLEELEKVF---QKTHYPDVYAREQLAMRTDLTEARVQVWFQNRRAKWRKRER 69 (75)
T ss_dssp SCCCSCSCSSCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTCCCC
T ss_pred CCCCCCCCCCCHHHHHHHHHHH---HhcCCCCHHHHHHHHHHhCCCHHHHHHHhHHHHHHHHHHHh
Confidence 3467889999999999999999 89999999999999999999999999999999999999654
No 56
>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=99.64 E-value=1.8e-16 Score=122.93 Aligned_cols=62 Identities=29% Similarity=0.426 Sum_probs=56.1
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+.+++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+||...
T Consensus 33 ~~rr~Rt~ft~~Ql~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~vWFqNRR~k~kk~~~ 94 (97)
T 1b72_A 33 SPSGLRTNFTTRQLTELEKEF---HFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKKRER 94 (97)
T ss_dssp ----CCCCCCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHT
T ss_pred CCCCCCcCcCHHHHHHHHHHH---hccCCCCHHHHHHHHHHhCCCHHHhHHHHHHHhHHHhHHhc
Confidence 457889999999999999999 99999999999999999999999999999999999999754
No 57
>2ly9_A Zinc fingers and homeoboxes protein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}
Probab=99.63 E-value=1.9e-16 Score=116.60 Aligned_cols=63 Identities=19% Similarity=0.357 Sum_probs=58.8
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.+.++.|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||||||+|+||...
T Consensus 4 ~~~~~~Rt~ft~~Ql~~Le~~F---~~~~yp~~~~r~~La~~l~l~~~qV~~WFqNrR~k~kk~~~ 66 (74)
T 2ly9_A 4 PDSFGIRAKKTKEQLAELKVSY---LKNQFPHDSEIIRLMKITGLTKGEIKKWFSDTRYNQRNSKS 66 (74)
T ss_dssp CCCCCTTCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHTTTTTC
T ss_pred CCCCCCCcCCCHHHHHHHHHHH---HHcCCCCHHHHHHHHHHhCcCHHHeeeCChhHhHHHHhhCc
Confidence 3457889999999999999999 89999999999999999999999999999999999999653
No 58
>2dn0_A Zinc fingers and homeoboxes protein 3; triple homeobox 1 protein, KIAA0395, TIX1, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=99.62 E-value=1.1e-16 Score=118.60 Aligned_cols=62 Identities=21% Similarity=0.419 Sum_probs=57.8
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
+..+.|+.|+.+|+.+|+.+| ..++||+..++..||..+||++.||++||+|||+|+||...
T Consensus 7 ~~~~~R~~ft~~Ql~~Le~~F---~~~~yp~~~~r~~La~~~~l~~~qV~~WFqNrR~k~kk~~~ 68 (76)
T 2dn0_A 7 GASIYKNKKSHEQLSALKGSF---CRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRRYHCRNLKG 68 (76)
T ss_dssp CCCCCCCCCCHHHHHHHHHHH---HHSSSCCSHHHHHHHHHHCCCHHHHHHHHHHHHHHSSSCCS
T ss_pred CCCCCCccCCHHHHHHHHHHH---hcCCCcCHHHHHHHHHHhCCChHHhhHHhHHHhHHHHHhcc
Confidence 445678999999999999999 99999999999999999999999999999999999999653
No 59
>2ecb_A Zinc fingers and homeoboxes protein 1; homeobox domain, transcription factor, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.62 E-value=3.2e-16 Score=119.36 Aligned_cols=57 Identities=16% Similarity=0.297 Sum_probs=53.5
Q ss_pred CCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 112 RRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 112 R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
...|+.+|+.+|+.+| ..++||+..+|.+||..|||+++||+|||||||+|+||...
T Consensus 15 ~k~~t~~Ql~~Le~~F---~~~~yp~~~~r~~LA~~lgLte~qVkvWFqNRR~k~rk~~~ 71 (89)
T 2ecb_A 15 FKEKTAEQLRVLQASF---LNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEE 71 (89)
T ss_dssp CCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHSCCS
T ss_pred hccCCHHHHHHHHHHH---HhcCCCCHHHHHHHHHHhCcChHHCeecccccchHHHHHHH
Confidence 3489999999999999 99999999999999999999999999999999999998654
No 60
>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=99.62 E-value=2.5e-16 Score=116.44 Aligned_cols=60 Identities=20% Similarity=0.412 Sum_probs=56.1
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.++|+.|+.+|+.+|+..| ..++||+..++..||..+||++.||++||+|||+|+|+...
T Consensus 8 ~~kr~~~t~~Ql~~Le~~F---~~~~yp~~~~r~~LA~~l~l~~~qV~~WFqNRR~k~kk~~~ 67 (75)
T 2da5_A 8 PTKYKERAPEQLRALESSF---AQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEET 67 (75)
T ss_dssp SCCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHCCCHHHHHHHHHHHTTHHHHSSC
T ss_pred CCCCccCCHHHHHHHHHHH---hccCCCCHHHHHHHHHHhCCCHHHhhHhhHHHHHHHHHhhh
Confidence 3567789999999999999 99999999999999999999999999999999999999754
No 61
>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=99.62 E-value=1.1e-16 Score=119.84 Aligned_cols=58 Identities=16% Similarity=0.241 Sum_probs=54.3
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCC-----CCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLS-----NPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~-----~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk 168 (301)
++||+|+.|+.+|+..|+ .| .. ++||+..+|.+||..+||++.||+|||||||+|+|+
T Consensus 16 ~~rR~Rt~ft~~Ql~~Le-~F---~~~~~w~~~yp~~~~r~~La~~lgL~e~qVkvWFqNrR~k~~~ 78 (80)
T 1wh7_A 16 TTKRFRTKFTAEQKEKML-AF---AERLGWRIQKHDDVAVEQFCAETGVRRQVLKIWMHNNKNSGPS 78 (80)
T ss_dssp CSSCCCCCCCHHHHHHHH-HH---HHHHTSCCCSSTTHHHHHHHHHSCCCHHHHHHHHHTTSCCSCC
T ss_pred CCCCCCccCCHHHHHHHH-HH---HHHcCcCCCCCCHHHHHHHHHHhCcCcCcccccccccccCCCC
Confidence 467889999999999999 78 55 999999999999999999999999999999999886
No 62
>2cuf_A FLJ21616 protein; homeobox domain, hepatocyte transcription factor, structural genomics, loop insertion, NPPSFA; NMR {Homo sapiens} SCOP: a.4.1.1
Probab=99.61 E-value=3.2e-16 Score=121.05 Aligned_cols=63 Identities=35% Similarity=0.677 Sum_probs=59.1
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcC---------------CCchhhhhhhhhhHHHhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCN---------------ITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~---------------L~~~qV~~WFqNrR~r~kk~~ 170 (301)
.+++|.|+.|+..|+.+|+.+| ..++||+..+++.||..+| |++.+|++||||||+|+|+..
T Consensus 5 ~~~rr~R~~ft~~ql~~Le~~F---~~~~yP~~~~r~~lA~~l~~~~~~~~~~~~~~~~ls~~qV~~WFqNRR~k~kr~~ 81 (95)
T 2cuf_A 5 SSGRGSRFTWRKECLAVMESYF---NENQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWFANRRKEIKRRA 81 (95)
T ss_dssp SCCCCCSCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHHHHHCCTTCCCCTTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCcCCHHHHHHHHHHH---hcCCCCCHHHHHHHHHHHCchhhcccccccccCcCCHHHHHHHHHHHHHHHHHHh
Confidence 3567899999999999999999 8899999999999999999 999999999999999999975
Q ss_pred h
Q psy5541 171 G 171 (301)
Q Consensus 171 ~ 171 (301)
.
T Consensus 82 ~ 82 (95)
T 2cuf_A 82 N 82 (95)
T ss_dssp H
T ss_pred h
Confidence 4
No 63
>3nar_A ZHX1, zinc fingers and homeoboxes protein 1; corepressor, homeodomain, structural genomics, oxford production facility, OPPF, transcription; 2.60A {Homo sapiens}
Probab=99.60 E-value=4.2e-16 Score=120.63 Aligned_cols=64 Identities=22% Similarity=0.426 Sum_probs=57.7
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhhH
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGKA 173 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~~ 173 (301)
..+++|+.|+..|+.+|+.+| ..++||+..++..||..+||++.||++||||||+|+||...+-
T Consensus 24 ~~~r~Rt~ft~~Ql~~Le~~F---~~~~yp~~~~r~~LA~~l~L~~~qV~vWFqNRR~k~kk~~lk~ 87 (96)
T 3nar_A 24 GSTGKICKKTPEQLHMLKSAF---VRTQWPSPEEYDKLAKESGLARTDIVSWFGDTRYAWKNGNLKW 87 (96)
T ss_dssp ---CCSSSSCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHTTTCCHH
T ss_pred CCCCCCccCCHHHHHHHHHHH---HHcCCCCHHHHHHHHHHhCCCHHHeeecchhhhhHhhhhcccH
Confidence 356789999999999999999 8999999999999999999999999999999999999976543
No 64
>3nau_A Zinc fingers and homeoboxes protein 2; ZHX2, corepressor, homeodomain, domain swapping, structural oxford protein production facility, OPPF; 2.70A {Homo sapiens}
Probab=99.60 E-value=4e-16 Score=111.43 Aligned_cols=51 Identities=22% Similarity=0.504 Sum_probs=49.4
Q ss_pred CHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 116 SKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 116 ~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
+++|+..|+..| ..++||+..++.+||..|||+++||++||+|||.|+|+.
T Consensus 12 ~~~Ql~~LE~~F---~~~~YPs~~er~eLA~~tgLt~~qVkvWFqNRR~k~Kkg 62 (66)
T 3nau_A 12 TKEQIAHLKASF---LQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHRYRCQRG 62 (66)
T ss_dssp CHHHHHHHHHHH---HGGGSCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHH---hcCCCCCHHHHHHHHHHhCcCHHHhhHhcccchhhhhcc
Confidence 689999999999 999999999999999999999999999999999999975
No 65
>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=99.58 E-value=2.3e-15 Score=116.82 Aligned_cols=62 Identities=27% Similarity=0.464 Sum_probs=58.1
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHc---------------------CCCchhhhhhhhhhHHH
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKC---------------------NITLSQVSNWFGNKRIR 165 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~---------------------~L~~~qV~~WFqNrR~r 165 (301)
++||.|+.|+..++.+|+.+| ..++||+..+|++||..+ +|++.+|.|||||||+|
T Consensus 5 ~~Rr~Rt~ft~~ql~~Le~~F---~~~~yPs~~~Re~LA~~ln~~~c~q~g~~~~~~~GL~~~~lte~~V~~WFqNRR~k 81 (102)
T 2da6_A 5 SSGRNRFKWGPASQQILYQAY---DRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANRRKE 81 (102)
T ss_dssp CSCCCCCCCCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHHHHHHHHHTSCCTTCGGGGGGGCCCHHHHHHHHHHHHHH
T ss_pred CCCCCCccCCHHHHHHHHHHH---cCCCCCCHHHHHHHHHHHHHhhhcccccccchhcccccccccccceeeeecchHHH
Confidence 467899999999999999999 999999999999999999 79999999999999999
Q ss_pred hhhhhh
Q psy5541 166 YKKNIG 171 (301)
Q Consensus 166 ~kk~~~ 171 (301)
+|+...
T Consensus 82 ~kr~~~ 87 (102)
T 2da6_A 82 EAFRQK 87 (102)
T ss_dssp HHHHHH
T ss_pred HHHhhH
Confidence 988644
No 66
>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=99.57 E-value=1.5e-15 Score=108.38 Aligned_cols=59 Identities=25% Similarity=0.439 Sum_probs=55.3
Q ss_pred hcCCCCCCCCHHHHHHHHhHhhcCCC-CCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhh
Q psy5541 107 DARRKRRNFSKQASEILNEYFYSHLS-NPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168 (301)
Q Consensus 107 ~~rr~R~~~~~~q~~~L~~~f~~h~~-~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk 168 (301)
++||.||.|+.+|+.+|+..| .. ++||+..+|+.||.+|||++++|++||||+|--.+.
T Consensus 6 ~~kR~RT~~s~eQL~~Lqs~f---~~~~~yPd~~~r~~La~~tGL~~~~IqVWFQNrR~~~~~ 65 (71)
T 1wi3_A 6 SGPRSRTKISLEALGILQSFI---HDVGLYPDQEAIHTLSAQLDLPKHTIIKFFQNQRYHVKH 65 (71)
T ss_dssp CCCCCCCCCCSHHHHHHHHHH---HHHCSCCCHHHHHHHHHHSCCCHHHHHHHHHHHHHHCCS
T ss_pred CCCCCCccCCHHHHHHHHHHH---HhcCCCCCHHHHHHHHHHhCCCHHHHHHhhccceeeecC
Confidence 568899999999999999999 88 999999999999999999999999999999986554
No 67
>2d5v_A Hepatocyte nuclear factor 6; transcription factor, transcription-DNA complex; 2.00A {Rattus norvegicus} PDB: 1s7e_A
Probab=99.56 E-value=3.9e-16 Score=132.18 Aligned_cols=63 Identities=27% Similarity=0.346 Sum_probs=54.7
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.++||+|+.|+..|+.+|+.+| ..++||+..+|..||..+||++.||+|||||||+|+|+...
T Consensus 95 ~~~rr~Rt~ft~~q~~~Le~~F---~~~~yp~~~~r~~la~~l~L~~~qV~~WFqNrR~r~k~~~~ 157 (164)
T 2d5v_A 95 NTPKKPRLVFTDVQRRTLHAIF---KENKRPSKELQITISQQLGLELSTVSNFFMNARRRSLDKWL 157 (164)
T ss_dssp -----CCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHTSSCC--
T ss_pred CCCCCCCCcCCHHHHHHHHHHH---hcCCCCCHHHHHHHHHHHCcCHHHhhhcChhhhccccccCC
Confidence 3467899999999999999999 88899999999999999999999999999999999998643
No 68
>2e19_A Transcription factor 8; homeobox domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=99.55 E-value=3.6e-15 Score=106.85 Aligned_cols=55 Identities=24% Similarity=0.375 Sum_probs=51.4
Q ss_pred CCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhh
Q psy5541 111 KRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168 (301)
Q Consensus 111 ~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk 168 (301)
.+..+.++|+..|+.+| ..++||+..+|..||..+||+++||++||||||+|.++
T Consensus 6 ~~~~p~~~Ql~~Le~~F---~~~~yp~~~~r~~LA~~l~L~e~qVqvWFqNRRak~~~ 60 (64)
T 2e19_A 6 SGQPPLKNLLSLLKAYY---ALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQAGQIS 60 (64)
T ss_dssp SCCCCCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHTCSC
T ss_pred CCCCccHHHHHHHHHHH---hcCCCcCHHHHHHHHHHhCcChhhcCcchhcccCCCCC
Confidence 34567799999999999 99999999999999999999999999999999999876
No 69
>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=99.55 E-value=2.6e-15 Score=114.56 Aligned_cols=58 Identities=17% Similarity=0.408 Sum_probs=53.8
Q ss_pred CCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 111 KRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 111 ~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
++..|+.+|+.+|+.+| ..++||+..++..||..+||++.||+|||||||+|+|+...
T Consensus 16 k~k~~t~~Ql~~Le~~F---~~~~yp~~~~r~~La~~~~l~~~qV~vWFqNRR~k~r~~~~ 73 (89)
T 2dmp_A 16 KFKEKTQGQVKILEDSF---LKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQ 73 (89)
T ss_dssp CCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHHHHTSCS
T ss_pred ccccCCHHHHHHHHHHH---ccCCCCCHHHHHHHHHHhCCCHHhccHhhHhHHHHHHHHhH
Confidence 34459999999999999 89999999999999999999999999999999999998754
No 70
>1lfb_A Liver transcription factor (LFB1); transcription regulation; 2.80A {Rattus norvegicus} SCOP: a.4.1.1 PDB: 2lfb_A
Probab=99.54 E-value=3.6e-15 Score=115.87 Aligned_cols=63 Identities=27% Similarity=0.417 Sum_probs=53.9
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHH------------------cC---CCchhhhhhhhhhHH
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARK------------------CN---ITLSQVSNWFGNKRI 164 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~------------------~~---L~~~qV~~WFqNrR~ 164 (301)
.++||.|+.|+..|+.+|+.+| ..++||+..+|++||.. +| |++.+|+|||||||+
T Consensus 7 ~k~rr~Rt~ft~~Ql~~LE~~F---~~~~yP~~~~R~eLA~~~n~~~~~~~g~~~~~~~~lg~~~lse~qV~vWFqNRR~ 83 (99)
T 1lfb_A 7 KKGRRNRFKWGPASQQILFQAY---ERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRK 83 (99)
T ss_dssp ------CCCCCHHHHHHHHHHH---TTCSSCCHHHHHHHHHHHHHHHHTTTTCCTTCTTTTGGGCCCHHHHHHHHHHHHH
T ss_pred CCCCCCCcCcCHHHHHHHHHHH---hcCCCCCHHHHHHHHHHhccccccccccccccccccCccccCcceeeeccHHHHH
Confidence 3567889999999999999999 99999999999999999 88 999999999999999
Q ss_pred Hhhhhhh
Q psy5541 165 RYKKNIG 171 (301)
Q Consensus 165 r~kk~~~ 171 (301)
+.|+...
T Consensus 84 k~k~k~~ 90 (99)
T 1lfb_A 84 EEAFRHK 90 (99)
T ss_dssp TTSCCC-
T ss_pred HHHHhch
Confidence 9887654
No 71
>2l9r_A Homeobox protein NKX-3.1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Homo sapiens}
Probab=99.54 E-value=2.7e-15 Score=108.96 Aligned_cols=56 Identities=27% Similarity=0.392 Sum_probs=52.5
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
..++..|+..|+..| ..++||+..+|.+||..+||+++||++||||||+|+||...
T Consensus 9 ~~~t~~ql~~LE~~F---~~~~yp~~~~r~~LA~~l~Lte~qVqvWFqNRRak~kr~~~ 64 (69)
T 2l9r_A 9 SHMSHTQVIELERKF---SHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQL 64 (69)
T ss_dssp CCCCHHHHHHHHHHH---HHCSCCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHSCCSSS
T ss_pred CcCCHHHHHHHHHHH---hcCCCCCHHHHHHHHHHhCCChhheeecchhhhhhhhhhhh
Confidence 457899999999999 99999999999999999999999999999999999998653
No 72
>2cqx_A LAG1 longevity assurance homolog 5; homeodomain, DNA binding domain, transcription, structural genomics, NPPSFA; NMR {Mus musculus} SCOP: a.4.1.1
Probab=99.51 E-value=4.5e-15 Score=108.79 Aligned_cols=61 Identities=16% Similarity=0.342 Sum_probs=54.7
Q ss_pred cCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 108 ~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
..++|+.++.+|+.+||..|. ..++||+..++.+||..+||++.||++||||||+|+|+..
T Consensus 8 g~k~r~r~~~~ql~~LE~~F~--~~~~yp~~~~r~~LA~~l~l~e~qVqvWFqNRR~k~r~~~ 68 (72)
T 2cqx_A 8 GIKDSPVNKVEPNDTLEKVFV--SVTKYPDEKRLKGLSKQLDWSVRKIQCWFRHRRNQDKPSG 68 (72)
T ss_dssp CCCCCCCSCSCSTTHHHHHHH--HTCSSCCHHHHHHHHHHTTCCHHHHHHHHHHHHHHHSSCC
T ss_pred CCCCCCCCCHHHHHHHHHHHH--hcCCCcCHHHHHHHHHHhCCChhhcchhhhhcccCCCCCC
Confidence 456777888999999999994 4578999999999999999999999999999999999854
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=99.48 E-value=2.4e-14 Score=102.18 Aligned_cols=51 Identities=24% Similarity=0.410 Sum_probs=46.0
Q ss_pred HHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 118 QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 118 ~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
.++.+||..|. ..+.||+..+|.+||.++||+++||++||||||+|+|+..
T Consensus 10 ~~~~~LE~~F~--~~~~yp~~~~r~~LA~~l~LterQVkvWFqNRR~k~k~~~ 60 (64)
T 1x2m_A 10 QPNAILEKVFT--AITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEKPSG 60 (64)
T ss_dssp CHHHHHHHHHH--TTCSSCCHHHHHHHHHHHCSCHHHHHHHHHHHHHHSCCSS
T ss_pred hHHHHHHHHHH--HcCCCcCHHHHHHHHHHhCCCHHHHHHHHHHHHhccCCCC
Confidence 46899999993 3489999999999999999999999999999999998753
No 74
>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=99.31 E-value=7.8e-13 Score=94.95 Aligned_cols=46 Identities=17% Similarity=0.431 Sum_probs=44.0
Q ss_pred HHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHH
Q psy5541 117 KQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165 (301)
Q Consensus 117 ~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r 165 (301)
++|+..|+.+| ..+++|+.+++..||..+||++++|++||||||++
T Consensus 14 k~ql~~Lk~yF---~~n~~Ps~eei~~LA~~lgL~~~VVrVWFqNrRa~ 59 (71)
T 2da7_A 14 KDHMSVLKAYY---AMNMEPNSDELLKISIAVGLPQEFVKEWFEQRKVY 59 (71)
T ss_dssp THHHHHHHHHH---HHCSSCCHHHHHHHHHHHTCCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH---HhCCCCCHHHHHHHHHHhCCCHHHHHHHHhhcccc
Confidence 67899999999 99999999999999999999999999999999974
No 75
>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=99.30 E-value=3.1e-13 Score=117.01 Aligned_cols=60 Identities=32% Similarity=0.545 Sum_probs=53.5
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcC---------------------CCchhhhhhhhhhHH
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCN---------------------ITLSQVSNWFGNKRI 164 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~---------------------L~~~qV~~WFqNrR~ 164 (301)
.++||.|+.|+..|+.+|+.+| ..++||+..+|++||..++ |++.+|+|||+|||+
T Consensus 113 ~k~rr~R~~ft~~ql~~Le~~F---~~~~yp~~~~Re~la~~~~~~~~~~~G~~~~~~~glg~~~lte~~V~~WFqNRR~ 189 (194)
T 1ic8_A 113 KKGRRNRFKWGPASQQILFQAY---ERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLGSNLVTEVRVYNWFANRRK 189 (194)
T ss_dssp ----CCCCCCCHHHHHHHHHHH---HHHCCCCTTTTHHHHHHHHHHHHHHSSCCCTTCCTTGGGCCCHHHHHHHHHHHHH
T ss_pred ccCCCCCcccCHHHHHHHHHHH---HhcCCCCHHHHHHHHHHhCchhhccccccccccccccccccCccccchhchhhhh
Confidence 4567899999999999999999 8999999999999999999 999999999999999
Q ss_pred Hhhh
Q psy5541 165 RYKK 168 (301)
Q Consensus 165 r~kk 168 (301)
|.|.
T Consensus 190 ~~k~ 193 (194)
T 1ic8_A 190 EEAF 193 (194)
T ss_dssp HCC-
T ss_pred hhhc
Confidence 9874
No 76
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo, protein-DNA, human disease; 3.20A {Homo sapiens}
Probab=99.23 E-value=3.3e-12 Score=111.95 Aligned_cols=58 Identities=33% Similarity=0.582 Sum_probs=52.9
Q ss_pred hhcCCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcC---------------------CCchhhhhhhhhhHH
Q psy5541 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCN---------------------ITLSQVSNWFGNKRI 164 (301)
Q Consensus 106 ~~~rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~---------------------L~~~qV~~WFqNrR~ 164 (301)
.+.||.|+.|++.++.+|+.+| ..++||+..+|++||..+| |++.+|+|||+|||+
T Consensus 140 ~k~RR~R~~ft~~ql~~Le~~F---~~~~YP~~~~ReeLA~~~n~~~~~~rg~~~~~~~~L~~~~lte~~V~~WFqNRR~ 216 (221)
T 2h8r_A 140 KKMRRNRFKWGPASQQILYQAY---DRQKNPSKEEREALVEECNRAECLQRGVSPSKAHGLGSNLVTEVRVYNWFANRRK 216 (221)
T ss_dssp --CCCCCCCCCHHHHHHHHHHH---HHCSSCCHHHHHHHHHHHHHHHHHHTTCCSTTGGGGTTSCCCHHHHHHHHHHHHT
T ss_pred CCCCCCCcCCCHHHHHHHHHHH---HcCCCCCHHHHHHHHHHHChhhhcccccccchhccccccccCHHHHHHHhHHhhh
Confidence 4567889999999999999999 8999999999999999988 899999999999998
Q ss_pred Hh
Q psy5541 165 RY 166 (301)
Q Consensus 165 r~ 166 (301)
+.
T Consensus 217 ~~ 218 (221)
T 2h8r_A 217 EE 218 (221)
T ss_dssp TC
T ss_pred hh
Confidence 74
No 77
>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=99.13 E-value=1.3e-11 Score=117.23 Aligned_cols=55 Identities=40% Similarity=0.545 Sum_probs=51.9
Q ss_pred CCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhh
Q psy5541 110 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167 (301)
Q Consensus 110 r~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~k 167 (301)
+.++.|+..++..|++.| ..++||+..+|.+||.+|||+++||+|||||||+|+|
T Consensus 367 ~~~~~~~~~q~~~Le~~f---~~~~yp~~~~~~~la~~~~l~~~qv~~wf~n~r~~~~ 421 (421)
T 1mh3_A 367 AAAAAISPQARAFLEQVF---RRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421 (421)
T ss_dssp HHHCSSCHHHHHHHHHHH---HHCSCCCHHHHHHHHHHHTSCHHHHHHHHHHHHCCCC
T ss_pred hhhhhhcchHHHHHHHHH---hcCCCcCHHHHHHHHHHHCcCHHHhhHhhhhcccccC
Confidence 456789999999999999 9999999999999999999999999999999999976
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=98.40 E-value=4.7e-08 Score=61.57 Aligned_cols=20 Identities=35% Similarity=0.816 Sum_probs=17.7
Q ss_pred hhhhhhhhhhHHHhhhhhhh
Q psy5541 153 SQVSNWFGNKRIRYKKNIGK 172 (301)
Q Consensus 153 ~qV~~WFqNrR~r~kk~~~~ 172 (301)
+||+|||||||+|+||....
T Consensus 1 rQVkIWFQNRRaK~Kk~~~~ 20 (37)
T 2nzz_A 1 RQIKIWFQNRRMKWKKRVFN 20 (37)
T ss_dssp CCTTTTTTCSHHHHTSSHHH
T ss_pred CCceeccHHHHHHHHHHhHH
Confidence 58999999999999998654
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=95.10 E-value=0.009 Score=42.49 Aligned_cols=41 Identities=20% Similarity=0.401 Sum_probs=36.6
Q ss_pred HHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhh
Q psy5541 117 KQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFG 160 (301)
Q Consensus 117 ~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFq 160 (301)
+.-.+.|+++| ..+....+.+...|+.+++|+..||+.||-
T Consensus 15 p~~~e~L~~Yy---~~hk~L~EeDl~~L~~kskms~qqvkdwFa 55 (70)
T 2ys9_A 15 PPDIQPLERYW---AAHQQLRETDIPQLSQASRLSTQQVLDWFD 55 (70)
T ss_dssp CCCCHHHHHHH---HHTCCCCTTHHHHHHHHTTCCHHHHHHHHH
T ss_pred CCcchHHHHHH---HHhcccchhhHHHHHHHhCCCHHHHHHHHH
Confidence 34457899999 778889999999999999999999999994
No 80
>3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis}
Probab=70.33 E-value=6.1 Score=28.54 Aligned_cols=50 Identities=10% Similarity=0.181 Sum_probs=37.9
Q ss_pred CCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 114 ~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.++..+..+|...|+ ... .-.++|..+|++...|+++....|.+.|+...
T Consensus 37 ~L~~~~r~vl~l~~~--~g~------s~~eIA~~lgis~~tV~~~l~ra~~~Lr~~l~ 86 (92)
T 3hug_A 37 QLSAEHRAVIQRSYY--RGW------STAQIATDLGIAEGTVKSRLHYAVRALRLTLQ 86 (92)
T ss_dssp TSCHHHHHHHHHHHT--SCC------CHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHH--cCC------CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHH
Confidence 367778888877552 221 24688999999999999999988888887653
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=62.13 E-value=8 Score=29.59 Aligned_cols=50 Identities=32% Similarity=0.350 Sum_probs=37.1
Q ss_pred CCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHH
Q psy5541 110 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165 (301)
Q Consensus 110 r~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r 165 (301)
++|..++.++...+-.++ ..++..+ ..++|+.+|++...|..|..+++..
T Consensus 3 ~~r~~~t~e~K~~iv~~~---~~~g~~~---~~~~A~~~gvs~stl~~~~~~~~~~ 52 (131)
T 1hlv_A 3 PKRRQLTFREKSRIIQEV---EENPDLR---KGEIARRFNIPPSTLSTILKNKRAI 52 (131)
T ss_dssp CSSCCCCHHHHHHHHHHH---HHCTTSC---HHHHHHHHTCCHHHHHHHHHTHHHH
T ss_pred CcceeCCHHHHHHHHHHH---HHCCCCc---HHHHHHHhCCCHHHHHHHHhchhhh
Confidence 467889999987776665 3344443 2368999999999999998776553
No 82
>2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis}
Probab=61.09 E-value=5.6 Score=26.67 Aligned_cols=50 Identities=12% Similarity=0.150 Sum_probs=37.1
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
..++..+..+|...|. .. + .-.++|..+|++...|+.|....+.+.++..
T Consensus 14 ~~L~~~~r~il~l~~~--~g--~----s~~eIA~~lgis~~tv~~~~~ra~~~l~~~l 63 (70)
T 2o8x_A 14 ADLTTDQREALLLTQL--LG--L----SYADAAAVCGCPVGTIRSRVARARDALLADA 63 (70)
T ss_dssp TSSCHHHHHHHHHHHT--SC--C----CHHHHHHHHTSCHHHHHHHHHHHHHHHHC--
T ss_pred HhCCHHHHHHHHHHHH--cC--C----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHh
Confidence 3578888888887652 21 1 2457899999999999999988888877654
No 83
>1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2
Probab=59.29 E-value=13 Score=27.56 Aligned_cols=52 Identities=17% Similarity=0.176 Sum_probs=39.8
Q ss_pred CCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 110 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 110 r~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
.....|+..+..+|..++ .... -.++|+.+|++...|+++..+.+.|..-..
T Consensus 30 ~~~~~Lt~re~~Vl~l~~---~G~s------~~EIA~~L~iS~~TV~~~l~ri~~KLgv~~ 81 (99)
T 1p4w_A 30 YGDKRLSPKESEVLRLFA---EGFL------VTEIAKKLNRSIKTISSQKKSAMMKLGVDN 81 (99)
T ss_dssp CSSSSCCHHHHHHHHHHH---HTCC------HHHHHHHHTSCHHHHHHHHHHHHHHHTCSS
T ss_pred cccCCCCHHHHHHHHHHH---cCCC------HHHHHHHHCcCHHHHHHHHHHHHHHHCCCC
Confidence 345679999999997755 2222 368999999999999999988777765543
No 84
>2glo_A Brinker CG9653-PA; protein-DNA complex, helix-turn-helix motif, transcription/DNA complex; NMR {Drosophila melanogaster}
Probab=59.22 E-value=4.9 Score=26.63 Aligned_cols=45 Identities=24% Similarity=0.357 Sum_probs=30.1
Q ss_pred CCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhh
Q psy5541 112 RRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFG 160 (301)
Q Consensus 112 R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFq 160 (301)
|..|+.+........+ .. .........++|+.+|++...|..|..
T Consensus 3 r~~ys~efK~~~~~~~---~~-g~s~~~~~~~vA~~~gIs~~tl~~W~~ 47 (59)
T 2glo_A 3 RRIFTPHFKLQVLESY---RN-DNDCKGNQRATARKYNIHRRQIQKWLQ 47 (59)
T ss_dssp CCCCCHHHHHHHHHHH---HH-CTTTTTCHHHHHHHTTSCHHHHHHHHT
T ss_pred CCcCCHHHHHHHHHHH---Hc-CCCcchHHHHHHHHHCcCHHHHHHHHH
Confidence 4578888877664444 11 111111256899999999999999974
No 85
>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=56.67 E-value=11 Score=27.57 Aligned_cols=50 Identities=10% Similarity=0.107 Sum_probs=38.6
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
..++..+..+|...+ .... -.++|..+|++...|+.+..+.+.|.+....
T Consensus 26 ~~Lt~~e~~vl~l~~---~g~s------~~eIA~~l~is~~tV~~~l~r~~~kL~~~~~ 75 (95)
T 3c57_A 26 SGLTDQERTLLGLLS---EGLT------NKQIADRMFLAEKTVKNYVSRLLAKLGMERR 75 (95)
T ss_dssp -CCCHHHHHHHHHHH---TTCC------HHHHHHHHTCCHHHHHHHHHHHHHHHTCCCC
T ss_pred hcCCHHHHHHHHHHH---cCCC------HHHHHHHHCcCHHHHHHHHHHHHHHHcCCCH
Confidence 358888888888765 3322 3688999999999999999988888776543
No 86
>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=56.65 E-value=16 Score=28.18 Aligned_cols=49 Identities=27% Similarity=0.290 Sum_probs=37.0
Q ss_pred CCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 114 ~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.++..+..++..+| . .+ .-.++|..+|++...|+++....|.+.|+...
T Consensus 109 ~L~~~~r~v~~~~~---~--g~----s~~EIA~~lgis~~tV~~~~~ra~~~Lr~~l~ 157 (164)
T 3mzy_A 109 NFSKFEKEVLTYLI---R--GY----SYREIATILSKNLKSIDNTIQRIRKKSEEWIK 157 (164)
T ss_dssp HSCHHHHHHHHHHT---T--TC----CHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred hCCHHHHHHHHHHH---c--CC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 46777888888333 2 22 24678999999999999999988888887654
No 87
>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=55.28 E-value=17 Score=25.65 Aligned_cols=49 Identities=18% Similarity=0.164 Sum_probs=38.2
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
..++..+..+|..++ ... .-.++|+.+|++...|+.+..+.+.|.+...
T Consensus 20 ~~Lt~~e~~vl~l~~---~g~------s~~eIA~~l~is~~tV~~~l~r~~~kL~~~~ 68 (82)
T 1je8_A 20 NQLTPRERDILKLIA---QGL------PNKMIARRLDITESTVKVHVKHMLKKMKLKS 68 (82)
T ss_dssp GGSCHHHHHHHHHHT---TTC------CHHHHHHHHTSCHHHHHHHHHHHHHHTTCSS
T ss_pred ccCCHHHHHHHHHHH---cCC------CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCC
Confidence 468888888888754 221 3468899999999999999988888877654
No 88
>1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti}
Probab=51.61 E-value=13 Score=25.59 Aligned_cols=48 Identities=15% Similarity=0.135 Sum_probs=35.2
Q ss_pred CCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 115 FSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 115 ~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
++..+..+|.-++ ... .-.++|..+|++...|+.+..+.+.|.+....
T Consensus 17 L~~~e~~vl~l~~---~g~------s~~eIA~~l~is~~tV~~~~~r~~~kl~~~~~ 64 (79)
T 1x3u_A 17 LSERERQVLSAVV---AGL------PNKSIAYDLDISPRTVEVHRANVMAKMKAKSL 64 (79)
T ss_dssp HCHHHHHHHHHHT---TTC------CHHHHHHHTTSCHHHHHHHHHHHHHHTTCCSH
T ss_pred CCHHHHHHHHHHH---cCC------CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCCH
Confidence 4566677776644 222 23589999999999999999888888876543
No 89
>2rnj_A Response regulator protein VRAR; HTH LUXR-type domain, DNA binding domain, activator, antibiotic resistance, cytoplasm, DNA-binding; NMR {Staphylococcus aureus}
Probab=48.77 E-value=19 Score=25.81 Aligned_cols=50 Identities=18% Similarity=0.162 Sum_probs=38.2
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
..++..+..+|.-++ .... -.++|..+|++...|+++..+.+.|.+....
T Consensus 28 ~~Lt~~e~~vl~l~~---~g~s------~~eIA~~l~is~~tV~~~l~r~~~kL~~~~~ 77 (91)
T 2rnj_A 28 EMLTEREMEILLLIA---KGYS------NQEIASASHITIKTVKTHVSNILSKLEVQDR 77 (91)
T ss_dssp GGCCSHHHHHHHHHH---TTCC------TTHHHHHHTCCHHHHHHHHHHHHHHTTCCSS
T ss_pred hcCCHHHHHHHHHHH---cCCC------HHHHHHHHCcCHHHHHHHHHHHHHHHCCCCH
Confidence 457888888887754 3222 2478999999999999999988888776543
No 90
>1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulat transcription; 2.05A {Bacillus subtilis} SCOP: a.4.6.2
Probab=48.25 E-value=22 Score=23.79 Aligned_cols=51 Identities=16% Similarity=0.160 Sum_probs=38.8
Q ss_pred CCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 111 KRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 111 ~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
....++..+..+|..++ .. + .-.++|+.+|++...|+.+....+.|.+...
T Consensus 8 ~~~~L~~~e~~il~~~~---~g--~----s~~eIA~~l~is~~tV~~~~~~~~~kl~~~~ 58 (74)
T 1fse_A 8 SKPLLTKREREVFELLV---QD--K----TTKEIASELFISEKTVRNHISNAMQKLGVKG 58 (74)
T ss_dssp CCCCCCHHHHHHHHHHT---TT--C----CHHHHHHHHTSCHHHHHHHHHHHHHHHTCSS
T ss_pred CCCCCCHHHHHHHHHHH---cC--C----CHHHHHHHHCCCHHHHHHHHHHHHHHHCCCC
Confidence 34568999999997754 22 2 2457899999999999999988887776644
No 91
>2elh_A CG11849-PA, LD40883P; structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Drosophila melanogaster}
Probab=46.51 E-value=36 Score=24.12 Aligned_cols=44 Identities=16% Similarity=0.235 Sum_probs=30.4
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhh
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFG 160 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFq 160 (301)
++.+..++.+.....-..+ .. .. -..++|+.+|++...|..|..
T Consensus 17 ~~~~~~ys~e~k~~~v~~~---~~-g~----s~~~iA~~~gIs~sTl~rW~k 60 (87)
T 2elh_A 17 KRPLRSLTPRDKIHAIQRI---HD-GE----SKASVARDIGVPESTLRGWCK 60 (87)
T ss_dssp SSCCSSCCHHHHHHHHHHH---HH-TC----CHHHHHHHHTCCHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHHHH---HC-CC----CHHHHHHHHCcCHHHHHHHHH
Confidence 3456788988865554444 11 11 245789999999999999973
No 92
>1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2
Probab=46.43 E-value=12 Score=26.66 Aligned_cols=55 Identities=13% Similarity=0.122 Sum_probs=39.2
Q ss_pred CCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhh
Q psy5541 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGK 172 (301)
Q Consensus 114 ~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~ 172 (301)
.++..+..+|...|+-..... ..-.++|..+|++...|+.|....+.|.|+....
T Consensus 18 ~L~~~er~vl~l~~~l~~~~~----~s~~EIA~~lgis~~tV~~~~~ra~~kLr~~l~~ 72 (87)
T 1tty_A 18 TLSPREAMVLRMRYGLLDGKP----KTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRS 72 (87)
T ss_dssp TSCHHHHHHHHHHHTTTTSSC----CCHHHHHHHHTCCHHHHHHHHHHHHHHHBTTBSS
T ss_pred hCCHHHHHHHHHHHccCCCCC----CCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 467788888877762000011 1245789999999999999999999888876543
No 93
>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=46.17 E-value=27 Score=23.71 Aligned_cols=51 Identities=12% Similarity=0.023 Sum_probs=37.2
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~k 167 (301)
..++..+..+|...|+-.....+ .-.++|..+|++...|+.|....+.+.+
T Consensus 9 ~~L~~~er~il~l~~~l~~~~~~----s~~eIA~~l~is~~tV~~~~~ra~~kLr 59 (73)
T 1ku3_A 9 SKLSEREAMVLKMRKGLIDGREH----TLEEVGAYFGVTRERIRQIENKALRKLK 59 (73)
T ss_dssp TTSCHHHHHHHHHHHTTTTSSCC----CHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred HhCCHHHHHHHHHHHhcccCCCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 35788888999887720000111 2357899999999999999998888887
No 94
>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=41.60 E-value=36 Score=25.61 Aligned_cols=51 Identities=12% Similarity=0.110 Sum_probs=38.8
Q ss_pred CCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhh
Q psy5541 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGK 172 (301)
Q Consensus 114 ~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~ 172 (301)
.++..+..++...|+ ... .-.++|..+|++...|+.+....|.+.++....
T Consensus 25 ~L~~~~r~vl~l~~~--~g~------s~~EIA~~lgiS~~tV~~~l~ra~~kLr~~l~~ 75 (113)
T 1xsv_A 25 LLTNKQRNYLELFYL--EDY------SLSEIADTFNVSRQAVYDNIRRTGDLVEDYEKK 75 (113)
T ss_dssp GSCHHHHHHHHHHHT--SCC------CHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHH--cCC------CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 467788888877652 111 246789999999999999999999888876543
No 95
>3lph_A Protein REV; helix-loop-helix, RNA-binding arginine rich motif, protein oligomerization, AIDS, HOST cytoplasm, HOST nucleus; 2.50A {Human immunodeficiency virus type 1}
Probab=41.07 E-value=15 Score=25.89 Aligned_cols=29 Identities=34% Similarity=0.563 Sum_probs=19.5
Q ss_pred CCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhhH
Q psy5541 131 LSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGKA 173 (301)
Q Consensus 131 ~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~~ 173 (301)
..||||+..-... |+ .|||.||+......
T Consensus 26 QSNP~P~p~GTrq-aR-------------RNRRRRWR~RQrQI 54 (72)
T 3lph_A 26 QSNPPPNPEGTRQ-AR-------------RNRRRRWRERQRQI 54 (72)
T ss_dssp HTCCCCCCCSCHH-HH-------------HHHHHHHHHHHHHH
T ss_pred ccCCCCCCCCchH-HH-------------HHHHHHHHHHHHHH
Confidence 7799998653332 22 58999998765544
No 96
>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=40.96 E-value=15 Score=24.73 Aligned_cols=54 Identities=9% Similarity=0.159 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 114 ~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.++..+..+|...| ....+- ...-.++|..+|++...|+.+....+.|.++...
T Consensus 5 ~L~~~er~il~l~~---~l~~~~-g~s~~eIA~~lgis~~tV~~~~~ra~~kLr~~~~ 58 (68)
T 2p7v_B 5 GLTAREAKVLRMRF---GIDMNT-DYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 58 (68)
T ss_dssp CCCHHHHHHHHHHT---TTTSSS-CCCHHHHHHHHTCCHHHHHHHHHHHHHGGGSCCG
T ss_pred cCCHHHHHHHHHHH---ccCCCC-CCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHH
Confidence 47788888887776 211111 1123578999999999999999888888877543
No 97
>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=40.55 E-value=27 Score=26.42 Aligned_cols=50 Identities=8% Similarity=0.059 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 114 ~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.++..+..++...|. ... .-.++|..+|++...|+.|....|.+.++...
T Consensus 22 ~L~~~~r~vl~l~y~--~g~------s~~EIA~~lgiS~~tV~~~l~ra~~kLr~~l~ 71 (113)
T 1s7o_A 22 LLTDKQMNYIELYYA--DDY------SLAEIADEFGVSRQAVYDNIKRTEKILETYEM 71 (113)
T ss_dssp GSCHHHHHHHHHHHH--TCC------CHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred cCCHHHHHHHHHHHH--cCC------CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHH
Confidence 467888888877642 222 24678999999999999999999988887543
No 98
>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=39.48 E-value=19 Score=28.91 Aligned_cols=50 Identities=10% Similarity=0.034 Sum_probs=36.4
Q ss_pred CCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 114 ~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.++..+..++.-.|. . .+ .-.++|+.+|++...|+++....|.+.|+...
T Consensus 140 ~L~~~~r~vl~l~~~--~--g~----s~~EIA~~lgis~~tV~~~l~ra~~~Lr~~l~ 189 (194)
T 1or7_A 140 SLPEDLRMAITLREL--D--GL----SYEEIAAIMDCPVGTVRSRIFRAREAIDNKVQ 189 (194)
T ss_dssp HSCHHHHHHHHHHHT--T--CC----CHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHC
T ss_pred hCCHHHHHHhHHHHH--c--CC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 356666777765541 1 12 23578999999999999999999988887543
No 99
>2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium}
Probab=38.94 E-value=18 Score=23.45 Aligned_cols=29 Identities=14% Similarity=0.137 Sum_probs=25.0
Q ss_pred HHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 142 EELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 142 ~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
.++|+.+|++...|+.+..+.+.|.+...
T Consensus 17 ~eIA~~l~is~~tV~~~~~~~~~kl~~~~ 45 (61)
T 2jpc_A 17 HGISEKLHISIKTVETHRMNMMRKLQVHK 45 (61)
T ss_dssp HHHHHHTCSCHHHHHHHHHHHHHHHTCSS
T ss_pred HHHHHHhCCCHHHHHHHHHHHHHHHCCCC
Confidence 57899999999999999988888877654
No 100
>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=38.36 E-value=35 Score=28.09 Aligned_cols=50 Identities=14% Similarity=0.239 Sum_probs=39.0
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
..++..+..+|...| .. .+ .-.++|+.+|++...|+.+....|.+.|+..
T Consensus 186 ~~L~~~~r~vl~l~~---~~-g~----s~~EIA~~lgis~~~V~~~~~ra~~~Lr~~l 235 (239)
T 1rp3_A 186 SKLPEREKLVIQLIF---YE-EL----PAKEVAKILETSVSRVSQLKAKALERLREML 235 (239)
T ss_dssp TTSCHHHHHHHHHHH---TS-CC----CHHHHHHHTTSCHHHHHHHHHHHHHHHHHHH
T ss_pred HcCCHHHHHHHHHHH---hc-CC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHH
Confidence 357888888888776 22 11 2457899999999999999999998888754
No 101
>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=36.47 E-value=28 Score=20.72 Aligned_cols=39 Identities=15% Similarity=0.152 Sum_probs=26.1
Q ss_pred CCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhh
Q psy5541 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFG 160 (301)
Q Consensus 114 ~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFq 160 (301)
.++.+....+...+ .. .+ ...++|+.+|++...|..|..
T Consensus 5 ~l~~~~~~~i~~~~---~~-g~----s~~~IA~~lgis~~Tv~~~~~ 43 (51)
T 1tc3_C 5 ALSDTERAQLDVMK---LL-NV----SLHEMSRKISRSRHCIRVYLK 43 (51)
T ss_dssp CCCHHHHHHHHHHH---HT-TC----CHHHHHHHHTCCHHHHHHHHH
T ss_pred CCCHHHHHHHHHHH---Hc-CC----CHHHHHHHHCcCHHHHHHHHh
Confidence 46666664444444 21 12 255789999999999999984
No 102
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure, structural genomics, protein structure initiative; NMR {Corynebacterium glutamicum} SCOP: a.4.1.19
Probab=35.81 E-value=40 Score=24.13 Aligned_cols=43 Identities=12% Similarity=0.237 Sum_probs=29.4
Q ss_pred CCCCCHHHHHHHHhHhhcCCCC-CCCCHHHHHHHHHHcCCCchhhhhhhhh
Q psy5541 112 RRNFSKQASEILNEYFYSHLSN-PYPSEEAKEELARKCNITLSQVSNWFGN 161 (301)
Q Consensus 112 R~~~~~~q~~~L~~~f~~h~~~-~yPs~~~r~~LA~~~~L~~~qV~~WFqN 161 (301)
|+.|+.++....-..+ ... .. ....+|..+|++...|..|...
T Consensus 3 r~~ys~e~k~~~v~~~---~~~~g~----s~~~ia~~~gIs~~tl~rW~~~ 46 (97)
T 2jn6_A 3 TKTYSEEFKRDAVALY---ENSDGA----SLQQIANDLGINRVTLKNWIIK 46 (97)
T ss_dssp CCCCCHHHHHHHHHHH---TTGGGS----CHHHHHHHHTSCHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHH---HHcCCC----hHHHHHHHHCcCHHHHHHHHHH
Confidence 3568887776554444 222 22 2568899999999999999753
No 103
>2x7l_M HIV REV; nuclear export, immune system, post-transcriptional regulation; 3.17A {Human immunodeficiency virus type 3}
Probab=35.78 E-value=9.2 Score=29.40 Aligned_cols=31 Identities=29% Similarity=0.457 Sum_probs=20.3
Q ss_pred CCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhhhHHH
Q psy5541 131 LSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGKAQE 175 (301)
Q Consensus 131 ~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~~~~~ 175 (301)
..||||+..-... | =.|||+|||........
T Consensus 23 QSNPyP~peGTRq-a-------------RRNRRRRWR~RQrQI~~ 53 (115)
T 2x7l_M 23 QSNPPPNPEGTRQ-A-------------RRNRRRRWRERQRQIHS 53 (115)
T ss_dssp HSSCCCCCCCCTT-T-------------HHHHHHHHHHHHHHHHH
T ss_pred ccCCCCCCCCchh-h-------------hHhHHHHHHHHHHHHHH
Confidence 7799998652221 1 15899999887654443
No 104
>2q1z_A RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc bindin transcription factor; 2.40A {Rhodobacter sphaeroides} PDB: 2z2s_A
Probab=35.34 E-value=19 Score=28.69 Aligned_cols=27 Identities=19% Similarity=0.261 Sum_probs=23.3
Q ss_pred HHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 143 ELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 143 ~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
++|+.+|++...|+++....|.+.|+.
T Consensus 156 eIA~~lgis~~tV~~~l~ra~~~Lr~~ 182 (184)
T 2q1z_A 156 ELAAETGLPLGTIKSRIRLALDRLRQH 182 (184)
T ss_dssp CSTTTCCCCCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHCcCHHHHHHHHHHHHHHHHHH
Confidence 578889999999999999888887764
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=34.64 E-value=49 Score=25.90 Aligned_cols=49 Identities=24% Similarity=0.455 Sum_probs=35.6
Q ss_pred CCCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHH----Hc--CCCchhhhhhhhhh
Q psy5541 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELAR----KC--NITLSQVSNWFGNK 162 (301)
Q Consensus 109 rr~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~----~~--~L~~~qV~~WFqNr 162 (301)
+++|..++.++...+..++. ..++-.+- ..||. .. +++...|..|..|+
T Consensus 6 ~~~R~~lT~~qK~~i~~~~~--~~~~~~~q---~~la~wa~~~f~~~is~stis~ilk~k 60 (144)
T 1iuf_A 6 KIKRRAITEHEKRALRHYFF--QLQNRSGQ---QDLIEWFREKFGKDISQPSVSQILSSK 60 (144)
T ss_dssp CCSSSCCCSHHHHHHHHHHH--SSSSCCCH---HHHHHHHHHHHSSCCSSSSTTHHHHHH
T ss_pred CCcCccCCHHHHHHHHHHHH--HhCCCCCH---HHHHHHHHHHHCCCCcHHHHHHHHhhH
Confidence 57889999999999988761 24454443 34555 77 78889999998653
No 106
>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=31.20 E-value=72 Score=22.81 Aligned_cols=51 Identities=10% Similarity=0.098 Sum_probs=36.6
Q ss_pred CCCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 110 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 110 r~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
.....|+..+..+|.-.. ... ...++|..+|++...|++...+-+.|..-.
T Consensus 25 ~~~~~Lt~rE~~Vl~l~~---~G~------s~~eIA~~L~iS~~TV~~~~~~i~~Klgv~ 75 (90)
T 3ulq_B 25 KEQDVLTPRECLILQEVE---KGF------TNQEIADALHLSKRSIEYSLTSIFNKLNVG 75 (90)
T ss_dssp ----CCCHHHHHHHHHHH---TTC------CHHHHHHHHTCCHHHHHHHHHHHHHHTTCS
T ss_pred ccccCCCHHHHHHHHHHH---cCC------CHHHHHHHHCcCHHHHHHHHHHHHHHHCCC
Confidence 345578999999997665 222 256889999999999999988877776543
No 107
>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=29.41 E-value=1.2e+02 Score=22.24 Aligned_cols=54 Identities=9% Similarity=0.178 Sum_probs=38.3
Q ss_pred CCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 114 ~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
.++..+..++.-.|+...... -.-.++|..+|++...|+......+.+.|+...
T Consensus 19 ~Lp~reR~Vi~Lry~l~~~e~----~s~~EIA~~lgiS~~tVr~~~~rAlkkLR~~~~ 72 (99)
T 3t72_q 19 GLTAREAKVLRMRFGIDMNTD----YTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 72 (99)
T ss_pred cCCHHHHHHHHHHHhcCCCCC----CCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHH
Confidence 466777778877662110111 234678999999999999999988888887654
No 108
>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=28.93 E-value=20 Score=23.16 Aligned_cols=23 Identities=22% Similarity=0.202 Sum_probs=19.9
Q ss_pred HHHHHHHcCCCchhhhhhhhhhH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKR 163 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR 163 (301)
..+||+.+|++...|..|..+++
T Consensus 17 ~~~lA~~~gis~~~i~~~e~g~~ 39 (66)
T 2xi8_A 17 QSELAALLEVSRQTINGIEKNKY 39 (66)
T ss_dssp HHHHHHHHTSCHHHHHHHHTTSC
T ss_pred HHHHHHHHCcCHHHHHHHHcCCC
Confidence 46799999999999999998754
No 109
>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=28.81 E-value=17 Score=22.18 Aligned_cols=22 Identities=23% Similarity=0.365 Sum_probs=18.7
Q ss_pred HHHHHHHcCCCchhhhhhhhhh
Q psy5541 141 KEELARKCNITLSQVSNWFGNK 162 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNr 162 (301)
..++|+.+|++...|..|+...
T Consensus 24 ~~~ia~~lgvs~~Tv~r~l~~~ 45 (52)
T 1jko_C 24 RQQLAIIFGIGVSTLYRYFPAS 45 (52)
T ss_dssp HHHHHHTTSCCHHHHHHHSCTT
T ss_pred HHHHHHHHCCCHHHHHHHHHHc
Confidence 4578999999999999999643
No 110
>3bd1_A CRO protein; transcription factor, helix-turn-helix, prophage, structural evolution, transcription; 1.40A {Xylella fastidiosa}
Probab=28.26 E-value=22 Score=24.43 Aligned_cols=23 Identities=30% Similarity=0.452 Sum_probs=20.4
Q ss_pred HHHHHHHcCCCchhhhhhhhhhH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKR 163 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR 163 (301)
..+||+.+|++...|..|..+++
T Consensus 14 q~~lA~~lgvs~~~is~~e~g~~ 36 (79)
T 3bd1_A 14 VSALAASLGVRQSAISNWRARGR 36 (79)
T ss_dssp HHHHHHHHTCCHHHHHHHHHHTC
T ss_pred HHHHHHHHCCCHHHHHHHHHCCC
Confidence 46899999999999999998765
No 111
>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=28.05 E-value=21 Score=23.17 Aligned_cols=24 Identities=13% Similarity=0.315 Sum_probs=20.3
Q ss_pred HHHHHHHcCCCchhhhhhhhhhHH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKRI 164 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR~ 164 (301)
..+||+.+|++...|..|..+++.
T Consensus 21 ~~~lA~~~gis~~~i~~~e~g~~~ 44 (68)
T 2r1j_L 21 QAALGKMVGVSNVAISQWERSETE 44 (68)
T ss_dssp HHHHHHHHTSCHHHHHHHHTTSSC
T ss_pred HHHHHHHHCCCHHHHHHHHcCCCC
Confidence 467899999999999999987543
No 112
>3clo_A Transcriptional regulator; NP_811094.1, bacterial regulatory proteins, LUXR family, structural genomics; 2.04A {Bacteroides thetaiotaomicron vpi-5482}
Probab=27.77 E-value=65 Score=27.55 Aligned_cols=50 Identities=18% Similarity=0.111 Sum_probs=39.5
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIG 171 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~~ 171 (301)
..++..+..+|.-.+ ... .-.++|+.+|++...|++...+.|.|.+....
T Consensus 196 ~~L~~~erevl~L~~---~G~------s~~EIA~~L~iS~~TVk~~l~ra~~kL~~~~~ 245 (258)
T 3clo_A 196 NILSEREKEILRCIR---KGL------SSKEIAATLYISVNTVNRHRQNILEKLSVGNS 245 (258)
T ss_dssp TSSCHHHHHHHHHHH---TTC------CHHHHHHHHTCCHHHHHHHHHHHHHHTTCSSH
T ss_pred ccCCHHHHHHHHHHH---cCC------CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCCH
Confidence 468899999887764 222 24578999999999999999999988887543
No 113
>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=26.73 E-value=22 Score=23.34 Aligned_cols=24 Identities=17% Similarity=0.124 Sum_probs=20.8
Q ss_pred HHHHHHHcCCCchhhhhhhhhhHH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKRI 164 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR~ 164 (301)
..+||+.+|++...|..|..+++.
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 467899999999999999987665
No 114
>2lfw_A PHYR sigma-like domain; signal transduction, response regulator, sigma factor mimicr sigma factor, general stress response, signaling protein; NMR {Sphingomonas SP}
Probab=24.47 E-value=35 Score=26.77 Aligned_cols=50 Identities=12% Similarity=0.098 Sum_probs=36.8
Q ss_pred CCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 113 ~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
..++..+..+|.-.+. ..+ .-.++|+.+|++...|+++....|.+.|+..
T Consensus 92 ~~Lp~~~r~vl~L~~~----~g~----s~~EIA~~lgis~~tV~~~l~rar~~Lr~~l 141 (157)
T 2lfw_A 92 ARMTPLSRQALLLTAM----EGF----SPEDAAYLIEVDTSEVETLVTEALAEIEKQT 141 (157)
T ss_dssp TTSCTTHHHHHTTTSS----SCC----CHHHHHHTTTSCHHHHHHHHHHHHHHHHTTS
T ss_pred HhCCHHHHHHHHHHHH----cCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHH
Confidence 3577778877765431 122 2467899999999999999988888887754
No 115
>3bs3_A Putative DNA-binding protein; XRE-family, structural genomics, PSI-2, protein structure initiative; HET: MSE; 1.65A {Bacteroides fragilis}
Probab=24.43 E-value=26 Score=23.37 Aligned_cols=23 Identities=26% Similarity=0.413 Sum_probs=20.1
Q ss_pred HHHHHHHcCCCchhhhhhhhhhH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKR 163 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR 163 (301)
..+||+.+|++...|..|..+++
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 46799999999999999998765
No 116
>2q0o_A Probable transcriptional activator protein TRAR; helix-turn-helix, two-helix coiled coil; HET: LAE; 2.00A {Rhizobium SP}
Probab=23.99 E-value=85 Score=26.30 Aligned_cols=51 Identities=12% Similarity=0.073 Sum_probs=39.1
Q ss_pred CCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhhh
Q psy5541 111 KRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNI 170 (301)
Q Consensus 111 ~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~~ 170 (301)
+...++..+..+|.-.. ... .-.++|+.+|+++..|++...|.+.|..-..
T Consensus 172 ~~~~Lt~~e~~vl~~~~---~g~------s~~eIa~~l~is~~tV~~~~~~~~~kl~~~~ 222 (236)
T 2q0o_A 172 PKQMLSPREMLCLVWAS---KGK------TASVTANLTGINARTVQHYLDKARAKLDAES 222 (236)
T ss_dssp GGGSCCHHHHHHHHHHH---TTC------CHHHHHHHHCCCHHHHHHHHHHHHHHHTCSS
T ss_pred CcCCCCHHHHHHHHHHH---cCC------CHHHHHHHHCcCHHHHHHHHHHHHHHhCCCC
Confidence 34579999999996644 222 2367899999999999999998888876543
No 117
>1adr_A P22 C2 repressor; transcription regulation; NMR {Enterobacteria phage P22} SCOP: a.35.1.2
Probab=23.85 E-value=28 Score=23.19 Aligned_cols=24 Identities=13% Similarity=0.315 Sum_probs=20.3
Q ss_pred HHHHHHHcCCCchhhhhhhhhhHH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKRI 164 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR~ 164 (301)
..+||+.+|++...|..|..+++.
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 457899999999999999977543
No 118
>3omt_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 1.65A {Cytophaga hutchinsonii}
Probab=23.60 E-value=31 Score=23.08 Aligned_cols=23 Identities=22% Similarity=0.267 Sum_probs=20.0
Q ss_pred HHHHHHHcCCCchhhhhhhhhhH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKR 163 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR 163 (301)
..+||+.+|++...|..|..+++
T Consensus 24 q~~lA~~~gis~~~is~~e~g~~ 46 (73)
T 3omt_A 24 NLWLTETLDKNKTTVSKWCTNDV 46 (73)
T ss_dssp HHHHHHHTTCCHHHHHHHHTTSS
T ss_pred HHHHHHHHCcCHHHHHHHHcCCC
Confidence 45799999999999999998763
No 119
>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=22.70 E-value=30 Score=22.49 Aligned_cols=24 Identities=25% Similarity=0.257 Sum_probs=20.6
Q ss_pred HHHHHHHcCCCchhhhhhhhhhHH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKRI 164 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR~ 164 (301)
..+||..+|++...|..|..+++.
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 467899999999999999977654
No 120
>2b5a_A C.BCLI; helix-turn-helix motif, gene regulation; 1.54A {Bacillus caldolyticus} SCOP: a.35.1.3
Probab=22.33 E-value=30 Score=23.12 Aligned_cols=23 Identities=26% Similarity=0.263 Sum_probs=19.7
Q ss_pred HHHHHHHcCCCchhhhhhhhhhH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKR 163 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR 163 (301)
..+||+.+|++...|..|..+++
T Consensus 26 q~~lA~~~gis~~~i~~~e~g~~ 48 (77)
T 2b5a_A 26 QEELADLAGLHRTYISEVERGDR 48 (77)
T ss_dssp HHHHHHHHTCCHHHHHHHHTTCS
T ss_pred HHHHHHHHCCCHHHHHHHHCCCC
Confidence 45789999999999999997754
No 121
>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=22.20 E-value=1.2e+02 Score=25.39 Aligned_cols=50 Identities=12% Similarity=0.101 Sum_probs=38.1
Q ss_pred CCCCCCHHHHHHHHhHhhcCCCCCCCCHHHHHHHHHHcCCCchhhhhhhhhhHHHhhhh
Q psy5541 111 KRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169 (301)
Q Consensus 111 ~R~~~~~~q~~~L~~~f~~h~~~~yPs~~~r~~LA~~~~L~~~qV~~WFqNrR~r~kk~ 169 (301)
....++..+..+|.-.. ... .-.++|..+|+++..|++...|.+.|..-.
T Consensus 170 ~~~~Lt~~e~~vl~~~~---~g~------s~~eIa~~l~is~~tV~~~~~~~~~kl~~~ 219 (234)
T 1l3l_A 170 DAAWLDPKEATYLRWIA---VGK------TMEEIADVEGVKYNSVRVKLREAMKRFDVR 219 (234)
T ss_dssp CCCCCCHHHHHHHHHHT---TTC------CHHHHHHHHTCCHHHHHHHHHHHHHHHTCS
T ss_pred CCCCCCHHHHHHHHHHH---cCC------CHHHHHHHHCcCHHHHHHHHHHHHHHhCCC
Confidence 34579999999986543 221 246789999999999999998888876554
No 122
>2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid}
Probab=21.40 E-value=35 Score=21.52 Aligned_cols=20 Identities=10% Similarity=0.295 Sum_probs=17.5
Q ss_pred HHHHHHHcCCCchhhhhhhh
Q psy5541 141 KEELARKCNITLSQVSNWFG 160 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFq 160 (301)
..++|+.+|++...|..|+.
T Consensus 34 ~~eIA~~lgis~~TV~~~l~ 53 (55)
T 2x48_A 34 VQQIANALGVSERKVRRYLE 53 (55)
T ss_dssp HHHHHHHHTSCHHHHHHHHT
T ss_pred HHHHHHHHCcCHHHHHHHHH
Confidence 45789999999999999974
No 123
>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=21.05 E-value=38 Score=23.47 Aligned_cols=23 Identities=22% Similarity=0.176 Sum_probs=20.3
Q ss_pred HHHHHHHcCCCchhhhhhhhhhH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKR 163 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR 163 (301)
..+||+.+|++...|..|..+++
T Consensus 34 q~elA~~~gis~~~is~~e~g~~ 56 (83)
T 2a6c_A 34 QFKAAELLGVTQPRVSDLMRGKI 56 (83)
T ss_dssp HHHHHHHHTSCHHHHHHHHTTCG
T ss_pred HHHHHHHHCcCHHHHHHHHcCCC
Confidence 46789999999999999998765
No 124
>3b7h_A Prophage LP1 protein 11; structural genomics, PSI2, MCSG, protein structure initiative, midwest center for structural genomics; 2.00A {Lactobacillus plantarum WCFS1}
Probab=20.74 E-value=34 Score=22.89 Aligned_cols=23 Identities=17% Similarity=0.263 Sum_probs=20.2
Q ss_pred HHHHHHHcCCCchhhhhhhhhhH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKR 163 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR 163 (301)
..+||..+|++...|..|..+++
T Consensus 23 q~~lA~~~gis~~~i~~~e~g~~ 45 (78)
T 3b7h_A 23 INRVATLAGLNQSTVNAMFEGRS 45 (78)
T ss_dssp HHHHHHHHTCCHHHHHHHHCTTC
T ss_pred HHHHHHHHCcCHHHHHHHHcCCC
Confidence 45789999999999999998766
No 125
>1y7y_A C.AHDI; helix-turn-helix, DNA-binding protein, transcriptional regulator, transcription regulator; 1.69A {Aeromonas hydrophila} SCOP: a.35.1.3
Probab=20.47 E-value=35 Score=22.52 Aligned_cols=23 Identities=26% Similarity=0.161 Sum_probs=19.6
Q ss_pred HHHHHHHcCCCchhhhhhhhhhH
Q psy5541 141 KEELARKCNITLSQVSNWFGNKR 163 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WFqNrR 163 (301)
..+||+.+|++...|..|..+++
T Consensus 29 ~~~lA~~~gis~~~i~~~e~g~~ 51 (74)
T 1y7y_A 29 QETLAFLSGLDRSYVGGVERGQR 51 (74)
T ss_dssp HHHHHHHHTCCHHHHHHHHTTCS
T ss_pred HHHHHHHHCcCHHHHHHHHCCCC
Confidence 45789999999999999997753
No 126
>1rzs_A Antirepressor, regulatory protein CRO; helix-turn-helix, DNA-binding protein, structural evolution, transcription; NMR {Enterobacteria phage P22} SCOP: a.35.1.2
Probab=20.39 E-value=36 Score=22.46 Aligned_cols=19 Identities=26% Similarity=0.473 Sum_probs=17.5
Q ss_pred HHHHHHHcCCCchhhhhhh
Q psy5541 141 KEELARKCNITLSQVSNWF 159 (301)
Q Consensus 141 r~~LA~~~~L~~~qV~~WF 159 (301)
..+||+.+|++..-|..|.
T Consensus 13 q~~lA~~lGvs~~~Vs~we 31 (61)
T 1rzs_A 13 QRAVAKALGISDAAVSQWK 31 (61)
T ss_dssp HHHHHHHHTCCHHHHHHCC
T ss_pred HHHHHHHhCCCHHHHHHHH
Confidence 4679999999999999998
Done!