GREMLIN Database
YUSO - Uncharacterized HTH-type transcriptional regulator YusO
UniProt: O32181 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 155 (133)
Sequences: 24588 (18142)
Seq/√Len: 1573.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
84_T96_S3.2401.00
51_S96_S3.1151.00
127_E137_K2.8961.00
82_A96_S2.6901.00
53_K92_V2.5591.00
86_N94_D2.4091.00
124_T127_E2.3951.00
130_Q133_H2.1001.00
85_H93_I2.0741.00
39_Q78_K2.0131.00
130_Q134_I2.0101.00
47_K105_F1.9841.00
123_L134_I1.8801.00
53_K56_E1.8731.00
86_N92_V1.8721.00
47_K97_L1.8151.00
127_E130_Q1.7551.00
54_V72_A1.7241.00
122_F141_A1.7231.00
127_E133_H1.6851.00
79_N100_E1.6211.00
72_A95_L1.6161.00
39_Q74_R1.6071.00
14_S136_A1.5831.00
76_E83_R1.5751.00
131_A134_I1.5251.00
49_H60_R1.5031.00
100_E104_K1.5031.00
42_V71_M1.5001.00
73_D77_Q1.4651.00
36_T39_Q1.4611.00
134_I137_K1.3861.00
100_E103_I1.3791.00
104_K107_E1.3791.00
47_K102_D1.3501.00
51_S84_T1.3381.00
51_S94_D1.3151.00
64_K67_A1.3111.00
14_S139_A1.2871.00
45_S60_R1.2631.00
56_E59_E1.2491.00
55_S65_P1.2481.00
42_V68_V1.2221.00
54_V93_I1.2191.00
14_S132_A1.2141.00
33_Q111_G1.2131.00
133_H137_K1.1981.00
33_Q107_E1.1811.00
18_L139_A1.1731.00
55_S59_E1.1681.00
54_V68_V1.1641.00
103_I107_E1.1621.00
73_D90_R1.1561.00
128_M132_A1.1301.00
29_S111_G1.1241.00
66_S69_T1.1201.00
63_V67_A1.1181.00
83_R93_I1.1161.00
32_K111_G1.0901.00
126_E130_Q1.0811.00
17_A139_A1.0551.00
54_V65_P1.0311.00
97_L101_G1.0201.00
73_D76_E1.0171.00
54_V95_L1.0071.00
27_L31_E1.0021.00
99_D102_D0.9961.00
67_A70_L0.9931.00
111_G114_A0.9931.00
38_A71_M0.9821.00
78_K100_E0.9771.00
80_L104_K0.9591.00
123_L138_L0.9571.00
56_E60_R0.9541.00
132_A136_A0.9501.00
127_E134_I0.9451.00
64_K70_L0.9381.00
52_L56_E0.9361.00
99_D103_I0.9301.00
78_K104_K0.9251.00
69_T73_D0.9211.00
85_H90_R0.9111.00
29_S118_R0.9101.00
82_A98_T0.9071.00
18_L135_T0.9021.00
72_A81_I0.9001.00
84_T94_D0.8971.00
49_H52_L0.8951.00
47_K106_E0.8911.00
27_L37_P0.8881.00
63_V68_V0.8881.00
29_S114_A0.8881.00
50_G102_D0.8861.00
52_L60_R0.8851.00
110_A114_A0.8601.00
40_L108_V0.8581.00
102_D106_E0.8571.00
125_E129_L0.8561.00
76_E82_A0.8501.00
16_Q19_F0.8481.00
21_K139_A0.8451.00
86_N89_D0.8451.00
33_Q108_V0.8351.00
70_L74_R0.8201.00
80_L100_E0.8141.00
89_D92_V0.8101.00
116_M119_Y0.8051.00
47_K109_L0.8021.00
45_S52_L0.7881.00
107_E111_G0.7871.00
54_V69_T0.7811.00
16_Q20_Q0.7811.00
19_F23_Q0.7801.00
112_R116_M0.7791.00
34_G78_K0.7781.00
43_L105_F0.7771.00
42_V61_M0.7751.00
45_S61_M0.7741.00
50_G96_S0.7691.00
29_S32_K0.7671.00
87_T94_D0.7631.00
41_F61_M0.7611.00
114_A118_R0.7581.00
49_H56_E0.7571.00
46_L81_I0.7541.00
73_D83_R0.7481.00
70_L73_D0.7471.00
114_A117_A0.7421.00
103_I106_E0.7401.00
40_L112_R0.7381.00
124_T128_M0.7361.00
136_A140_Q0.7361.00
15_L19_F0.7361.00
25_E115_I0.7351.00
11_I132_A0.7341.00
118_R121_S0.7321.00
129_L133_H0.7301.00
130_Q137_K0.7271.00
110_A113_K0.7251.00
126_E129_L0.7221.00
45_S57_I0.7171.00
72_A76_E0.7151.00
58_A65_P0.7141.00
45_S49_H0.7101.00
129_L132_A0.7101.00
38_A67_A0.7061.00
120_L128_M0.7021.00
42_V57_I0.6991.00
113_K117_A0.6901.00
58_A68_V0.6811.00
29_S115_I0.6781.00
20_Q24_P0.6771.00
46_L52_L0.6701.00
76_E81_I0.6691.00
18_L138_L0.6661.00
25_E28_E0.6661.00
97_L102_D0.6611.00
74_R77_Q0.6571.00
74_R78_K0.6521.00
25_E118_R0.6511.00
115_I118_R0.6511.00
39_Q71_M0.6251.00
23_Q27_L0.6241.00
44_A48_K0.6181.00
46_L97_L0.6121.00
123_L128_M0.6001.00
40_L105_F0.5991.00
134_I138_L0.5991.00
107_E110_A0.5971.00
98_T101_G0.5911.00
68_V72_A0.5911.00
133_H136_A0.5761.00
137_K141_A0.5751.00
15_L18_L0.5691.00
14_S17_A0.5661.00
134_I141_A0.5651.00
26_M112_R0.5641.00
23_Q26_M0.5611.00
28_E31_E0.5601.00
79_N82_A0.5511.00
124_T137_K0.5411.00
54_V92_V0.5411.00
41_F45_S0.5401.00
43_L47_K0.5321.00
38_A63_V0.5301.00
53_K86_N0.5301.00
15_L135_T0.5281.00
44_A109_L0.5271.00
53_K94_D0.5261.00
106_E110_A0.5251.00
55_S92_V0.5141.00
120_L124_T0.5131.00
109_L113_K0.5101.00
85_H89_D0.5091.00
65_P69_T0.5081.00
75_L80_L0.5061.00
84_T87_T0.5061.00
22_I25_E0.5031.00
26_M29_S0.5031.00
36_T74_R0.5001.00
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  
1s3jA 2 0.929 99.9 0.246 Contact Map
4rguA 4 0.929 99.9 0.25 Contact Map
3bj6A 2 0.9613 99.9 0.252 Contact Map
3cdhA 4 0.8645 99.9 0.268 Contact Map
2gxgA 2 0.9032 99.9 0.273 Contact Map
4mnuA 2 0.9613 99.9 0.274 Contact Map
2rdpA 2 0.9032 99.9 0.275 Contact Map
3e6mA 2 0.9355 99.9 0.275 Contact Map
3fm5A 4 0.9226 99.9 0.277 Contact Map
3cjnA 2 0.9097 99.9 0.277 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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