GREMLIN Database
LYSR - Transcriptional activator protein LysR
UniProt: P03030 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG10551
Length: 311 (288)
Sequences: 79703 (57981)
Seq/√Len: 3416.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
73_R77_G3.6071.00
18_A27_L3.4381.00
161_T291_Q2.7511.00
99_A144_H2.5791.00
70_E84_A2.4481.00
234_V241_S2.3711.00
176_H192_E2.2651.00
115_P293_G2.2201.00
14_A27_L2.2171.00
167_D245_P2.2141.00
165_S268_T2.2041.00
162_E165_S2.1901.00
95_E126_N2.1691.00
23_E26_H2.1571.00
17_T72_Q2.1561.00
231_C251_Y2.1321.00
95_E124_S2.0981.00
162_E268_T2.0581.00
185_T188_D2.0391.00
11_I38_E2.0321.00
13_H68_F2.0241.00
48_L63_Q2.0241.00
165_S266_P1.9841.00
70_E77_G1.9781.00
97_S126_N1.9761.00
11_I35_V1.9491.00
115_P289_H1.9401.00
21_L39_L1.9371.00
14_A17_T1.9351.00
195_I239_G1.9221.00
13_H72_Q1.9191.00
16_M60_P1.9151.00
135_L147_G1.9021.00
74_S78_L1.8971.00
13_H17_T1.8791.00
14_A18_A1.8761.00
169_V245_P1.8291.00
68_F72_Q1.8171.00
67_L81_I1.7671.00
52_E59_H1.7541.00
193_N221_I1.7161.00
138_W143_R1.7071.00
116_F286_F1.6761.00
66_R84_A1.6691.00
160_R270_S1.6681.00
17_T27_L1.6241.00
235_R251_Y1.6181.00
12_F68_F1.6111.00
172_L259_R1.5921.00
16_M68_F1.5911.00
11_I30_T1.5901.00
13_H71_V1.5731.00
18_A23_E1.5601.00
22_T32_Q1.5551.00
159_E275_L1.5551.00
116_F123_V1.5451.00
8_H38_E1.5431.00
181_K188_D1.5321.00
91_F122_D1.5131.00
31_S34_T1.5061.00
62_V65_L1.5021.00
8_H45_V1.4711.00
5_N8_H1.4621.00
8_H41_R1.4531.00
137_E141_A1.4501.00
49_K52_E1.4501.00
161_T273_R1.4471.00
13_H75_W1.4361.00
70_E73_R1.4311.00
20_S23_E1.4311.00
287_S291_Q1.4171.00
204_R208_D1.4101.00
279_S283_V1.4011.00
149_T272_I1.3991.00
14_A28_L1.3981.00
151_T270_S1.3941.00
74_S81_I1.3921.00
159_E273_R1.3791.00
70_E80_R1.3681.00
106_Q228_A1.3511.00
257_V260_R1.3481.00
6_L78_L1.3471.00
93_Q122_D1.3361.00
146_L283_V1.3351.00
273_R287_S1.3311.00
115_P119_R1.3271.00
271_L287_S1.3221.00
140_S157_G1.3211.00
97_S128_V1.3071.00
67_L82_V1.3011.00
285_A288_G1.2961.00
146_L271_L1.2881.00
45_V82_V1.2851.00
117_L221_I1.2801.00
172_L240_I1.2801.00
166_L246_L1.2771.00
192_E240_I1.2741.00
54_V59_H1.2671.00
230_V241_S1.2651.00
138_W144_H1.2571.00
77_G80_R1.2311.00
211_F216_V1.2281.00
119_R289_H1.2201.00
40_A44_K1.2191.00
65_L69_E1.2111.00
69_E73_R1.2061.00
245_P249_L1.2051.00
232_A235_R1.1931.00
70_E81_I1.1921.00
12_F51_F1.1901.00
117_L193_N1.1801.00
66_R69_E1.1761.00
114_Q118_A1.1711.00
177_P192_E1.1641.00
115_P118_A1.1631.00
195_I230_V1.1631.00
162_E270_S1.1591.00
12_F50_L1.1571.00
37_R40_A1.1421.00
96_L286_F1.1411.00
30_T34_T1.1391.00
12_F16_M1.1321.00
259_R262_S1.1301.00
160_R272_I1.1301.00
37_R41_R1.1261.00
126_N223_E1.1161.00
15_V24_A1.1091.00
36_S40_A1.1061.00
10_E79_D1.1021.00
116_F289_H1.0991.00
288_G291_Q1.0911.00
7_R10_E1.0881.00
120_Y285_A1.0851.00
224_T230_V1.0841.00
274_P277_R1.0811.00
114_Q236_A1.0791.00
21_L58_L1.0791.00
193_N219_R1.0771.00
60_P64_G1.0741.00
105_S129_P1.0691.00
73_R80_R1.0671.00
74_S77_G1.0671.00
14_A24_A1.0651.00
9_I71_V1.0641.00
289_H293_G1.0551.00
38_E41_R1.0521.00
284_Q288_G1.0481.00
174_P257_V1.0471.00
231_C235_R1.0431.00
183_V262_S1.0421.00
173_P237_G1.0391.00
184_L188_D1.0331.00
139_L147_G1.0331.00
112_L290_L1.0281.00
249_L253_A1.0211.00
66_R70_E1.0211.00
161_T287_S1.0161.00
130_Q138_W1.0091.00
232_A236_A1.0031.00
11_I28_L1.0031.00
256_L260_R0.9981.00
174_P255_G0.9961.00
111_Q236_A0.9951.00
171_V248_A0.9941.00
170_C240_I0.9931.00
235_R256_L0.9911.00
140_S155_P0.9911.00
82_V86_E0.9901.00
79_D83_S0.9771.00
251_Y256_L0.9761.00
205_Q208_D0.9721.00
30_T35_V0.9711.00
12_F60_P0.9691.00
167_D266_P0.9671.00
16_M51_F0.9651.00
250_D254_S0.9621.00
79_D82_V0.9601.00
116_F120_Y0.9591.00
67_L71_V0.9511.00
15_V21_L0.9501.00
224_T233_M0.9481.00
172_L176_H0.9411.00
76_Y80_R0.9351.00
119_R292_A0.9351.00
176_H193_N0.9351.00
196_S220_M0.9341.00
138_W141_A0.9311.00
289_H292_A0.9301.00
16_M64_G0.9291.00
24_A35_V0.9231.00
51_F58_L0.9211.00
112_L289_H0.9181.00
12_F42_F0.9131.00
280_S283_V0.9021.00
207_L211_F0.9021.00
169_V258_V0.9011.00
41_R44_K0.8981.00
48_L85_A0.8981.00
157_G275_L0.8981.00
124_S219_R0.8971.00
176_H179_A0.8921.00
144_H147_G0.8901.00
180_V193_N0.8851.00
99_A135_L0.8831.00
128_V138_W0.8791.00
99_A149_T0.8771.00
23_E27_L0.8741.00
69_E72_Q0.8731.00
248_A251_Y0.8641.00
172_L177_P0.8631.00
102_P226_S0.8611.00
171_V258_V0.8561.00
188_D191_G0.8551.00
171_V241_S0.8531.00
123_V282_L0.8521.00
194_Y218_R0.8461.00
193_N220_M0.8461.00
151_T268_T0.8451.00
158_T272_I0.8441.00
19_G59_H0.8411.00
7_R38_E0.8401.00
235_R255_G0.8391.00
22_T26_H0.8381.00
98_I146_L0.8381.00
288_G292_A0.8361.00
28_L35_V0.8301.00
136_E140_S0.8291.00
99_A147_G0.8281.00
73_R76_Y0.8221.00
6_L75_W0.8121.00
128_V144_H0.8101.00
177_P182_K0.8081.00
54_V57_R0.8061.00
167_D260_R0.7981.00
159_E162_E0.7951.00
63_Q85_A0.7911.00
40_A49_K0.7901.00
19_G65_L0.7891.00
15_V39_L0.7851.00
12_F67_L0.7841.00
16_M19_G0.7831.00
94_G282_L0.7821.00
92_R120_Y0.7781.00
173_P238_V0.7771.00
77_G81_I0.7761.00
15_V51_F0.7751.00
114_Q238_V0.7711.00
167_D264_A0.7701.00
94_G123_V0.7691.00
279_S284_Q0.7671.00
17_T68_F0.7631.00
32_Q36_S0.7611.00
205_Q209_Q0.7611.00
187_D190_Q0.7601.00
179_A257_V0.7591.00
86_E89_R0.7571.00
251_Y254_S0.7561.00
210_L214_H0.7551.00
146_L286_F0.7521.00
78_L81_I0.7491.00
8_H11_I0.7491.00
66_R88_L0.7471.00
18_A24_A0.7461.00
171_V243_V0.7451.00
185_T262_S0.7441.00
233_M238_V0.7381.00
117_L238_V0.7361.00
175_G179_A0.7361.00
80_R84_A0.7361.00
59_H65_L0.7301.00
281_A285_A0.7301.00
204_R223_E0.7281.00
119_R285_A0.7251.00
115_P292_A0.7241.00
78_L82_V0.7221.00
182_K258_V0.7221.00
112_L293_G0.7221.00
140_S158_T0.7221.00
63_Q88_L0.7211.00
190_Q216_V0.7151.00
19_G57_R0.7151.00
21_L35_V0.7141.00
60_P65_L0.7131.00
63_Q66_R0.7111.00
34_T38_E0.7101.00
130_Q135_L0.7101.00
97_S144_H0.7091.00
148_L290_L0.7081.00
100_C105_S0.7061.00
21_L57_R0.7061.00
81_I85_A0.7051.00
10_E14_A0.7031.00
245_P258_V0.7031.00
244_N247_T0.7021.00
52_E61_T0.7021.00
207_L210_L0.7021.00
71_V74_S0.7011.00
116_F285_A0.6991.00
15_V35_V0.6991.00
43_E48_L0.6971.00
176_H180_V0.6941.00
173_P176_H0.6921.00
187_D214_H0.6891.00
178_L192_E0.6871.00
142_Q274_P0.6861.00
210_L213_E0.6851.00
63_Q67_L0.6831.00
52_E57_R0.6801.00
171_V252_A0.6791.00
226_S229_S0.6761.00
256_L259_R0.6751.00
72_Q76_Y0.6741.00
222_V233_M0.6741.00
191_G219_R0.6731.00
209_Q212_T0.6711.00
97_S145_D0.6701.00
208_D212_T0.6661.00
206_L210_L0.6651.00
172_L178_L0.6641.00
169_V259_R0.6611.00
197_L230_V0.6601.00
71_V75_W0.6591.00
100_C109_L0.6581.00
198_S223_E0.6581.00
43_E53_R0.6571.00
209_Q213_E0.6571.00
76_Y79_D0.6541.00
277_R280_S0.6541.00
96_L282_L0.6511.00
145_D283_V0.6481.00
24_A28_L0.6481.00
248_A252_A0.6451.00
67_L85_A0.6441.00
175_G178_L0.6401.00
62_V66_R0.6401.00
39_L43_E0.6391.00
80_R83_S0.6371.00
194_Y240_I0.6361.00
65_L68_F0.6311.00
285_A289_H0.6291.00
7_R41_R0.6271.00
124_S223_E0.6271.00
170_C189_F0.6231.00
211_F218_R0.6211.00
26_H29_H0.6211.00
15_V20_S0.6181.00
175_G237_G0.6181.00
10_E13_H0.6161.00
106_Q232_A0.6121.00
250_D253_A0.6121.00
129_P225_H0.6071.00
170_C194_Y0.6051.00
102_P131_E0.6041.00
70_E74_S0.6021.00
93_Q124_S0.5971.00
198_S225_H0.5961.00
235_R253_A0.5951.00
170_C242_V0.5941.00
129_P226_S0.5931.00
205_Q210_L0.5931.00
146_L287_S0.5931.00
66_R85_A0.5921.00
286_F290_L0.5891.00
60_P68_F0.5861.00
164_L269_V0.5861.00
208_D211_F0.5851.00
137_E140_S0.5841.00
175_G257_V0.5841.00
33_P37_R0.5811.00
281_A284_Q0.5801.00
178_L181_K0.5801.00
230_V234_V0.5791.00
96_L146_L0.5761.00
109_L112_L0.5751.00
83_S87_S0.5751.00
166_L267_F0.5741.00
159_E276_H0.5731.00
178_L184_L0.5731.00
183_V188_D0.5721.00
111_Q115_P0.5721.00
31_S37_R0.5711.00
34_T37_R0.5711.00
233_M239_G0.5691.00
203_Y207_L0.5671.00
113_L125_L0.5671.00
46_I85_A0.5651.00
7_R11_I0.5611.00
39_L51_F0.5581.00
51_F60_P0.5581.00
273_R284_Q0.5561.00
140_S143_R0.5561.00
104_F108_F0.5561.00
168_E242_V0.5551.00
46_I67_L0.5531.00
172_L257_V0.5501.00
111_Q114_Q0.5491.00
224_T229_S0.5461.00
48_L52_E0.5441.00
69_E84_A0.5401.00
150_E267_F0.5381.00
10_E75_W0.5371.00
11_I39_L0.5371.00
199_R223_E0.5361.00
206_L209_Q0.5341.00
94_G122_D0.5321.00
139_L158_T0.5311.00
137_E143_R0.5301.00
5_N45_V0.5291.00
11_I24_A0.5281.00
227_A244_N0.5261.00
176_H240_I0.5241.00
243_V248_A0.5241.00
252_A255_G0.5231.00
71_V78_L0.5231.00
94_G120_Y0.5231.00
75_W78_L0.5191.00
99_A128_V0.5181.00
46_I49_K0.5171.00
177_P181_K0.5171.00
139_L272_I0.5151.00
148_L271_L0.5141.00
151_T160_R0.5121.00
163_L271_L0.5101.00
172_L179_A0.5091.00
181_K184_L0.5071.00
49_K63_Q0.5071.00
75_W79_D0.5071.00
190_Q217_K0.5031.00
21_L53_R0.5011.00
12_F64_G0.5011.00
203_Y206_L0.5011.00
106_Q226_S0.5001.00
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  
3fzvA 4 0.9228 100 0.127 Contact Map
1uthA 2 0.7235 100 0.13 Contact Map
2esnA 3 0.9453 100 0.131 Contact Map
1ixcA 4 0.9357 100 0.14 Contact Map
1al3A 1 0.717 100 0.141 Contact Map
4x6gA 4 0.9711 100 0.147 Contact Map
3fxqA 3 0.9357 100 0.155 Contact Map
2h98A 2 0.6688 100 0.156 Contact Map
2h9bA 2 0.6785 100 0.162 Contact Map
3szpA 3 0.926 100 0.166 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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