GREMLIN Database
YWQM - Uncharacterized HTH-type transcriptional regulator YwqM
UniProt: P96725 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 293 (283)
Sequences: 79497 (57864)
Seq/√Len: 3439.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
70_K74_L3.7131.00
15_H24_M3.3901.00
11_T24_M2.6031.00
159_E289_R2.5831.00
67_Y81_A2.5401.00
95_G141_L2.3691.00
160_S266_F2.3651.00
91_T122_I2.2781.00
160_S163_Q2.2571.00
45_T60_A2.2481.00
163_Q266_F2.2311.00
10_I69_Q2.2001.00
174_H190_E2.1621.00
8_T35_Q2.1521.00
10_I14_E2.1361.00
231_V238_G2.1331.00
167_K242_E2.1291.00
67_Y74_L2.0891.00
91_T120_K2.0771.00
11_T15_H2.0391.00
232_M253_R2.0151.00
165_E242_E2.0071.00
111_E287_L1.9941.00
183_T186_D1.9581.00
93_K122_I1.9521.00
11_T14_E1.9271.00
20_L23_K1.9141.00
13_A57_L1.9071.00
167_K256_E1.8891.00
228_K248_D1.8801.00
8_T32_V1.8671.00
193_L236_G1.8661.00
10_I65_K1.8531.00
232_M248_D1.8471.00
65_K69_Q1.8461.00
71_I75_T1.8421.00
14_E69_Q1.8051.00
191_T218_K1.8011.00
13_A65_K1.7721.00
170_A257_L1.7651.00
158_V268_Q1.7391.00
135_Q140_Q1.7091.00
63_T81_A1.7031.00
49_E56_I1.6761.00
15_H20_L1.6701.00
67_Y70_K1.6501.00
64_F78_A1.6261.00
17_N20_L1.5741.00
132_A144_T1.5711.00
10_I68_A1.5511.00
159_E271_W1.5471.00
134_E138_Q1.5441.00
157_H273_K1.5391.00
163_Q264_P1.5271.00
5_Q42_E1.5161.00
5_Q35_Q1.5131.00
18_F36_I1.5041.00
5_Q38_S1.5031.00
102_T225_E1.4901.00
14_E24_M1.4881.00
51_L56_I1.4681.00
74_L77_E1.4561.00
67_Y77_E1.4541.00
28_A31_S1.4511.00
11_T25_L1.4481.00
146_I270_A1.4361.00
271_W285_I1.4321.00
157_H271_W1.4221.00
135_Q141_L1.4201.00
46_P49_E1.4171.00
179_D186_D1.4161.00
9_F65_K1.3841.00
19_T29_Q1.3811.00
112_F284_F1.3811.00
202_R206_E1.3801.00
93_K124_K1.3801.00
148_D268_Q1.3761.00
8_T27_Y1.3731.00
71_I78_A1.3731.00
285_I289_R1.3581.00
66_S70_K1.3571.00
64_F79_K1.3541.00
115_A287_L1.3511.00
112_F119_V1.3421.00
136_L144_T1.3351.00
248_D253_R1.3271.00
126_Y131_Q1.3271.00
229_Q232_M1.3081.00
277_M281_L1.3061.00
164_D243_M1.3051.00
10_I72_I1.3021.00
269_L285_I1.3011.00
143_I269_L1.3011.00
67_Y78_A1.3001.00
283_A286_D1.2971.00
227_I238_G1.2971.00
59_E62_K1.2951.00
27_Y31_S1.2771.00
160_S268_Q1.2741.00
137_L155_A1.2671.00
89_T118_Q1.2571.00
172_N255_K1.2561.00
172_N253_R1.2531.00
170_A237_I1.2461.00
242_E256_E1.2381.00
110_K233_A1.2381.00
34_S38_S1.2331.00
190_E237_I1.2311.00
113_K191_T1.2261.00
143_I281_L1.2231.00
113_K218_K1.2221.00
63_T66_S1.2211.00
3_L75_T1.2141.00
63_T67_Y1.2101.00
110_K114_Q1.2021.00
181_P260_Q1.1931.00
111_E115_A1.1911.00
42_E79_K1.1871.00
9_F13_A1.1811.00
9_F48_F1.1721.00
107_P233_A1.1631.00
242_E246_K1.1531.00
256_E259_W1.1461.00
158_V270_A1.1421.00
70_K77_E1.1371.00
6_L68_A1.1221.00
34_S37_K1.1181.00
228_K232_M1.1111.00
191_T217_N1.1091.00
159_E285_I1.1071.00
175_P190_E1.1051.00
116_F283_A1.1001.00
229_Q233_A1.0941.00
182_V186_D1.0921.00
11_T21_T1.0921.00
62_K66_S1.0891.00
122_I220_E1.0811.00
124_K135_Q1.0771.00
246_K250_A1.0681.00
180_L255_K1.0651.00
137_L153_E1.0651.00
169_V256_E1.0631.00
37_K41_E1.0571.00
71_I74_L1.0491.00
18_F55_L1.0481.00
247_D251_A1.0361.00
35_Q38_S1.0341.00
101_C125_P1.0291.00
79_K83_N1.0271.00
33_T37_K1.0271.00
73_A77_E1.0121.00
126_Y135_Q1.0081.00
282_K286_D1.0061.00
171_A234_G1.0041.00
9_F47_L0.9951.00
64_F68_A0.9881.00
111_E114_Q0.9841.00
12_A21_T0.9811.00
112_F287_L0.9791.00
108_I288_T0.9781.00
272_H275_K0.9771.00
184_L261_S0.9741.00
112_F116_F0.9731.00
12_A18_F0.9711.00
4_K7_I0.9671.00
38_S41_E0.9661.00
57_L61_G0.9631.00
75_T79_K0.9631.00
21_T32_V0.9591.00
92_L284_F0.9581.00
221_F227_I0.9551.00
174_H177_P0.9551.00
70_K73_A0.9531.00
286_D289_R0.9531.00
209_L214_I0.9481.00
63_T85_V0.9451.00
193_L227_I0.9451.00
169_V245_V0.9421.00
20_L24_M0.9391.00
27_Y32_V0.9361.00
76_E79_K0.9291.00
203_T206_E0.9291.00
135_Q138_Q0.9281.00
8_T25_L0.9261.00
13_A48_F0.9191.00
9_F39_L0.9181.00
168_M237_I0.9141.00
60_A63_T0.9091.00
7_I76_E0.9071.00
170_A174_H0.9051.00
16_V56_I0.9011.00
221_F230_C0.9011.00
278_S281_L0.8981.00
157_H160_S0.8971.00
98_E223_S0.8951.00
148_D266_F0.8941.00
108_I287_L0.8891.00
9_F57_L0.8831.00
76_E80_M0.8761.00
77_E81_A0.8751.00
248_D251_A0.8731.00
110_K235_L0.8711.00
131_Q134_E0.8651.00
203_T207_N0.8651.00
19_T23_K0.8621.00
208_N212_S0.8571.00
75_T78_A0.8551.00
45_T82_T0.8551.00
66_S69_Q0.8501.00
113_K235_L0.8501.00
178_A191_T0.8471.00
16_V54_R0.8411.00
48_F55_L0.8411.00
60_A85_V0.8391.00
51_L54_R0.8381.00
90_G280_P0.8361.00
29_Q33_T0.8351.00
95_G146_I0.8351.00
25_L32_V0.8271.00
7_I11_T0.8261.00
176_F190_E0.8261.00
141_L144_T0.8251.00
279_A283_A0.8231.00
183_T260_Q0.8191.00
74_L78_A0.8181.00
15_H21_T0.8171.00
133_K137_L0.8141.00
14_E65_K0.8121.00
60_A82_T0.8051.00
4_K35_Q0.8041.00
13_A16_V0.8021.00
277_M282_K0.7981.00
95_G144_T0.7971.00
205_F209_L0.7941.00
185_K188_Q0.7931.00
62_K65_K0.7921.00
165_E262_D0.7911.00
119_V280_P0.7901.00
12_A48_F0.7901.00
124_K141_L0.7881.00
120_K217_N0.7861.00
9_F64_F0.7861.00
94_I143_I0.7851.00
186_D189_N0.7841.00
245_V248_D0.7811.00
171_A235_L0.7771.00
7_I10_I0.7761.00
230_C235_L0.7751.00
78_A82_T0.7721.00
175_P180_L0.7721.00
69_Q73_A0.7721.00
192_L216_P0.7691.00
5_Q8_T0.7671.00
13_A61_G0.7641.00
16_V62_K0.7631.00
12_A32_V0.7631.00
49_E58_T0.7591.00
68_A71_I0.7581.00
173_D234_G0.7561.00
156_L270_A0.7551.00
18_F32_V0.7541.00
170_A175_P0.7531.00
96_A101_C0.7511.00
37_K46_P0.7481.00
165_E264_P0.7471.00
275_K278_S0.7461.00
223_S226_A0.7461.00
139_G272_H0.7451.00
169_V238_G0.7411.00
171_A174_H0.7401.00
165_E258_N0.7381.00
3_L72_I0.7371.00
196_E220_E0.7371.00
112_F283_A0.7371.00
90_G119_V0.7351.00
137_L156_L0.7311.00
208_N211_D0.7261.00
188_Q214_I0.7241.00
204_L208_N0.7181.00
177_P255_K0.7161.00
169_V240_L0.7151.00
59_E63_T0.7141.00
283_A287_L0.7121.00
131_Q135_Q0.7111.00
12_A36_I0.7081.00
170_A255_K0.7061.00
102_T229_Q0.7021.00
60_A64_F0.7011.00
142_D281_L0.6981.00
207_N211_D0.6961.00
95_G132_A0.6951.00
83_N86_R0.6921.00
9_F61_G0.6891.00
174_H191_T0.6881.00
67_Y71_I0.6881.00
107_P110_K0.6841.00
7_I72_I0.6801.00
183_T261_S0.6801.00
88_T116_F0.6791.00
181_P258_N0.6771.00
174_H178_A0.6751.00
93_K142_D0.6731.00
192_L237_I0.6731.00
241_P244_T0.6731.00
155_A273_K0.6711.00
143_I284_F0.6711.00
31_S35_Q0.6691.00
168_M239_I0.6661.00
205_F208_N0.6651.00
206_E210_H0.6651.00
64_F82_T0.6631.00
57_L62_K0.6611.00
173_D177_P0.6571.00
120_K220_E0.6571.00
49_E54_R0.6521.00
115_A283_A0.6521.00
170_A176_F0.6461.00
56_I62_K0.6441.00
23_K26_N0.6431.00
173_D176_F0.6421.00
195_T227_I0.6411.00
232_M251_A0.6391.00
93_K141_L0.6341.00
204_L207_N0.6321.00
185_K212_S0.6311.00
77_E80_M0.6301.00
147_L265_V0.6301.00
105_L108_I0.6241.00
279_A282_K0.6241.00
72_I76_E0.6231.00
40_E50_R0.6221.00
219_L230_C0.6211.00
125_P222_V0.6201.00
196_E222_V0.6201.00
13_A62_K0.6141.00
4_K38_S0.6061.00
43_I64_F0.6061.00
128_S131_Q0.6021.00
201_Y205_F0.6011.00
247_D250_A0.5991.00
73_A76_E0.5961.00
143_I285_I0.5941.00
80_M84_Q0.5911.00
4_K8_T0.5881.00
36_I40_E0.5851.00
126_Y132_A0.5811.00
12_A17_N0.5781.00
40_E45_T0.5771.00
107_P111_E0.5751.00
168_M187_L0.5731.00
206_E209_L0.5701.00
221_F226_A0.5701.00
21_T25_L0.5691.00
202_R220_E0.5651.00
172_N252_G0.5641.00
92_L143_I0.5641.00
116_F119_V0.5641.00
207_N210_H0.5611.00
271_W282_K0.5601.00
203_T208_N0.5591.00
96_A105_L0.5591.00
63_T82_T0.5591.00
45_T49_E0.5581.00
90_G118_Q0.5581.00
104_R108_I0.5581.00
173_D255_K0.5571.00
284_F288_T0.5571.00
148_D158_V0.5561.00
188_Q215_Y0.5561.00
80_M83_N0.5551.00
81_A84_Q0.5541.00
18_F29_Q0.5541.00
202_R208_N0.5541.00
166_I239_I0.5531.00
68_A72_I0.5521.00
43_I82_T0.5521.00
164_D265_V0.5511.00
31_S34_S0.5491.00
89_T120_K0.5481.00
174_H237_I0.5461.00
136_L156_L0.5461.00
137_L140_Q0.5451.00
48_F57_L0.5441.00
95_G124_K0.5421.00
209_L216_P0.5421.00
227_I231_V0.5411.00
84_Q88_T0.5401.00
92_L280_P0.5391.00
110_K113_K0.5371.00
43_I46_P0.5371.00
100_Q104_R0.5351.00
161_L269_L0.5341.00
280_P283_A0.5321.00
96_A123_F0.5281.00
134_E140_Q0.5281.00
46_P60_A0.5271.00
175_P179_D0.5271.00
106_P110_K0.5271.00
30_S34_S0.5261.00
125_P223_S0.5231.00
253_R256_E0.5211.00
16_V55_L0.5211.00
27_Y35_Q0.5191.00
84_Q87_E0.5171.00
224_I241_P0.5161.00
38_S42_E0.5161.00
120_K218_K0.5151.00
195_T224_I0.5151.00
88_T118_Q0.5151.00
202_R205_F0.5141.00
225_E229_Q0.5141.00
107_P229_Q0.5131.00
97_T100_Q0.5131.00
281_L285_I0.5121.00
240_L245_V0.5111.00
28_A34_S0.5101.00
201_Y204_L0.5091.00
78_A81_A0.5091.00
176_F179_D0.5071.00
6_L64_F0.5071.00
30_S33_T0.5061.00
10_I76_E0.5041.00
57_L65_K0.5001.00
45_T86_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  
1uthA 2 0.7474 100 0.088 Contact Map
2esnA 3 0.9863 100 0.088 Contact Map
3fxqA 3 0.9898 100 0.096 Contact Map
2h98A 2 0.6826 100 0.097 Contact Map
1al3A 1 0.7031 100 0.098 Contact Map
1ixcA 4 0.9829 100 0.102 Contact Map
2h9bA 2 0.6826 100 0.102 Contact Map
3fzvA 4 0.9659 100 0.103 Contact Map
4x6gA 4 0.9932 100 0.104 Contact Map
3szpA 3 0.9795 100 0.117 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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