GREMLIN Database
YVRH - Transcriptional regulatory protein YvrH
UniProt: P94504 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 237 (205)
Sequences: 71637 (51053)
Seq/√Len: 3565.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
16_V33_D3.8651.00
20_K33_D3.4471.00
16_V35_A3.3601.00
41_I69_L2.8721.00
9_V40_A2.7761.00
38_E60_G2.5261.00
61_M69_L2.4811.00
32_L49_V2.3551.00
45_K73_Y2.2061.00
37_A61_M2.2031.00
26_E112_A2.1891.00
32_L43_V2.1741.00
36_S60_G2.1381.00
34_A43_V2.1341.00
32_L47_N2.1261.00
20_K24_E2.1241.00
22_V108_P2.1191.00
5_S32_L2.1061.00
57_M84_R1.9791.00
5_S29_R1.9721.00
43_V47_N1.8621.00
67_C78_I1.8381.00
36_S39_E1.8001.00
167_Y184_K1.7951.00
80_F93_G1.7881.00
35_A39_E1.7871.00
54_L66_A1.7741.00
195_N198_M1.7661.00
90_K110_E1.7641.00
69_L73_Y1.7201.00
71_R99_D1.6991.00
160_Q163_Q1.6941.00
176_L184_K1.6381.00
68_T96_V1.6381.00
7_L34_A1.6101.00
166_Q170_E1.6031.00
80_F98_A1.6001.00
52_I76_A1.5801.00
61_M65_E1.5681.00
4_A119_L1.5661.00
44_V70_I1.5601.00
37_A66_A1.5561.00
100_D114_R1.5551.00
178_K198_M1.5311.00
87_D107_N1.5261.00
38_E61_M1.5171.00
43_V46_A1.5141.00
84_R89_D1.4901.00
62_S65_E1.4861.00
23_L115_I1.4641.00
69_L72_E1.4631.00
13_K35_A1.4261.00
177_S180_Q1.4001.00
51_L115_I1.3771.00
79_F118_H1.3541.00
67_C80_F1.3341.00
56_V64_F1.3291.00
200_H203_K1.3221.00
135_T140_T1.3201.00
65_E68_T1.3181.00
9_V58_M1.3001.00
138_Y151_G1.2921.00
99_D121_R1.2711.00
41_I61_M1.2661.00
112_A116_R1.2591.00
5_S47_N1.2581.00
41_I66_A1.2521.00
43_V49_V1.2421.00
42_P46_A1.2381.00
180_Q184_K1.2251.00
64_F93_G1.2231.00
28_Y116_R1.2171.00
26_E116_R1.1801.00
39_E42_P1.1751.00
99_D118_H1.1661.00
7_L49_V1.1631.00
167_Y171_H1.1631.00
56_V80_F1.1601.00
92_S96_V1.1491.00
86_S89_D1.1471.00
39_E43_V1.1411.00
64_F92_S1.1401.00
34_A40_A1.1371.00
41_I45_K1.1361.00
167_Y176_L1.1281.00
34_A39_E1.1271.00
7_L43_V1.1221.00
11_D55_D1.1191.00
90_K103_T1.1191.00
54_L67_C1.1171.00
38_E42_P1.1151.00
113_A117_A1.1121.00
87_D91_L1.1071.00
161_L207_K1.1071.00
10_D16_V1.1041.00
179_D194_N1.1001.00
27_G116_R1.0991.00
162_L166_Q1.0901.00
199_V202_R1.0861.00
29_R32_L1.0801.00
6_I28_Y1.0791.00
7_L40_A1.0641.00
91_L95_A1.0641.00
8_I19_I1.0631.00
142_S145_N1.0631.00
40_A66_A1.0521.00
140_T149_I1.0491.00
88_A92_S1.0491.00
7_L32_L1.0491.00
95_A116_R1.0371.00
147_E154_A1.0341.00
143_P166_Q1.0321.00
17_D33_D1.0201.00
110_E113_A1.0061.00
51_L119_L0.9971.00
149_I154_A0.9941.00
56_V62_S0.9921.00
176_L180_Q0.9901.00
163_Q166_Q0.9891.00
77_P99_D0.9741.00
118_H121_R0.9631.00
4_A28_Y0.9531.00
159_A163_Q0.9531.00
211_D215_P0.9491.00
67_C96_V0.9421.00
9_V34_A0.9391.00
40_A44_V0.9371.00
64_F96_V0.9371.00
14_A18_M0.9311.00
13_K17_D0.9201.00
196_T200_H0.9201.00
87_D90_K0.9081.00
68_T92_S0.9041.00
21_R25_K0.9041.00
141_F169_C0.9011.00
195_N199_V0.9011.00
201_I205_R0.9001.00
85_S103_T0.8991.00
19_I81_L0.8981.00
28_Y112_A0.8971.00
52_I70_I0.8941.00
5_S50_D0.8841.00
141_F162_L0.8831.00
42_P45_K0.8801.00
7_L44_V0.8711.00
211_D214_N0.8681.00
194_N198_M0.8551.00
65_E69_L0.8451.00
117_A122_T0.8421.00
17_D20_K0.8421.00
4_A123_Y0.8371.00
54_L78_I0.8331.00
52_I78_I0.8321.00
67_C98_A0.8291.00
203_K206_E0.8181.00
54_L80_F0.8071.00
178_K194_N0.8071.00
66_A70_I0.7991.00
195_N202_R0.7941.00
81_L106_F0.7941.00
92_S95_A0.7931.00
108_P112_A0.7901.00
9_V52_I0.7901.00
44_V49_V0.7861.00
17_D21_R0.7851.00
167_Y170_E0.7841.00
210_R216_E0.7841.00
135_T138_Y0.7801.00
56_V84_R0.7751.00
61_M66_A0.7701.00
110_E114_R0.7691.00
107_N110_E0.7671.00
91_L109_L0.7671.00
58_M66_A0.7661.00
202_R206_E0.7661.00
13_K16_V0.7651.00
5_S49_V0.7641.00
44_V76_A0.7561.00
68_T72_E0.7561.00
89_D92_S0.7551.00
20_K31_I0.7511.00
41_I73_Y0.7441.00
53_V111_L0.7421.00
117_A120_K0.7421.00
146_A163_Q0.7351.00
170_E176_L0.7341.00
53_V81_L0.7331.00
167_Y181_I0.7301.00
88_A109_L0.7291.00
199_V203_K0.7291.00
57_M83_A0.7231.00
56_V89_D0.7231.00
119_L122_T0.7211.00
79_F114_R0.7211.00
106_F111_L0.7151.00
44_V52_I0.7051.00
75_D124_Q0.7051.00
6_I51_L0.7031.00
77_P121_R0.7011.00
90_K107_N0.6961.00
37_A41_I0.6951.00
10_D58_M0.6931.00
18_M22_V0.6921.00
9_V66_A0.6921.00
15_I106_F0.6881.00
180_Q183_E0.6871.00
160_Q200_H0.6831.00
158_S207_K0.6741.00
138_Y150_V0.6721.00
22_V112_A0.6711.00
75_D125_S0.6701.00
37_A60_G0.6671.00
168_F201_I0.6631.00
136_Y140_T0.6621.00
56_V93_G0.6601.00
41_I44_V0.6601.00
53_V115_I0.6581.00
205_R210_R0.6581.00
106_F110_E0.6561.00
209_E216_E0.6561.00
122_T126_K0.6561.00
4_A50_D0.6551.00
70_I78_I0.6531.00
136_Y139_F0.6491.00
113_A116_R0.6481.00
179_D183_E0.6471.00
95_A113_A0.6411.00
67_C71_R0.6401.00
146_A162_L0.6381.00
170_E184_K0.6341.00
16_V20_K0.6321.00
114_R118_H0.6311.00
109_L113_A0.6291.00
37_A58_M0.6281.00
19_I111_L0.6261.00
71_R77_P0.6231.00
87_D109_L0.6201.00
100_D117_A0.6201.00
12_E83_A0.6181.00
23_L28_Y0.6181.00
45_K69_L0.6131.00
8_I20_K0.6121.00
139_F150_V0.6091.00
164_L168_F0.6081.00
6_I23_L0.6061.00
93_G98_A0.6031.00
163_Q167_Y0.5991.00
213_S216_E0.5991.00
149_I152_G0.5981.00
64_F89_D0.5951.00
94_F114_R0.5951.00
70_I76_A0.5891.00
8_I31_I0.5891.00
53_V79_F0.5871.00
39_E60_G0.5831.00
22_V26_E0.5821.00
55_D104_K0.5821.00
88_A91_L0.5731.00
8_I33_D0.5671.00
214_N217_Y0.5671.00
150_V153_E0.5661.00
71_R76_A0.5641.00
77_P119_L0.5631.00
215_P218_I0.5631.00
21_R24_E0.5621.00
210_R219_V0.5621.00
150_V209_E0.5601.00
198_M201_I0.5591.00
134_Y143_P0.5581.00
209_E215_P0.5571.00
141_F166_Q0.5561.00
12_E15_I0.5521.00
158_S161_L0.5471.00
10_D104_K0.5421.00
134_Y138_Y0.5381.00
121_R125_S0.5371.00
216_E220_T0.5361.00
44_V73_Y0.5361.00
126_K129_S0.5361.00
11_D82_T0.5331.00
116_R120_K0.5291.00
138_Y142_S0.5291.00
18_M21_R0.5291.00
15_I18_M0.5251.00
77_P125_S0.5251.00
8_I16_V0.5251.00
85_S105_P0.5241.00
193_D196_T0.5221.00
51_L118_H0.5221.00
44_V74_S0.5201.00
79_F100_D0.5201.00
209_E213_S0.5191.00
77_P122_T0.5171.00
11_D58_M0.5151.00
150_V211_D0.5141.00
91_L94_F0.5131.00
48_K74_S0.5131.00
141_F148_L0.5121.00
13_K33_D0.5121.00
82_T104_K0.5111.00
44_V66_A0.5091.00
82_T101_Y0.5081.00
115_I119_L0.5061.00
36_S58_M0.5031.00
54_L70_I0.5021.00
117_A121_R0.5011.00
6_I115_I0.5011.00
182_Y191_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  
3r0jA 2 0.9325 100 0.182 Contact Map
2gwrA 1 0.9409 100 0.187 Contact Map
2oqrA 2 0.9536 100 0.191 Contact Map
1ys7A 2 0.9494 100 0.195 Contact Map
4b09A 2 0.9072 100 0.204 Contact Map
4kfcA 2 0.9451 100 0.212 Contact Map
1kgsA 1 0.9198 100 0.222 Contact Map
3q9sA 1 0.8861 100 0.243 Contact Map
1p2fA 1 0.9114 100 0.247 Contact Map
2hqrA 2 0.9325 100 0.249 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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