GREMLIN Database
YMFC - Uncharacterized HTH-type transcriptional regulator YmfC
UniProt: O31761 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 241 (194)
Sequences: 27694 (21434)
Seq/√Len: 1538.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
21_D26_I3.7431.00
28_T31_E3.6031.00
15_I56_I3.2891.00
19_K60_E3.0491.00
21_D42_K2.9841.00
64_I74_H2.8951.00
36_E47_R2.6261.00
17_R21_D2.6201.00
14_V45_V2.5931.00
185_E188_G2.4731.00
121_H182_T2.4581.00
65_R71_T2.3611.00
66_R69_V2.3221.00
15_I60_E2.2701.00
106_S190_H2.2531.00
32_K72_F2.1761.00
14_V43_L2.1531.00
20_E24_N2.0811.00
113_S116_D1.9911.00
17_R43_L1.9161.00
58_E65_R1.9001.00
15_I19_K1.8671.00
8_R16_E1.8661.00
52_E55_R1.8621.00
99_T103_I1.8241.00
135_R143_V1.8141.00
37_F41_K1.7371.00
69_V72_F1.7031.00
21_D27_Y1.7021.00
110_L186_P1.6911.00
13_K17_R1.6681.00
19_K23_K1.6621.00
10_L13_K1.6611.00
35_S38_E1.6541.00
116_D138_D1.6471.00
38_E42_K1.5961.00
58_E63_I1.5851.00
190_H194_S1.5751.00
66_R72_F1.5061.00
190_H193_I1.5041.00
19_K62_V1.5021.00
17_R20_E1.4971.00
132_E135_R1.4951.00
92_M140_Q1.4921.00
64_I72_F1.4561.00
56_I59_E1.4331.00
39_L50_L1.4021.00
27_Y73_V1.3991.00
180_A188_G1.3961.00
11_Y56_I1.3901.00
130_Y146_I1.3641.00
112_P116_D1.3591.00
131_L147_D1.3491.00
22_I73_V1.3461.00
36_E51_R1.3451.00
117_T182_T1.3391.00
144_Y148_K1.3341.00
55_R65_R1.3301.00
29_E75_S1.3171.00
188_G192_T1.3121.00
54_L63_I1.2911.00
55_R59_E1.2891.00
38_E41_K1.2891.00
63_I71_T1.2761.00
101_G136_T1.2551.00
186_P190_H1.2341.00
56_I60_E1.2281.00
166_F170_E1.2231.00
8_R13_K1.2171.00
131_L135_R1.2111.00
12_L16_E1.2071.00
141_P152_N1.1931.00
119_R132_E1.1931.00
112_P117_T1.1931.00
103_I136_T1.1841.00
55_R58_E1.1741.00
23_K62_V1.1621.00
125_G128_L1.1591.00
188_G204_A1.1591.00
66_R70_G1.1531.00
12_L56_I1.1531.00
45_V50_L1.1481.00
175_S179_Y1.1471.00
9_H12_L1.1441.00
32_K70_G1.1391.00
54_L71_T1.1301.00
97_N101_G1.1181.00
191_D195_P1.1091.00
98_M198_E1.0811.00
21_D25_G1.0781.00
178_S182_T1.0761.00
21_D43_L1.0591.00
116_D148_K1.0581.00
143_V147_D1.0401.00
106_S186_P1.0291.00
8_R12_L1.0281.00
179_Y183_D1.0251.00
110_L130_Y1.0221.00
46_S49_T1.0161.00
132_E136_T1.0101.00
96_A145_C1.0041.00
132_E146_I0.9991.00
194_S198_E0.9891.00
133_R181_V0.9821.00
117_T121_H0.9821.00
112_P184_I0.9771.00
27_Y31_E0.9731.00
167_D171_K0.9671.00
95_Q107_S0.9611.00
134_V146_I0.9541.00
164_S167_D0.9491.00
30_K75_S0.9461.00
11_Y52_E0.9371.00
102_T194_S0.9321.00
144_Y193_I0.9311.00
98_M102_T0.9301.00
121_H178_S0.9251.00
102_T190_H0.9131.00
103_I106_S0.9081.00
123_A126_Q0.9031.00
165_M169_L0.9001.00
128_L132_E0.8961.00
188_G191_D0.8881.00
98_M194_S0.8811.00
108_Q130_Y0.8751.00
10_L49_T0.8681.00
176_V192_T0.8671.00
68_G71_T0.8661.00
114_E118_K0.8661.00
105_L109_V0.8611.00
52_E56_I0.8591.00
179_Y182_T0.8501.00
92_M96_A0.8491.00
130_Y174_G0.8431.00
16_E19_K0.8431.00
11_Y15_I0.8421.00
18_I39_L0.8351.00
30_K64_I0.8341.00
33_L63_I0.8211.00
124_E128_L0.8201.00
141_P144_Y0.8201.00
109_V151_M0.8161.00
200_D203_T0.8151.00
122_L126_Q0.8091.00
117_T184_I0.7961.00
32_K35_S0.7901.00
40_S50_L0.7871.00
187_I190_H0.7861.00
16_E20_E0.7841.00
21_D24_N0.7831.00
109_V127_E0.7791.00
195_P199_C0.7791.00
127_E151_M0.7771.00
116_D136_T0.7691.00
145_C148_K0.7631.00
117_T178_S0.7631.00
91_K94_E0.7621.00
157_S160_H0.7591.00
106_S130_Y0.7591.00
112_P136_T0.7571.00
165_M168_L0.7521.00
37_F40_S0.7521.00
29_E74_H0.7401.00
36_E65_R0.7361.00
137_A143_V0.7361.00
58_E71_T0.7331.00
170_E176_V0.7281.00
102_T106_S0.7231.00
97_N100_P0.7221.00
39_L54_L0.7211.00
106_S187_I0.7181.00
114_E117_T0.7171.00
17_R42_K0.7161.00
115_D119_R0.7151.00
180_A185_E0.7121.00
168_L171_K0.7111.00
183_D188_G0.7081.00
14_V50_L0.7051.00
175_S178_S0.7011.00
187_I193_I0.6971.00
90_T94_E0.6971.00
49_T53_A0.6931.00
116_D119_R0.6921.00
105_L193_I0.6911.00
164_S168_L0.6891.00
189_Y199_C0.6761.00
14_V53_A0.6741.00
106_S110_L0.6731.00
107_S110_L0.6721.00
199_C203_T0.6711.00
34_P42_K0.6641.00
40_S43_L0.6631.00
43_L50_L0.6621.00
132_E192_T0.6621.00
129_F178_S0.6611.00
54_L58_E0.6541.00
101_G139_G0.6531.00
189_Y194_S0.6521.00
41_K44_G0.6491.00
107_S111_M0.6461.00
94_E97_N0.6391.00
152_N155_P0.6381.00
104_F134_V0.6381.00
15_I53_A0.6361.00
131_L150_P0.6361.00
150_P153_I0.6351.00
117_T120_F0.6311.00
91_K95_Q0.6301.00
176_V179_Y0.6301.00
12_L15_I0.6281.00
120_F132_E0.6251.00
50_L63_I0.6241.00
191_D194_S0.6231.00
119_R135_R0.6171.00
37_F47_R0.6161.00
147_D150_P0.6161.00
122_L125_G0.6161.00
87_N90_T0.6061.00
26_I42_K0.6051.00
49_T52_E0.6001.00
86_L90_T0.5951.00
192_T196_V0.5951.00
164_S169_L0.5941.00
14_V17_R0.5931.00
177_I192_T0.5921.00
18_I27_Y0.5911.00
115_D118_K0.5901.00
154_L158_F0.5901.00
32_K69_V0.5891.00
127_E154_L0.5871.00
67_H70_G0.5851.00
141_P145_C0.5841.00
127_E150_P0.5831.00
98_M201_P0.5821.00
157_S161_Q0.5801.00
20_E23_K0.5791.00
27_Y33_L0.5791.00
187_I191_D0.5771.00
124_E127_E0.5771.00
192_T195_P0.5771.00
35_S68_G0.5751.00
109_V112_P0.5751.00
103_I107_S0.5741.00
131_L143_V0.5721.00
102_T105_L0.5651.00
118_K121_H0.5651.00
54_L65_R0.5631.00
40_S47_R0.5631.00
177_I193_I0.5611.00
105_L134_V0.5561.00
193_I196_V0.5541.00
72_F75_S0.5541.00
158_F161_Q0.5531.00
137_A142_I0.5531.00
116_D135_R0.5521.00
154_L157_S0.5511.00
96_A101_G0.5511.00
189_Y193_I0.5491.00
171_K199_C0.5481.00
106_S132_E0.5471.00
39_L43_L0.5461.00
48_A52_E0.5451.00
164_S171_K0.5441.00
169_L175_S0.5421.00
113_S117_T0.5421.00
127_E131_L0.5411.00
126_Q152_N0.5401.00
114_E184_I0.5401.00
155_P158_F0.5391.00
163_E167_D0.5361.00
9_H13_K0.5341.00
13_K16_E0.5311.00
111_M127_E0.5291.00
171_K174_G0.5281.00
121_H175_S0.5271.00
126_Q130_Y0.5261.00
145_C149_I0.5261.00
55_R71_T0.5241.00
92_M95_Q0.5201.00
99_T142_I0.5201.00
167_D170_E0.5191.00
105_L189_Y0.5161.00
176_V195_P0.5141.00
96_A100_P0.5101.00
20_E26_I0.5051.00
109_V129_F0.5051.00
98_M138_D0.5041.00
128_L131_L0.5041.00
174_G196_V0.5011.00
146_I193_I0.5001.00
189_Y203_T0.5001.00
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  
4u0wA 2 0.9959 100 0.157 Contact Map
2ra5A 2 0.61 100 0.193 Contact Map
3f8mA 2 0.9419 100 0.199 Contact Map
3edpA 2 0.9087 100 0.222 Contact Map
3bwgA 2 0.9461 100 0.228 Contact Map
3eetA 2 0.9502 100 0.233 Contact Map
1hw1A 2 0.834 100 0.426 Contact Map
3sxyA 2 0.7718 100 0.427 Contact Map
4p96A 2 0.888 100 0.432 Contact Map
3c7jA 4 0.8465 100 0.433 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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