GREMLIN Database
YUGG - Uncharacterized HTH-type transcriptional regulator YugG
UniProt: O05236 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 166 (140)
Sequences: 13130 (8543)
Seq/√Len: 722.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
44_E52_Y2.9491.00
13_I28_M2.9101.00
74_K136_S2.5861.00
105_V138_T2.5811.00
98_S111_V2.5671.00
22_L40_I2.3341.00
115_N119_D2.3011.00
13_I20_A2.1271.00
59_R118_S2.1101.00
50_I57_D2.0801.00
7_E39_I2.0431.00
42_K46_E2.0411.00
76_T135_V1.9691.00
70_M100_Y1.8031.00
93_F127_K1.7931.00
68_T111_V1.7581.00
50_I55_M1.7501.00
6_K31_I1.7481.00
97_E113_R1.7081.00
72_D140_H1.6941.00
41_D45_K1.6881.00
93_F123_F1.6751.00
13_I16_E1.6711.00
31_I35_E1.6601.00
62_D65_E1.6551.00
116_S119_D1.5691.00
20_A28_M1.5441.00
23_E27_K1.5381.00
86_V90_I1.5291.00
24_T27_K1.5271.00
23_E33_V1.5191.00
89_R131_L1.5121.00
119_D122_R1.4901.00
32_P35_E1.4881.00
31_I36_V1.4771.00
22_L37_K1.4471.00
89_R92_R1.4401.00
10_I25_I1.4281.00
87_A91_Y1.3941.00
122_R126_D1.3921.00
73_V110_V1.3781.00
29_A36_V1.3741.00
95_E119_D1.3711.00
19_R52_Y1.3511.00
72_D106_Y1.3391.00
20_A25_I1.3351.00
71_I112_I1.3091.00
145_K148_H1.3061.00
5_E9_E1.3021.00
74_K135_V1.2921.00
14_L40_I1.2801.00
74_K105_V1.2681.00
84_D88_E1.2621.00
79_R85_E1.2311.00
95_E127_K1.2271.00
121_A144_K1.2201.00
24_T28_M1.2151.00
41_D44_E1.2011.00
65_E115_N1.1931.00
87_A144_K1.1861.00
67_V117_M1.1841.00
21_D24_T1.1821.00
4_T39_I1.1721.00
17_N28_M1.1631.00
16_E28_M1.1621.00
75_V86_V1.1561.00
13_I25_I1.1551.00
6_K9_E1.1341.00
6_K29_A1.1061.00
72_D138_T1.0901.00
68_T113_R1.0761.00
87_A108_L1.0581.00
20_A24_T1.0531.00
51_D55_M1.0481.00
9_E12_E1.0481.00
22_L26_A1.0241.00
99_V110_V1.0241.00
9_E13_I0.9971.00
85_E89_R0.9741.00
96_V112_I0.9731.00
19_R44_E0.9601.00
88_E91_Y0.9581.00
57_D60_K0.9511.00
66_G116_S0.9511.00
26_A36_V0.9441.00
33_V37_K0.9421.00
18_S52_Y0.9421.00
114_G119_D0.9361.00
70_M109_S0.9351.00
114_G120_V0.9311.00
22_L33_V0.9241.00
102_M109_S0.9201.00
12_E16_E0.9171.00
9_E29_A0.8991.00
100_Y111_V0.8991.00
70_M111_V0.8951.00
37_K41_D0.8921.00
114_G123_F0.8911.00
112_I123_F0.8901.00
3_L8_T0.8871.00
26_A31_I0.8721.00
7_E42_K0.8271.00
88_E92_R0.8151.00
43_L48_V0.8151.00
100_Y142_I0.8141.00
96_V99_V0.8091.00
23_E37_K0.8051.00
58_W113_R0.8021.00
18_S24_T0.7951.00
90_I99_V0.7911.00
70_M142_I0.7811.00
73_V86_V0.7781.00
61_V65_E0.7771.00
25_I36_V0.7701.00
100_Y145_K0.7671.00
89_R93_F0.7571.00
96_V110_V0.7541.00
76_T79_R0.7471.00
72_D109_S0.7461.00
122_R127_K0.7451.00
8_T12_E0.7431.00
85_E88_E0.7421.00
105_V136_S0.7411.00
83_F108_L0.7411.00
10_I39_I0.7411.00
17_N20_A0.7371.00
124_V139_T0.7361.00
18_S54_A0.7291.00
25_I40_I0.7261.00
4_T7_E0.7231.00
106_Y138_T0.7191.00
72_D105_V0.7151.00
48_V60_K0.7071.00
84_D87_A0.7021.00
34_N38_T0.6981.00
10_I36_V0.6961.00
129_S137_T0.6951.00
117_M141_F0.6941.00
87_A146_Y0.6891.00
38_T42_K0.6871.00
90_I110_V0.6791.00
10_I20_A0.6771.00
71_I137_T0.6761.00
86_V108_L0.6731.00
101_L108_L0.6711.00
74_K106_Y0.6711.00
69_A120_V0.6641.00
26_A33_V0.6581.00
103_S141_F0.6521.00
76_T133_S0.6431.00
5_E8_T0.6421.00
95_E123_F0.6341.00
71_I110_V0.6331.00
13_I17_N0.6301.00
85_E133_S0.6291.00
124_V137_T0.6281.00
10_I13_I0.6251.00
68_T145_K0.6191.00
118_S121_A0.6191.00
34_N37_K0.6151.00
38_T41_D0.6151.00
18_S51_D0.6141.00
118_S122_R0.6101.00
57_D61_V0.6081.00
11_L43_L0.6071.00
47_K50_I0.6061.00
68_T142_I0.6031.00
39_I43_L0.6031.00
119_D123_F0.5981.00
69_A141_F0.5951.00
22_L36_V0.5891.00
3_L48_V0.5881.00
7_E43_L0.5861.00
123_F127_K0.5831.00
49_I52_Y0.5831.00
56_I61_V0.5741.00
93_F131_L0.5711.00
65_E113_R0.5701.00
73_V134_V0.5641.00
89_R132_D0.5621.00
95_E115_N0.5621.00
10_I40_I0.5611.00
10_I43_L0.5551.00
65_E95_E0.5521.00
79_R132_D0.5511.00
102_M106_Y0.5471.00
68_T100_Y0.5451.00
15_D53_S0.5391.00
62_D115_N0.5341.00
89_R133_S0.5331.00
6_K35_E0.5331.00
72_D102_M0.5271.00
98_S148_H0.5261.00
123_F128_L0.5201.00
120_V141_F0.5171.00
73_V137_T0.5171.00
93_F96_V0.5151.00
69_A139_T0.5131.00
74_K138_T0.5121.00
85_E132_D0.5101.00
102_M140_H0.5091.00
55_M58_W0.5081.00
127_K131_L0.5081.00
124_V143_L0.5071.00
117_M143_L0.5071.00
129_S136_S0.5060.99
101_L121_A0.5050.99
62_D66_G0.5030.99
83_F129_S0.5000.99
75_V107_D0.5000.99
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  
4ch7A 1 0.9217 100 0.172 Contact Map
4un1B 1 0.8976 100 0.208 Contact Map
4un1A 1 0.8554 100 0.224 Contact Map
2e1cA 1 0.8855 100 0.236 Contact Map
4pcqA 2 0.8976 100 0.238 Contact Map
2p5vA 5 0.9337 100 0.244 Contact Map
2ia0A 2 0.9157 100 0.256 Contact Map
3i4pA 5 0.9217 100 0.269 Contact Map
2cg4A 6 0.8916 100 0.273 Contact Map
2pn6A 5 0.8855 100 0.282 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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