GREMLIN Database
HDFR - HTH-type transcriptional regulator HdfR
UniProt: P0A8R9 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11449
Length: 279 (266)
Sequences: 78513 (57029)
Seq/√Len: 3496.7

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
70_T74_T3.6431.00
15_T24_S3.4341.00
159_Q274_V2.6311.00
94_G142_L2.5781.00
67_Y81_E2.5051.00
11_E24_S2.3921.00
219_I226_T2.3141.00
90_E124_E2.2511.00
163_Y251_P2.2271.00
160_L163_Y2.2181.00
160_L251_P2.1841.00
165_T230_V2.1481.00
45_V60_A2.1291.00
90_E122_Q2.1251.00
8_T35_R2.1101.00
20_R23_E2.0831.00
67_Y74_T2.0391.00
10_L69_E2.0351.00
14_R69_E2.0151.00
163_Y249_S2.0071.00
10_L14_R1.9931.00
92_S124_E1.9921.00
110_R272_I1.9851.00
10_L65_L1.9631.00
11_E14_R1.9471.00
11_E15_T1.9441.00
167_A230_V1.9431.00
13_S57_L1.8971.00
8_T32_V1.8941.00
71_L75_W1.8731.00
65_L69_E1.8451.00
220_A238_G1.8441.00
170_T242_V1.8281.00
18_F36_I1.7771.00
49_T56_R1.7391.00
64_L78_A1.7201.00
63_K81_E1.7151.00
158_S253_Y1.7141.00
167_A241_T1.7141.00
13_S65_L1.6701.00
136_Q141_Q1.6551.00
15_T20_R1.6251.00
10_L68_A1.5911.00
14_R24_S1.5871.00
157_S258_Q1.5831.00
5_L35_R1.5601.00
111_L269_L1.5481.00
182_Y185_L1.5471.00
9_F65_L1.5401.00
67_Y70_T1.5251.00
135_K139_E1.5161.00
5_L42_Q1.5141.00
17_H20_R1.5121.00
8_T27_L1.5001.00
111_L121_L1.4921.00
19_G29_Q1.4921.00
159_Q256_W1.4901.00
5_L38_Q1.4881.00
28_T31_A1.4881.00
59_A62_E1.4641.00
11_E25_L1.4551.00
147_T255_I1.4481.00
46_N49_T1.4451.00
157_S256_W1.4261.00
67_Y77_A1.4261.00
101_E213_E1.4111.00
149_E253_Y1.4021.00
71_L78_A1.3891.00
10_L72_M1.3841.00
256_W270_L1.3741.00
51_H56_R1.3681.00
92_S126_R1.3581.00
136_Q142_L1.3471.00
137_L145_L1.3451.00
64_L79_R1.3401.00
172_A238_G1.3301.00
88_H120_G1.3221.00
74_T77_A1.3201.00
270_L274_V1.3201.00
164_F231_S1.3191.00
144_L266_I1.3181.00
138_H155_E1.3151.00
268_D271_K1.3101.00
254_A270_L1.3021.00
3_T75_W1.3001.00
215_A226_T1.2871.00
42_Q79_R1.2851.00
144_L254_A1.2841.00
114_N118_H1.2801.00
262_K266_I1.2761.00
66_P70_T1.2691.00
217_Q220_A1.2581.00
170_T225_C1.2551.00
67_Y78_A1.2481.00
63_K66_P1.2441.00
110_R114_N1.2421.00
160_L253_Y1.2291.00
114_N272_I1.2211.00
27_L31_A1.2201.00
109_G113_Q1.2081.00
9_F48_F1.2061.00
172_A240_H1.1901.00
230_V241_T1.1881.00
158_S255_I1.1871.00
62_E66_P1.1811.00
37_R41_N1.1791.00
230_V234_R1.1751.00
9_F13_S1.1731.00
112_Y206_I1.1701.00
34_F38_Q1.1631.00
109_G221_M1.1611.00
128_A136_Q1.1351.00
34_F37_R1.1261.00
193_Q196_A1.1251.00
9_F47_L1.1211.00
33_S37_R1.1161.00
110_R113_Q1.1111.00
174_S177_K1.1091.00
91_F269_L1.1041.00
70_T77_A1.1001.00
170_T174_S1.0981.00
209_T215_A1.0961.00
118_H268_D1.0961.00
63_K67_Y1.0941.00
100_W127_I1.0931.00
18_F55_I1.0891.00
12_V21_A1.0851.00
124_E208_T1.0851.00
106_Q221_M1.0831.00
6_L68_A1.0781.00
11_E21_A1.0731.00
111_L272_I1.0721.00
169_Y241_T1.0641.00
257_L260_S1.0641.00
183_L224_G1.0631.00
71_L74_T1.0621.00
217_Q221_M1.0571.00
267_R271_K1.0511.00
174_S178_G1.0501.00
138_H153_M1.0491.00
171_S222_L1.0411.00
35_R38_Q1.0361.00
4_E7_K1.0341.00
192_Q196_A1.0341.00
79_R83_A1.0321.00
7_K76_Q1.0281.00
169_Y233_A1.0271.00
194_H198_L1.0271.00
165_T249_S1.0211.00
180_L240_H1.0201.00
159_Q270_L1.0151.00
271_K274_V1.0141.00
107_W273_N1.0061.00
57_L61_G1.0001.00
196_A200_G0.9961.00
8_T25_L0.9951.00
216_Q220_A0.9921.00
73_S77_A0.9881.00
27_L32_V0.9871.00
13_S48_F0.9871.00
64_L68_A0.9771.00
126_R136_Q0.9721.00
111_L118_H0.9681.00
76_Q79_R0.9651.00
193_Q197_G0.9621.00
136_Q139_E0.9561.00
9_F57_L0.9561.00
12_V18_F0.9541.00
76_Q80_K0.9521.00
63_K85_T0.9511.00
38_Q41_N0.9491.00
21_A32_V0.9461.00
168_L225_C0.9451.00
209_T218_Q0.9431.00
107_W272_I0.9401.00
9_F39_L0.9321.00
20_R24_S0.9211.00
263_N266_I0.9171.00
45_V82_V0.9151.00
94_G145_L0.9121.00
48_F55_I0.9101.00
94_G147_T0.9051.00
142_L145_L0.9011.00
70_T73_S0.9011.00
194_H197_G0.8991.00
89_N265_L0.8921.00
198_L202_D0.8921.00
16_R56_R0.8911.00
66_P69_E0.8871.00
13_S61_G0.8721.00
97_A211_S0.8671.00
157_S160_L0.8651.00
156_F255_I0.8631.00
19_G23_E0.8621.00
197_G201_A0.8601.00
134_V138_H0.8591.00
170_T175_K0.8571.00
93_I144_L0.8531.00
121_L265_L0.8521.00
60_A85_T0.8491.00
89_N121_L0.8421.00
51_H54_N0.8421.00
25_L32_V0.8411.00
149_E251_P0.8391.00
175_K180_L0.8371.00
109_G223_N0.8351.00
60_A82_V0.8341.00
75_W78_A0.8311.00
169_Y226_T0.8311.00
75_W79_R0.8261.00
126_R142_L0.8261.00
77_A81_E0.8221.00
9_F64_L0.8201.00
155_E258_Q0.8191.00
13_S16_R0.8161.00
29_Q33_S0.8091.00
122_Q204_V0.8071.00
3_T72_M0.8061.00
16_R62_E0.8041.00
60_A63_K0.8021.00
37_R46_N0.8011.00
14_R65_L0.8011.00
74_T78_A0.7951.00
12_V36_I0.7911.00
195_E199_I0.7881.00
171_S223_N0.7861.00
16_R54_N0.7811.00
112_Y223_N0.7781.00
15_T21_A0.7771.00
218_Q223_N0.7761.00
12_V48_F0.7751.00
264_A268_D0.7751.00
4_E35_R0.7711.00
83_A86_S0.7701.00
5_L8_T0.7641.00
165_T247_T0.7611.00
68_A71_L0.7601.00
7_K11_E0.7571.00
12_V32_V0.7551.00
171_S174_S0.7541.00
260_S263_N0.7481.00
95_A100_W0.7471.00
78_A82_V0.7441.00
170_T176_L0.7441.00
169_Y228_L0.7431.00
144_L269_L0.7411.00
138_H156_F0.7401.00
174_S225_C0.7401.00
196_A199_I0.7371.00
49_T58_T0.7371.00
18_F32_V0.7331.00
211_S214_L0.7321.00
173_P177_K0.7311.00
31_A35_R0.7301.00
220_A236_K0.7301.00
111_L268_D0.7281.00
165_T243_V0.7281.00
69_E73_S0.7271.00
62_E65_L0.7221.00
175_K178_G0.7211.00
198_L201_A0.7171.00
114_N268_D0.7171.00
143_D266_I0.7161.00
57_L62_E0.7141.00
229_P232_W0.7131.00
60_A64_L0.7051.00
170_T240_H0.7051.00
40_E45_V0.7001.00
92_S142_L0.7001.00
56_R62_E0.6991.00
92_S143_D0.6951.00
140_R257_L0.6931.00
173_P222_L0.6921.00
268_D272_I0.6901.00
262_K267_R0.6881.00
183_L186_E0.6861.00
59_A63_K0.6851.00
177_K240_H0.6791.00
7_K10_L0.6771.00
40_E50_R0.6711.00
91_F265_L0.6711.00
23_E26_Y0.6681.00
64_L82_V0.6671.00
49_T54_N0.6651.00
168_L227_W0.6631.00
194_H199_I0.6581.00
175_K179_D0.6561.00
67_Y71_L0.6561.00
73_S76_Q0.6551.00
172_A237_G0.6531.00
176_L179_D0.6521.00
182_Y187_W0.6511.00
68_A72_M0.6511.00
183_L187_W0.6501.00
12_V17_H0.6501.00
101_E217_Q0.6491.00
173_P176_L0.6471.00
122_Q208_T0.6451.00
77_A80_K0.6441.00
127_I210_S0.6391.00
191_F195_E0.6391.00
104_L107_W0.6391.00
36_I40_E0.6371.00
197_G202_D0.6351.00
192_Q208_T0.6341.00
95_A104_L0.6271.00
97_A129_Q0.6251.00
21_A25_L0.6251.00
264_A267_R0.6201.00
137_L255_I0.6201.00
218_Q224_G0.6161.00
4_E38_Q0.6151.00
146_I273_N0.6151.00
89_N120_G0.6141.00
18_F54_N0.6111.00
106_Q109_G0.6091.00
207_L218_Q0.6091.00
148_T250_R0.6061.00
144_L270_L0.6041.00
89_N118_H0.6041.00
4_E8_T0.6031.00
7_K72_M0.6021.00
88_H122_Q0.6021.00
91_F144_L0.6021.00
192_Q198_L0.6021.00
197_G200_G0.6001.00
195_E198_L0.6001.00
269_L273_N0.5981.00
118_H121_L0.5981.00
80_K84_H0.5971.00
174_S179_D0.5951.00
137_L156_F0.5931.00
127_I211_S0.5931.00
106_Q110_R0.5921.00
45_V49_T0.5921.00
173_P240_H0.5901.00
30_S34_F0.5871.00
94_G128_A0.5841.00
184_R205_P0.5841.00
209_T214_L0.5831.00
43_L64_L0.5831.00
63_K82_V0.5821.00
72_M76_Q0.5821.00
199_I203_E0.5821.00
9_F61_G0.5811.00
238_G241_T0.5811.00
162_G252_L0.5781.00
31_A34_F0.5781.00
256_W267_R0.5771.00
99_L103_M0.5761.00
178_G181_N0.5721.00
48_F57_L0.5711.00
94_G126_R0.5711.00
28_T34_F0.5711.00
164_F250_R0.5691.00
166_L227_W0.5681.00
215_A219_I0.5661.00
183_L215_A0.5651.00
43_L82_V0.5641.00
199_I202_D0.5641.00
57_L65_L0.5621.00
157_S259_N0.5591.00
170_T177_K0.5531.00
43_L46_N0.5471.00
189_P192_Q0.5451.00
108_L123_F0.5431.00
8_T36_I0.5421.00
101_E211_S0.5411.00
46_N60_A0.5401.00
161_L254_A0.5381.00
18_F29_Q0.5381.00
18_F50_R0.5381.00
228_L233_A0.5381.00
16_R55_I0.5361.00
27_L35_R0.5361.00
66_P81_E0.5301.00
13_S62_E0.5291.00
80_K83_A0.5281.00
8_T21_A0.5281.00
103_M107_W0.5261.00
106_Q217_Q0.5241.00
105_N109_G0.5231.00
72_M75_W0.5211.00
216_Q233_A0.5211.00
266_I270_L0.5201.00
95_A125_A0.5191.00
71_L79_R0.5191.00
81_E84_H0.5191.00
149_E158_S0.5161.00
6_L64_L0.5151.00
265_L268_D0.5131.00
212_A229_P0.5131.00
138_H141_Q0.5121.00
67_Y82_V0.5051.00
181_N244_D0.5031.00
96_S99_L0.5021.00
176_L180_L0.5021.00
185_L189_P0.5021.00
109_G112_Y0.5001.00
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
2esnA 3 0.9857 100 0.128 Contact Map
4x6gA 4 0.9892 100 0.131 Contact Map
3fxqA 3 0.9857 100 0.132 Contact Map
1uthA 2 0.7348 100 0.136 Contact Map
2h98A 2 0.6738 100 0.142 Contact Map
1ixcA 4 0.9857 100 0.142 Contact Map
1al3A 1 0.6846 100 0.143 Contact Map
2h9bA 2 0.6738 100 0.144 Contact Map
3fzvA 4 0.9606 100 0.151 Contact Map
3hhgA 3 0.9785 100 0.164 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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