GREMLIN Database
YAHB - Uncharacterized HTH-type transcriptional regulator YahB
UniProt: P77700 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13586
Length: 310 (283)
Sequences: 79760 (57930)
Seq/√Len: 3443.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
74_D78_D3.4851.00
19_F28_E3.3111.00
165_T293_A2.6131.00
100_C146_A2.4951.00
71_K85_R2.3711.00
235_Q242_G2.2521.00
180_H197_Y2.2311.00
171_R246_D2.1721.00
169_A271_R2.1721.00
15_T28_E2.1581.00
117_V295_N2.1571.00
166_E169_A2.1161.00
96_R128_T2.1121.00
18_R73_T2.0751.00
24_K27_E2.0731.00
96_R126_Q2.0631.00
166_E271_R2.0391.00
190_A193_Q2.0121.00
49_V64_S1.9881.00
12_A39_T1.9861.00
169_A269_D1.9571.00
14_T69_F1.9531.00
232_C252_A1.9511.00
98_R128_T1.9441.00
236_I257_L1.9291.00
71_K78_D1.9161.00
117_V291_Q1.9031.00
14_T73_T1.8941.00
15_T18_R1.8801.00
176_I261_R1.8741.00
75_L79_F1.8501.00
12_A36_I1.8491.00
15_T19_F1.8431.00
17_A61_L1.8351.00
14_T18_R1.8291.00
200_I240_G1.8241.00
22_F40_I1.8101.00
173_A246_D1.7881.00
69_F73_T1.7831.00
137_V149_A1.7431.00
53_T60_E1.7041.00
68_F82_I1.7031.00
236_I252_A1.6681.00
198_P222_S1.6461.00
67_Y85_R1.6401.00
173_A260_T1.6351.00
164_Y273_L1.6291.00
140_A145_Q1.6251.00
118_L288_I1.6161.00
18_R28_E1.5881.00
17_A69_F1.5591.00
13_F69_F1.5561.00
14_T72_A1.5511.00
19_F24_K1.5441.00
12_A31_L1.5291.00
163_D278_H1.5221.00
118_L125_C1.5011.00
23_S33_T1.4911.00
9_N39_T1.4871.00
92_G124_T1.4861.00
185_V193_Q1.4851.00
139_D143_N1.4771.00
63_E66_R1.4741.00
9_N46_G1.4421.00
165_T276_T1.4381.00
281_T285_T1.4291.00
50_V53_T1.4271.00
32_T35_A1.4221.00
21_S24_K1.4131.00
9_N42_R1.4101.00
14_T76_L1.4061.00
153_P273_L1.4051.00
71_K74_D1.4031.00
6_T9_N1.4011.00
289_K293_A1.3911.00
15_T29_L1.3851.00
163_D276_T1.3821.00
151_G275_A1.3811.00
71_K81_A1.3681.00
75_L82_I1.3641.00
178_P257_L1.3471.00
276_T289_K1.3471.00
94_E124_T1.3361.00
274_L289_K1.3181.00
117_V121_Q1.3161.00
98_R130_T1.3101.00
142_I161_G1.3071.00
287_W290_K1.3021.00
7_E79_F1.2981.00
141_I149_A1.2961.00
148_I285_T1.2951.00
140_A146_A1.2861.00
148_I274_L1.2721.00
197_Y241_I1.2681.00
55_S60_E1.2671.00
176_I241_I1.2671.00
170_I247_Y1.2561.00
119_K222_S1.2561.00
46_G83_K1.2561.00
68_F83_K1.2551.00
231_K242_G1.2321.00
246_D250_R1.2281.00
78_D81_A1.2251.00
121_Q291_Q1.2241.00
66_R70_R1.2001.00
180_H183_A1.1991.00
70_R74_D1.1981.00
41_K45_T1.1981.00
233_Q236_I1.1851.00
178_P259_V1.1821.00
67_Y70_R1.1781.00
71_K82_I1.1711.00
13_F52_F1.1711.00
246_D260_T1.1691.00
250_R254_T1.1651.00
117_V120_K1.1621.00
119_K198_P1.1591.00
116_Q120_K1.1551.00
164_Y275_A1.1501.00
166_E273_L1.1491.00
176_I180_H1.1401.00
252_A257_L1.1391.00
13_F51_L1.1331.00
31_L35_A1.1271.00
200_I231_K1.1261.00
97_V288_I1.1201.00
13_F17_A1.1191.00
212_K217_L1.1101.00
38_Y41_K1.1101.00
38_Y42_R1.0961.00
11_L80_Y1.0951.00
128_T224_L1.0941.00
277_Q280_A1.0941.00
37_S41_K1.0941.00
225_V231_K1.0871.00
175_A260_T1.0861.00
122_F287_W1.0861.00
74_D81_A1.0851.00
118_L291_Q1.0821.00
16_A25_A1.0811.00
290_K293_A1.0801.00
116_Q237_L1.0781.00
198_P220_Q1.0771.00
22_F59_I1.0771.00
8_E11_L1.0741.00
10_L72_A1.0581.00
188_P264_H1.0581.00
15_T25_A1.0561.00
75_L78_D1.0521.00
39_T42_R1.0461.00
286_Q290_K1.0451.00
291_Q295_N1.0371.00
114_L292_F1.0311.00
142_I159_G1.0301.00
177_A238_G1.0281.00
67_Y71_K1.0271.00
232_C236_I1.0201.00
61_L65_G1.0191.00
233_Q237_L1.0101.00
260_T263_I1.0101.00
113_R237_L1.0081.00
189_I193_Q1.0081.00
165_T289_K1.0081.00
83_K87_D0.9801.00
174_F241_I0.9791.00
31_L36_I0.9791.00
12_A29_L0.9791.00
80_Y83_K0.9751.00
100_C137_V0.9751.00
80_Y84_R0.9751.00
171_R269_D0.9741.00
175_A249_V0.9701.00
191_E265_N0.9681.00
17_A52_F0.9631.00
121_Q294_P0.9571.00
251_E255_Q0.9521.00
176_I182_L0.9471.00
16_A22_F0.9471.00
118_L122_F0.9451.00
77_N81_A0.9441.00
13_F61_L0.9411.00
130_T140_A0.9301.00
291_Q294_P0.9291.00
211_K215_W0.9251.00
68_F72_A0.9241.00
201_M221_E0.9241.00
52_F59_I0.9221.00
140_A143_N0.9201.00
13_F43_M0.9161.00
225_V234_C0.9151.00
25_A36_I0.9141.00
282_G285_T0.9111.00
107_T229_N0.9101.00
49_V86_I0.9071.00
161_G278_H0.9061.00
17_A65_G0.9021.00
42_R45_T0.9011.00
249_V252_A0.8941.00
114_L291_Q0.8941.00
126_Q220_Q0.8911.00
180_H198_P0.8881.00
146_A149_A0.8881.00
70_R73_T0.8831.00
24_K28_E0.8801.00
193_Q196_L0.8751.00
67_Y89_I0.8741.00
103_Q227_D0.8671.00
153_P271_R0.8651.00
99_I148_I0.8651.00
162_I275_A0.8631.00
100_C151_G0.8541.00
163_D166_E0.8531.00
125_C284_V0.8521.00
290_K294_P0.8511.00
23_S27_E0.8471.00
20_G60_E0.8461.00
175_A242_G0.8421.00
55_S58_S0.8391.00
198_P221_E0.8381.00
183_A259_V0.8371.00
138_W142_I0.8291.00
74_D77_N0.8241.00
29_L36_I0.8221.00
64_S89_I0.8201.00
8_E39_T0.8181.00
130_T146_A0.8181.00
253_M256_S0.8181.00
209_I213_V0.8131.00
179_D183_A0.8121.00
281_T286_Q0.8111.00
100_C149_A0.8111.00
13_F68_F0.8111.00
41_K50_V0.8021.00
64_S86_I0.8021.00
249_V253_M0.8001.00
177_A239_E0.7991.00
16_A40_I0.7971.00
208_T212_K0.7961.00
20_G66_R0.7961.00
7_E76_L0.7951.00
93_I122_F0.7941.00
95_A284_V0.7851.00
17_A20_G0.7831.00
33_T37_S0.7811.00
116_Q239_E0.7781.00
212_K215_W0.7781.00
192_S195_R0.7771.00
252_A255_Q0.7771.00
136_G139_D0.7771.00
18_R69_F0.7761.00
16_A52_F0.7751.00
148_I288_I0.7711.00
78_D82_I0.7711.00
95_A125_C0.7641.00
171_R262_Q0.7631.00
19_F25_A0.7601.00
234_C239_E0.7571.00
177_A180_H0.7561.00
79_F82_I0.7511.00
20_G58_S0.7501.00
117_V294_P0.7501.00
121_Q287_W0.7501.00
81_A85_R0.7481.00
9_N12_A0.7471.00
190_A264_H0.7441.00
79_F83_K0.7421.00
208_T211_K0.7401.00
283_Q287_W0.7391.00
64_S67_Y0.7361.00
176_I259_V0.7341.00
142_I162_I0.7321.00
211_K214_G0.7301.00
119_K239_E0.7281.00
61_L66_R0.7281.00
60_E66_R0.7261.00
114_L295_N0.7251.00
175_A244_L0.7241.00
82_I86_I0.7231.00
87_D90_S0.7221.00
182_L197_Y0.7171.00
72_A75_L0.7161.00
22_F36_I0.7151.00
98_R146_A0.7141.00
175_A253_M0.7131.00
11_L15_T0.7111.00
53_T62_T0.7101.00
118_L287_W0.7081.00
150_I292_F0.7081.00
16_A36_I0.7031.00
190_A265_N0.7031.00
185_V198_P0.7021.00
245_P248_M0.7021.00
101_I106_Y0.6961.00
253_M260_T0.6961.00
35_A39_T0.6941.00
195_R217_L0.6911.00
196_L220_Q0.6891.00
73_T77_N0.6881.00
53_T58_S0.6881.00
236_I255_Q0.6841.00
188_P262_Q0.6831.00
44_E49_V0.6801.00
64_S68_F0.6801.00
210_N214_G0.6781.00
147_N285_T0.6781.00
223_I234_C0.6751.00
98_R147_N0.6741.00
202_V231_K0.6741.00
227_D230_T0.6711.00
199_N219_G0.6691.00
180_H185_V0.6681.00
101_I111_T0.6681.00
77_N80_Y0.6681.00
287_W291_Q0.6671.00
97_V284_V0.6661.00
72_A76_L0.6651.00
144_N277_Q0.6631.00
22_F58_S0.6631.00
63_E67_Y0.6601.00
81_A84_R0.6581.00
210_N213_V0.6581.00
179_D259_V0.6541.00
66_R69_F0.6541.00
44_E54_R0.6531.00
251_E254_T0.6511.00
141_I275_A0.6501.00
203_E224_L0.6461.00
25_A29_L0.6451.00
68_F86_I0.6451.00
126_Q224_L0.6441.00
27_E30_G0.6391.00
199_N241_I0.6351.00
8_E42_R0.6331.00
40_I44_E0.6311.00
179_D238_G0.6271.00
16_A21_S0.6241.00
71_K75_L0.6221.00
174_F194_L0.6221.00
97_V148_I0.6201.00
67_Y86_I0.6191.00
168_G272_M0.6191.00
11_L14_T0.6181.00
178_P256_S0.6181.00
283_Q286_Q0.6121.00
174_F243_F0.6121.00
182_L185_V0.6091.00
94_E126_Q0.6071.00
288_I292_F0.6041.00
106_Y134_Y0.6011.00
61_L69_F0.6011.00
34_S38_Y0.6011.00
148_I289_K0.6001.00
234_C240_G0.5981.00
203_E226_P0.5971.00
111_T114_L0.5961.00
176_I183_A0.5951.00
174_F199_N0.5951.00
84_R88_T0.5941.00
231_K235_Q0.5921.00
171_R266_P0.5911.00
163_D279_S0.5901.00
170_I270_S0.5881.00
152_A270_S0.5881.00
47_L86_I0.5841.00
276_T286_Q0.5821.00
141_I162_I0.5801.00
107_T233_Q0.5761.00
35_A38_Y0.5751.00
113_R117_V0.5741.00
32_T38_Y0.5741.00
188_P193_Q0.5721.00
113_R116_Q0.5711.00
172_W243_F0.5711.00
136_G140_A0.5691.00
8_E12_A0.5661.00
47_L68_F0.5651.00
115_L127_I0.5651.00
225_V230_T0.5651.00
204_D224_L0.5641.00
185_V188_P0.5631.00
49_V53_T0.5621.00
105_L110_H0.5601.00
11_L76_L0.5591.00
52_F61_L0.5561.00
76_L79_F0.5521.00
47_L50_V0.5501.00
180_H241_I0.5471.00
95_A124_T0.5461.00
40_I52_F0.5411.00
70_R85_R0.5411.00
167_I274_L0.5401.00
12_A40_I0.5401.00
244_L249_V0.5401.00
95_A122_F0.5361.00
76_L80_Y0.5361.00
100_C130_T0.5341.00
228_F245_P0.5331.00
153_P164_Y0.5321.00
139_D145_Q0.5311.00
150_I274_L0.5311.00
137_V144_N0.5291.00
13_F65_G0.5291.00
22_F33_T0.5291.00
72_A79_F0.5281.00
122_F125_C0.5271.00
285_T289_K0.5261.00
192_S215_W0.5241.00
157_L160_G0.5241.00
88_T93_I0.5211.00
22_F54_R0.5201.00
276_T281_T0.5141.00
50_V64_S0.5131.00
71_K86_I0.5131.00
12_A25_A0.5121.00
263_I266_P0.5111.00
31_L39_T0.5081.00
113_R233_Q0.5081.00
75_L83_K0.5071.00
84_R87_D0.5051.00
20_G59_I0.5041.00
10_L68_F0.5041.00
109_K112_A0.5021.00
17_A66_R0.5021.00
101_I129_V0.5001.00
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  
2esnA 3 0.9419 100 0.134 Contact Map
1uthA 2 0.7161 100 0.134 Contact Map
3fzvA 4 0.9194 100 0.136 Contact Map
1ixcA 4 0.929 100 0.139 Contact Map
2h98A 2 0.671 100 0.144 Contact Map
3fxqA 3 0.9355 100 0.144 Contact Map
4x6gA 4 0.9677 100 0.145 Contact Map
1al3A 1 0.7 100 0.146 Contact Map
2h9bA 2 0.6742 100 0.146 Contact Map
3szpA 3 0.9194 100 0.165 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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