GREMLIN Database
YJDC - HTH-type transcriptional regulator YjdC
UniProt: P0ACU7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12176
Length: 191 (174)
Sequences: 36121 (28516)
Seq/√Len: 2161.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_Q26_M4.2531.00
25_E35_L4.1391.00
12_K30_R3.6551.00
43_P47_A2.7321.00
132_L138_V2.2881.00
14_L22_T2.2811.00
130_H134_T2.2131.00
4_E55_Y2.1441.00
28_A38_L2.1001.00
44_D47_A2.0681.00
34_P37_E2.0651.00
13_L22_T2.0571.00
16_L30_R2.0271.00
80_L176_E2.0141.00
54_R117_L1.9951.00
9_E30_R1.9771.00
13_L30_R1.9011.00
74_T77_Q1.8991.00
5_D9_E1.8941.00
11_L55_Y1.8711.00
84_Q172_H1.7921.00
10_A14_L1.7761.00
25_E29_E1.7481.00
24_L39_R1.6121.00
126_Y130_H1.6041.00
13_L26_M1.5951.00
130_H142_A1.5811.00
4_E8_G1.5551.00
7_L51_D1.5491.00
50_Y54_R1.5461.00
126_Y142_A1.5401.00
13_L17_Q1.5341.00
51_D54_R1.5321.00
24_L35_L1.5291.00
133_L136_L1.5211.00
12_K16_L1.5011.00
11_L52_A1.4981.00
8_G55_Y1.4951.00
9_E12_K1.4771.00
55_Y59_Q1.4711.00
47_A51_D1.4461.00
10_A48_I1.4131.00
26_M29_E1.4061.00
26_M30_R1.4031.00
133_L138_V1.3981.00
134_T138_V1.3661.00
18_G22_T1.3641.00
147_Q151_V1.3541.00
19_I49_L1.3451.00
37_E40_R1.3331.00
24_L38_L1.3291.00
140_D143_M1.3131.00
37_E41_F1.3001.00
128_F132_L1.2891.00
23_T26_M1.2841.00
42_W51_D1.2781.00
80_L84_Q1.2601.00
33_Y37_E1.2561.00
11_L56_L1.2241.00
102_A106_F1.2011.00
34_P40_R1.1971.00
14_L19_I1.1831.00
7_L52_A1.1821.00
36_D40_R1.1751.00
134_T141_P1.1601.00
22_T27_V1.1601.00
46_E50_Y1.1501.00
9_E31_V1.1491.00
143_M170_T1.1421.00
78_K132_L1.1391.00
131_E135_T1.1321.00
50_Y113_P1.1251.00
9_E13_L1.1211.00
39_R44_D1.1211.00
54_R58_Q1.1201.00
46_E111_G1.1171.00
78_K135_T1.1171.00
3_R51_D1.1131.00
47_A50_Y1.1021.00
126_Y146_K1.0991.00
77_Q81_A1.0961.00
27_V48_I1.0911.00
173_R176_E1.0911.00
63_W85_A1.0821.00
172_H176_E1.0821.00
18_G21_N1.0701.00
7_L42_W1.0671.00
122_K126_Y1.0461.00
123_S127_D1.0391.00
76_E80_L1.0331.00
65_R128_F1.0271.00
17_Q21_N1.0231.00
35_L39_R1.0211.00
130_H141_P1.0061.00
117_L120_Q1.0031.00
134_T137_E1.0021.00
51_D55_Y0.9941.00
61_D124_A0.9921.00
150_L154_G0.9881.00
103_A106_F0.9881.00
46_E113_P0.9851.00
166_A170_T0.9721.00
81_A84_Q0.9691.00
167_D170_T0.9641.00
127_D131_E0.9631.00
142_A146_K0.9511.00
128_F131_E0.9441.00
58_Q62_V0.9271.00
35_L40_R0.9271.00
28_A35_L0.9261.00
77_Q80_L0.9211.00
116_Q120_Q0.9181.00
55_Y58_Q0.9061.00
89_C93_N0.9051.00
112_H116_Q0.9031.00
143_M173_R0.9021.00
87_S169_D0.8971.00
132_L137_E0.8891.00
63_W66_Q0.8871.00
38_L48_I0.8871.00
11_L15_E0.8871.00
12_K95_Y0.8841.00
131_E134_T0.8821.00
8_G12_K0.8811.00
14_L49_L0.8771.00
84_Q176_E0.8701.00
61_D65_R0.8681.00
20_A106_F0.8681.00
67_L85_A0.8661.00
115_H119_D0.8641.00
119_D123_S0.8591.00
10_A52_A0.8591.00
67_L81_A0.8401.00
159_M162_N0.8371.00
73_Q81_A0.8351.00
124_A127_D0.8291.00
120_Q124_A0.8281.00
84_Q88_E0.8221.00
62_V66_Q0.8201.00
85_A88_E0.8181.00
127_D130_H0.8171.00
84_Q169_D0.8111.00
29_E35_L0.8091.00
25_E39_R0.8061.00
5_D31_V0.8021.00
56_L59_Q0.8021.00
19_I45_K0.7991.00
80_L173_R0.7981.00
24_L28_A0.7941.00
113_P116_Q0.7901.00
17_Q30_R0.7811.00
123_S126_Y0.7801.00
72_T77_Q0.7701.00
147_Q150_L0.7671.00
72_T78_K0.7651.00
6_V31_V0.7601.00
133_L137_E0.7601.00
97_G102_A0.7551.00
88_E92_N0.7441.00
132_L136_L0.7401.00
78_K131_E0.7381.00
81_A85_A0.7341.00
132_L135_T0.7331.00
93_N96_P0.7331.00
50_Y117_L0.7331.00
103_A107_Y0.7201.00
106_F110_P0.7201.00
6_V41_F0.7201.00
19_I46_E0.7121.00
98_C101_I0.7061.00
31_V34_P0.7031.00
73_Q77_Q0.7011.00
28_A34_P0.6991.00
150_L158_R0.6931.00
33_Y41_F0.6911.00
99_L103_A0.6761.00
17_Q22_T0.6761.00
121_Q125_A0.6751.00
169_D173_R0.6741.00
65_R124_A0.6661.00
143_M147_Q0.6651.00
5_D8_G0.6651.00
140_D144_V0.6641.00
110_P114_I0.6641.00
112_H115_H0.6601.00
141_P145_A0.6601.00
158_R162_N0.6541.00
28_A31_V0.6541.00
88_E168_V0.6531.00
116_Q119_D0.6511.00
113_P117_L0.6461.00
174_L177_D0.6441.00
7_L55_Y0.6361.00
97_G100_F0.6261.00
169_D172_H0.6251.00
153_E158_R0.6221.00
76_E176_E0.6201.00
151_V154_G0.6201.00
83_Y148_M0.6201.00
54_R120_Q0.6181.00
168_V172_H0.6181.00
11_L59_Q0.6111.00
8_G11_L0.6091.00
143_M174_L0.6071.00
117_L121_Q0.6031.00
146_K158_R0.6011.00
72_T81_A0.5961.00
102_A105_T0.5941.00
146_K170_T0.5901.00
118_A122_K0.5901.00
122_K153_E0.5881.00
74_T78_K0.5821.00
120_Q123_S0.5791.00
133_L141_P0.5791.00
62_V65_R0.5791.00
13_L16_L0.5791.00
135_T139_D0.5791.00
57_S121_Q0.5761.00
59_Q62_V0.5751.00
75_A132_L0.5681.00
85_A89_C0.5681.00
98_C102_A0.5641.00
31_V35_L0.5601.00
173_R177_D0.5601.00
130_H133_L0.5581.00
80_L172_H0.5581.00
84_Q173_R0.5571.00
25_E34_P0.5571.00
98_C106_F0.5541.00
6_V38_L0.5541.00
25_E40_R0.5521.00
28_A33_Y0.5511.00
83_Y152_L0.5491.00
171_A174_L0.5491.00
111_G114_I0.5481.00
165_Q169_D0.5471.00
108_P111_G0.5401.00
16_L26_M0.5371.00
36_D39_R0.5341.00
171_A175_A0.5321.00
104_C108_P0.5281.00
100_F103_A0.5261.00
19_I22_T0.5261.00
144_V148_M0.5251.00
129_T133_L0.5201.00
150_L153_E0.5201.00
66_Q85_A0.5161.00
125_A132_L0.5161.00
60_I89_C0.5131.00
118_A121_Q0.5121.00
166_A169_D0.5111.00
101_I104_C0.5101.00
111_G115_H0.5081.00
170_T173_R0.5071.00
172_H175_A0.5071.00
158_R161_V0.5061.00
144_V147_Q0.5061.00
70_D73_Q0.5061.00
115_H118_A0.5061.00
3_R41_F0.5041.00
13_L23_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  
3g7rA 2 0.9581 100 0.241 Contact Map
4udsA 2 0.9476 100 0.256 Contact Map
4kwaA 2 0.9634 100 0.259 Contact Map
3dpjA 4 0.9738 100 0.259 Contact Map
3jsjA 2 0.9529 100 0.261 Contact Map
2ibdA 2 0.9634 100 0.275 Contact Map
2xdnA 2 1 100 0.275 Contact Map
3eupA 2 0.9686 100 0.276 Contact Map
2g7sA 2 0.9424 100 0.277 Contact Map
2hyjA 2 0.9476 100 0.278 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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