GREMLIN Database
YBHD - Uncharacterized HTH-type transcriptional regulator YbhD
UniProt: P52696 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13230
Length: 317 (288)
Sequences: 79683 (57906)
Seq/√Len: 3412.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
72_E76_K3.5521.00
17_S26_L3.3951.00
160_T291_I2.7291.00
98_A143_S2.5641.00
69_E83_N2.3981.00
233_V240_S2.3431.00
166_P244_G2.2571.00
114_K293_L2.2411.00
175_H191_Y2.2261.00
164_N268_T2.1871.00
16_E71_R2.1731.00
161_P164_N2.1641.00
13_I26_L2.1601.00
22_N25_K2.1571.00
94_M125_R2.1381.00
94_M123_K2.0991.00
184_E187_E2.0691.00
161_P268_T2.0511.00
12_V67_L2.0091.00
96_T125_R1.9841.00
10_A37_R1.9821.00
47_V62_A1.9771.00
164_N266_R1.9661.00
69_E76_K1.9451.00
114_K289_L1.9301.00
171_C258_I1.9291.00
20_F38_I1.9151.00
73_L77_F1.9121.00
13_I16_E1.9051.00
10_A34_L1.9041.00
15_A59_L1.8801.00
234_E254_S1.8791.00
12_V71_R1.8691.00
194_I238_G1.8661.00
13_I17_S1.8591.00
12_V16_E1.8281.00
67_L71_R1.8181.00
168_V244_G1.7861.00
134_C146_G1.7621.00
51_E58_T1.7531.00
66_L80_T1.7411.00
115_F286_F1.6891.00
192_K220_F1.6881.00
159_F270_G1.6551.00
65_R83_N1.6491.00
16_E26_L1.6401.00
168_V257_G1.6331.00
180_K187_E1.6271.00
11_F67_L1.6161.00
137_S142_E1.6031.00
12_V70_A1.5721.00
15_A67_L1.5711.00
10_A29_I1.5691.00
158_D275_K1.5681.00
90_Y121_N1.5531.00
115_F122_I1.5531.00
17_S22_N1.5461.00
21_N31_Q1.5421.00
61_K64_K1.5341.00
136_E140_C1.5241.00
203_R207_E1.4811.00
7_S37_R1.4781.00
12_V74_I1.4591.00
7_S44_D1.4571.00
30_T33_A1.4551.00
48_Q51_E1.4441.00
160_T273_R1.4421.00
279_L283_A1.4251.00
19_S22_N1.4101.00
13_I27_L1.4061.00
287_F291_I1.4021.00
4_E7_S1.3971.00
7_S40_K1.3961.00
173_R254_S1.3871.00
158_D273_R1.3851.00
73_L80_T1.3841.00
148_N272_I1.3801.00
69_E72_E1.3791.00
69_E79_E1.3651.00
5_L77_F1.3611.00
150_N270_G1.3551.00
92_R121_N1.3541.00
139_L156_S1.3451.00
114_K118_L1.3451.00
145_F283_A1.3421.00
271_I287_F1.3381.00
273_R287_F1.3301.00
105_F227_S1.3251.00
285_R288_A1.3051.00
96_T127_L1.3041.00
44_D81_L1.2951.00
171_C239_I1.2921.00
191_Y239_I1.2811.00
145_F271_I1.2781.00
137_S143_S1.2691.00
165_E245_L1.2591.00
244_G248_P1.2571.00
66_L81_L1.2561.00
116_N220_F1.2551.00
229_S240_S1.2551.00
64_K68_P1.2451.00
39_K43_E1.2421.00
53_T58_T1.2261.00
210_L215_W1.2031.00
244_G257_G1.2021.00
76_K79_E1.2011.00
114_K117_E1.1981.00
138_V146_G1.1951.00
118_L289_L1.1941.00
173_R256_I1.1871.00
194_I229_S1.1861.00
68_P72_E1.1851.00
176_P191_Y1.1821.00
231_G234_E1.1771.00
65_R68_P1.1761.00
11_F50_F1.1751.00
95_V286_F1.1671.00
116_N192_K1.1661.00
69_E80_T1.1651.00
248_P251_P1.1561.00
113_G117_E1.1561.00
159_F272_I1.1521.00
161_P270_G1.1521.00
181_Q256_I1.1481.00
9_K78_D1.1431.00
11_F49_L1.1421.00
35_T39_K1.1271.00
36_R39_K1.1181.00
115_F289_L1.1171.00
29_I33_A1.1171.00
11_F15_A1.1151.00
125_R222_E1.1091.00
14_L23_A1.1081.00
170_A257_G1.1071.00
20_F57_V1.1051.00
223_V229_S1.0961.00
274_R277_A1.0931.00
36_R40_K1.0901.00
288_A291_I1.0881.00
6_S9_K1.0881.00
113_G235_A1.0881.00
119_Y285_R1.0801.00
72_E79_E1.0781.00
192_K218_D1.0761.00
284_E288_A1.0631.00
73_L76_K1.0621.00
289_L293_L1.0601.00
104_V128_E1.0601.00
13_I23_A1.0601.00
8_M70_A1.0591.00
59_L63_G1.0521.00
172_R236_G1.0501.00
37_R40_K1.0451.00
111_A290_L1.0381.00
182_L261_V1.0361.00
250_A253_S1.0321.00
257_G260_L1.0261.00
183_V187_E1.0191.00
169_L239_I1.0151.00
139_L154_N1.0101.00
185_W262_E1.0091.00
65_R69_E1.0041.00
231_G235_A1.0001.00
78_D82_F0.9961.00
170_A247_M0.9951.00
110_L235_A0.9941.00
118_L292_N0.9941.00
10_A27_L0.9931.00
160_T287_F0.9871.00
81_L85_R0.9841.00
15_A50_F0.9821.00
29_I34_L0.9791.00
166_P266_R0.9751.00
204_L207_E0.9721.00
78_D81_L0.9711.00
115_F119_Y0.9671.00
230_L234_E0.9661.00
137_S140_C0.9561.00
249_H252_Y0.9561.00
11_F59_L0.9521.00
175_H192_K0.9461.00
156_S275_K0.9431.00
171_C175_H0.9431.00
14_L20_F0.9381.00
66_L70_A0.9351.00
280_S283_A0.9351.00
195_G219_W0.9311.00
204_L208_Q0.9301.00
50_F57_V0.9291.00
15_A63_G0.9281.00
75_K79_E0.9261.00
289_L292_N0.9241.00
223_V232_L0.9231.00
111_A289_L0.9221.00
47_V84_I0.9211.00
11_F41_M0.9181.00
123_K218_D0.9101.00
23_A34_L0.9001.00
98_A148_N0.8951.00
143_S146_G0.8941.00
127_L137_S0.8931.00
133_N136_E0.8931.00
40_K43_E0.8881.00
171_C176_P0.8821.00
175_H178_A0.8801.00
68_P71_R0.8781.00
157_I272_I0.8731.00
101_P225_H0.8691.00
122_I282_A0.8661.00
187_E190_G0.8661.00
179_K192_K0.8651.00
21_N25_K0.8641.00
22_N26_L0.8551.00
192_K219_W0.8541.00
170_A240_S0.8531.00
18_S58_T0.8521.00
150_N268_T0.8521.00
97_L145_F0.8511.00
288_A292_N0.8501.00
98_A134_C0.8491.00
14_L38_I0.8381.00
176_P181_Q0.8311.00
175_H179_K0.8261.00
65_R87_M0.8241.00
53_T56_K0.8241.00
27_L34_L0.8211.00
98_A146_G0.8191.00
193_M217_L0.8131.00
72_E75_K0.8111.00
6_S37_R0.8101.00
91_H119_Y0.8091.00
62_A84_I0.8071.00
174_D178_A0.8061.00
5_L74_I0.8041.00
158_D161_P0.8031.00
127_L143_S0.8031.00
39_K48_Q0.8021.00
11_F66_L0.7991.00
186_Q189_V0.7921.00
209_Q213_K0.7881.00
14_L50_F0.7871.00
18_S64_K0.7871.00
279_L284_E0.7861.00
15_A18_S0.7811.00
177_L191_Y0.7801.00
16_E67_L0.7781.00
93_G282_A0.7761.00
203_R222_E0.7721.00
113_G237_L0.7701.00
172_R237_L0.7681.00
31_Q35_T0.7681.00
76_K80_T0.7621.00
59_L64_K0.7611.00
147_I290_L0.7611.00
145_F286_F0.7601.00
232_L237_L0.7561.00
166_P259_P0.7551.00
77_F80_T0.7551.00
93_G122_I0.7541.00
118_L285_R0.7541.00
62_A87_M0.7531.00
281_P285_R0.7511.00
17_S23_A0.7471.00
139_L157_I0.7441.00
206_I210_L0.7441.00
58_T64_K0.7441.00
114_K292_N0.7381.00
79_E83_N0.7361.00
18_S56_K0.7321.00
170_A242_L0.7301.00
85_R88_N0.7271.00
184_E261_V0.7261.00
96_T143_S0.7251.00
33_A37_R0.7231.00
171_C256_I0.7221.00
7_S10_A0.7161.00
116_N237_L0.7161.00
208_Q212_D0.7151.00
208_Q211_A0.7141.00
135_M139_L0.7121.00
250_A257_G0.7121.00
111_A293_L0.7101.00
80_T84_I0.7091.00
20_F56_K0.7051.00
77_F81_L0.7031.00
62_A65_R0.7031.00
247_M250_A0.7021.00
178_A256_I0.7021.00
209_Q212_D0.7011.00
115_F285_R0.7001.00
70_A73_L0.6991.00
20_F34_L0.6991.00
243_P246_A0.6961.00
99_C108_L0.6941.00
51_E60_T0.6921.00
14_L34_L0.6901.00
9_K13_I0.6891.00
166_P264_V0.6881.00
190_G218_D0.6871.00
225_H228_T0.6851.00
189_V215_W0.6851.00
99_C104_V0.6841.00
221_Y232_L0.6831.00
182_L259_P0.6801.00
51_E56_K0.6791.00
171_C177_L0.6791.00
75_K78_D0.6781.00
172_R175_H0.6771.00
70_A74_I0.6771.00
177_L180_K0.6771.00
234_E252_Y0.6771.00
96_T144_D0.6761.00
174_D256_I0.6761.00
95_V282_A0.6751.00
62_A66_L0.6751.00
210_L217_L0.6721.00
277_A280_S0.6711.00
170_A250_A0.6701.00
186_Q213_K0.6701.00
173_R253_S0.6621.00
42_E47_V0.6621.00
196_V229_S0.6601.00
144_D283_A0.6581.00
71_R75_K0.6561.00
206_I209_Q0.6501.00
79_E82_F0.6501.00
138_V272_I0.6471.00
197_R222_E0.6461.00
23_A27_L0.6451.00
61_K65_R0.6441.00
205_L209_Q0.6421.00
285_R289_L0.6401.00
42_E52_R0.6391.00
174_D177_L0.6381.00
92_R123_K0.6371.00
163_V269_L0.6361.00
169_L188_L0.6361.00
66_L84_I0.6351.00
64_K67_L0.6341.00
6_S40_K0.6321.00
141_N274_R0.6311.00
25_K28_N0.6311.00
14_L19_S0.6271.00
123_K222_E0.6261.00
204_L209_Q0.6261.00
207_E211_A0.6251.00
38_I42_E0.6191.00
193_M239_I0.6181.00
128_E224_R0.6181.00
65_R84_I0.6171.00
69_E73_L0.6151.00
184_E262_E0.6131.00
174_D236_G0.6121.00
169_L193_M0.6051.00
286_F290_L0.6041.00
145_F287_F0.6041.00
232_L238_G0.6021.00
59_L67_L0.6011.00
108_L111_A0.6001.00
229_S233_V0.5991.00
158_D276_D0.5991.00
128_E225_H0.5991.00
95_V145_F0.5941.00
9_K12_V0.5911.00
281_P284_E0.5901.00
203_R209_Q0.5871.00
32_P36_R0.5871.00
197_R224_R0.5861.00
133_N137_S0.5851.00
177_L183_V0.5831.00
82_F86_D0.5821.00
105_F231_G0.5821.00
182_L187_E0.5821.00
169_L241_A0.5801.00
112_I124_V0.5801.00
205_L208_Q0.5791.00
180_K183_V0.5741.00
176_P179_K0.5741.00
165_E267_R0.5741.00
176_P180_K0.5721.00
138_V157_I0.5701.00
45_L66_L0.5701.00
167_F241_A0.5691.00
33_A36_R0.5681.00
45_L84_I0.5671.00
110_L114_K0.5631.00
6_S10_A0.5621.00
223_V228_T0.5621.00
38_I50_F0.5611.00
47_V51_E0.5601.00
149_M267_R0.5601.00
103_A107_F0.5551.00
50_F59_L0.5541.00
207_E210_L0.5541.00
198_S222_E0.5531.00
105_F225_H0.5501.00
68_P83_N0.5501.00
30_T36_R0.5491.00
74_I77_F0.5481.00
70_A77_F0.5471.00
93_G119_Y0.5431.00
10_A38_I0.5421.00
45_L48_Q0.5371.00
147_I271_I0.5371.00
273_R284_E0.5351.00
98_A127_L0.5341.00
110_L113_G0.5341.00
230_L247_M0.5331.00
242_L247_M0.5311.00
171_C178_A0.5301.00
226_L243_P0.5281.00
9_K74_I0.5271.00
186_Q215_W0.5261.00
175_H239_I0.5251.00
8_M66_L0.5211.00
74_I78_D0.5201.00
93_G121_N0.5191.00
162_L271_I0.5141.00
283_A287_F0.5121.00
20_F52_R0.5111.00
48_Q62_A0.5111.00
136_E142_E0.5101.00
117_E178_A0.5081.00
10_A23_A0.5081.00
119_Y122_I0.5071.00
260_L263_P0.5071.00
69_E84_I0.5071.00
131_T148_N0.5061.00
18_S59_L0.5061.00
20_F31_Q0.5041.00
73_L81_L0.5021.00
18_S57_V0.5001.00
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 0.9274 100 0.14 Contact Map
3fzvA 4 0.9085 100 0.141 Contact Map
1uthA 2 0.7129 100 0.146 Contact Map
1ixcA 4 0.9211 100 0.148 Contact Map
3fxqA 3 0.9211 100 0.149 Contact Map
1al3A 1 0.7256 100 0.15 Contact Map
4x6gA 4 0.9527 100 0.153 Contact Map
2h98A 2 0.6688 100 0.155 Contact Map
2h9bA 2 0.6688 100 0.16 Contact Map
3hhgA 3 0.9243 100 0.171 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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