GREMLIN Database
RESD - Transcriptional regulatory protein ResD
UniProt: P35163 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 240 (204)
Sequences: 76052 (53687)
Seq/√Len: 3758.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
19_R35_E3.7241.00
19_R37_E3.2421.00
23_R35_E3.1771.00
12_V42_A2.7401.00
43_I71_Q2.6481.00
40_D62_G2.5191.00
34_D51_Y2.4781.00
39_G63_T2.4531.00
38_N62_G2.3671.00
47_L75_K2.3651.00
63_T71_Q2.3151.00
8_K34_D2.1901.00
8_K32_A2.0971.00
23_R27_E2.0511.00
25_Y110_P2.0471.00
36_A45_K1.9961.00
29_E114_V1.9941.00
92_R112_E1.8901.00
59_M86_K1.8391.00
37_E41_E1.8321.00
56_L68_V1.8271.00
166_K169_E1.7991.00
38_N41_E1.7931.00
201_R204_D1.7811.00
34_D45_K1.7671.00
82_M95_G1.7601.00
69_C80_I1.7191.00
71_Q75_K1.7031.00
10_L36_A1.7031.00
184_R204_D1.6831.00
45_K49_A1.6701.00
89_E109_S1.6531.00
70_R98_A1.6421.00
73_R101_D1.6391.00
34_D49_A1.6081.00
7_T121_L1.5841.00
39_G68_V1.5721.00
82_M100_T1.5701.00
63_T67_E1.5661.00
64_D67_E1.5601.00
173_F190_E1.5471.00
26_L117_V1.5181.00
172_Y176_K1.5121.00
71_Q74_E1.4681.00
45_K48_E1.4621.00
46_G72_I1.4581.00
206_H209_R1.4321.00
86_K91_N1.4221.00
177_T180_K1.4211.00
141_V146_S1.4191.00
102_D116_R1.4031.00
182_Y190_E1.3931.00
69_C82_M1.3871.00
40_D63_T1.3861.00
54_I78_T1.3791.00
53_L117_V1.3661.00
81_I120_L1.3561.00
144_H157_D1.3491.00
67_E70_R1.3461.00
16_A37_E1.3241.00
43_I68_V1.3231.00
101_D123_R1.3001.00
45_K51_Y1.2811.00
167_E213_K1.2801.00
8_K49_A1.2521.00
139_V146_S1.2501.00
183_D186_K1.2371.00
13_D19_R1.2361.00
56_L69_C1.2331.00
12_V60_M1.2291.00
58_L66_I1.2261.00
14_D57_D1.2201.00
44_A48_E1.2171.00
31_Y118_K1.2151.00
43_I63_T1.2151.00
101_D120_L1.2091.00
153_R160_E1.2051.00
66_I95_G1.2021.00
148_D151_A1.1851.00
146_S155_T1.1771.00
94_Q98_A1.1721.00
41_E44_A1.1711.00
36_A42_A1.1691.00
41_E45_K1.1471.00
58_L82_M1.1461.00
10_L51_Y1.1451.00
66_I94_Q1.1401.00
114_V118_K1.1371.00
88_E91_N1.1341.00
40_D44_A1.1331.00
10_L42_A1.1221.00
97_E118_K1.1211.00
205_T208_K1.1121.00
173_F177_T1.1081.00
89_E93_V1.1031.00
30_N118_K1.0751.00
29_E118_K1.0591.00
9_I31_Y1.0571.00
173_F182_Y1.0501.00
53_L121_L1.0491.00
115_L119_A1.0491.00
185_E200_L1.0451.00
10_L45_K1.0121.00
36_A41_E1.0031.00
147_I175_A1.0031.00
112_E115_L1.0011.00
90_A94_Q0.9921.00
42_A46_G0.9921.00
43_I47_L0.9881.00
186_K190_E0.9851.00
149_H172_Y0.9841.00
23_R33_I0.9711.00
20_R35_E0.9661.00
70_R94_Q0.9661.00
42_A68_V0.9571.00
201_R205_T0.9551.00
166_K192_W0.9461.00
56_L80_I0.9461.00
16_A20_R0.9431.00
54_I72_I0.9361.00
11_V22_L0.9351.00
10_L46_G0.9321.00
92_R105_V0.9311.00
58_L64_D0.9271.00
202_T206_H0.9261.00
7_T31_Y0.9221.00
66_I98_A0.9181.00
12_V36_A0.9181.00
22_L83_L0.9171.00
139_V148_D0.9091.00
17_R21_L0.9091.00
93_V97_E0.9051.00
169_E172_Y0.9051.00
12_V54_I0.9041.00
138_N150_D0.8901.00
201_R208_K0.8871.00
150_D180_K0.8861.00
155_T160_E0.8851.00
44_A47_L0.8841.00
67_E71_Q0.8801.00
207_V211_R0.8801.00
69_C98_A0.8771.00
120_L123_R0.8711.00
165_P169_E0.8671.00
8_K52_D0.8621.00
168_Y172_Y0.8611.00
200_L204_D0.8611.00
58_L91_N0.8601.00
24_M28_R0.8581.00
11_V33_I0.8521.00
89_E92_R0.8431.00
31_Y114_V0.8421.00
68_V72_I0.8411.00
182_Y186_K0.8391.00
54_I80_I0.8351.00
94_Q97_E0.8351.00
56_L82_M0.8291.00
147_I168_Y0.8281.00
69_C100_T0.8271.00
87_G105_V0.8241.00
180_K186_K0.8231.00
152_H169_E0.8211.00
55_L113_V0.8171.00
16_A19_R0.8161.00
79_P101_D0.8101.00
18_I108_F0.8091.00
8_K51_Y0.8071.00
208_K212_E0.8061.00
185_E189_K0.8041.00
141_V144_H0.8031.00
155_T158_G0.8031.00
91_N94_Q0.7971.00
81_I116_R0.7961.00
46_G78_T0.7931.00
20_R23_R0.7911.00
164_T213_K0.7891.00
55_L117_V0.7881.00
112_E116_R0.7881.00
110_P114_V0.7801.00
215_N222_A0.7781.00
22_L113_V0.7761.00
93_V111_R0.7701.00
70_R74_E0.7681.00
55_L83_L0.7671.00
7_T125_S0.7561.00
60_M68_V0.7561.00
216_K225_I0.7541.00
217_V221_A0.7501.00
63_T68_V0.7481.00
39_G43_I0.7461.00
72_I76_K0.7441.00
96_F116_R0.7411.00
119_A124_A0.7391.00
119_A122_R0.7381.00
20_R24_M0.7361.00
46_G51_Y0.7351.00
184_R200_L0.7281.00
216_K223_K0.7261.00
90_A111_R0.7241.00
124_A128_S0.7141.00
58_L86_K0.7131.00
83_L108_F0.7131.00
173_F187_L0.7101.00
109_S112_E0.7091.00
217_V222_A0.7081.00
209_R212_E0.7061.00
59_M85_A0.6951.00
198_G203_V0.6941.00
176_K190_E0.6941.00
25_Y114_V0.6911.00
12_V68_V0.6891.00
43_I46_G0.6881.00
121_L124_A0.6861.00
173_F176_K0.6851.00
140_L149_H0.6841.00
39_G62_G0.6801.00
47_L71_Q0.6741.00
211_R216_K0.6701.00
81_I102_D0.6691.00
11_V23_R0.6681.00
13_D60_M0.6671.00
140_L144_H0.6621.00
11_V35_E0.6621.00
204_D207_V0.6581.00
73_R79_P0.6551.00
39_G60_M0.6491.00
148_D153_R0.6481.00
21_L25_Y0.6461.00
92_R109_S0.6461.00
108_F113_V0.6411.00
111_R115_L0.6371.00
186_K189_K0.6351.00
19_R23_R0.6341.00
174_L207_V0.6331.00
46_G54_I0.6321.00
215_N223_K0.6321.00
9_I26_L0.6271.00
27_E33_I0.6251.00
95_G100_T0.6241.00
97_E115_L0.6231.00
89_E111_R0.6221.00
26_L31_Y0.6221.00
57_D106_K0.6091.00
102_D119_A0.6081.00
72_I80_I0.6081.00
77_A127_T0.6081.00
43_I75_K0.6071.00
9_I53_L0.6061.00
77_A126_Q0.6051.00
145_L156_A0.6041.00
79_P121_L0.6041.00
171_L222_A0.5991.00
15_E85_A0.5961.00
205_T209_R0.5941.00
176_K182_Y0.5921.00
152_H168_Y0.5921.00
144_H156_A0.5911.00
84_T92_R0.5911.00
140_L143_S0.5911.00
55_L81_I0.5891.00
199_D202_T0.5761.00
116_R120_L0.5731.00
156_A215_N0.5721.00
147_I172_Y0.5721.00
223_K226_V0.5711.00
15_E18_I0.5641.00
56_L72_I0.5621.00
7_T52_D0.5621.00
79_P123_R0.5611.00
66_I91_N0.5601.00
73_R78_T0.5571.00
115_L118_K0.5561.00
56_L60_M0.5531.00
58_L95_G0.5521.00
69_C73_R0.5511.00
79_P124_A0.5441.00
14_D84_T0.5431.00
140_L175_A0.5421.00
27_E32_A0.5421.00
72_I78_T0.5401.00
93_V96_F0.5391.00
158_G161_V0.5371.00
170_L174_L0.5321.00
118_K122_R0.5321.00
123_R127_T0.5291.00
149_H176_K0.5281.00
79_P127_T0.5271.00
25_Y29_E0.5231.00
46_G76_K0.5231.00
108_F112_E0.5231.00
50_N76_K0.5201.00
139_V143_S0.5201.00
198_G202_T0.5161.00
46_G68_V0.5141.00
142_F145_L0.5131.00
18_I21_L0.5131.00
90_A93_V0.5121.00
46_G75_K0.5121.00
156_A159_T0.5111.00
12_V39_G0.5091.00
142_F175_A0.5071.00
87_G107_P0.5061.00
11_V19_R0.5051.00
41_E62_G0.5051.00
169_E173_F0.5041.00
14_D60_M0.5001.00
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  
2gwrA 1 0.9375 100 0.21 Contact Map
1ys7A 2 0.9375 100 0.222 Contact Map
3r0jA 2 0.925 100 0.224 Contact Map
4b09A 2 0.8875 100 0.224 Contact Map
2oqrA 2 0.9417 100 0.24 Contact Map
4kfcA 2 0.9375 100 0.24 Contact Map
1kgsA 1 0.9083 100 0.253 Contact Map
3q9sA 1 0.875 100 0.258 Contact Map
2hqrA 2 0.9042 100 0.272 Contact Map
1p2fA 1 0.9 100 0.281 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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