GREMLIN Database
YOBQ - Uncharacterized HTH-type transcriptional regulator YobQ
UniProt: O34901 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 241 (209)
Sequences: 34713 (29590)
Seq/√Len: 2046.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
192_K225_T3.1301.00
177_K185_D2.9721.00
200_E208_A2.9181.00
144_H186_L2.7231.00
154_K164_P2.6851.00
188_L225_T2.6581.00
190_E193_R2.5771.00
221_F232_Y2.5531.00
185_D224_S2.5181.00
146_H149_E2.4581.00
142_Y146_H2.4231.00
194_M208_A2.2811.00
191_A217_F2.2531.00
171_F182_Y2.0731.00
139_S167_Y2.0611.00
194_M209_L2.0041.00
152_T155_K1.9971.00
227_M235_T1.9091.00
200_E204_V1.8511.00
142_Y159_I1.7701.00
194_M200_E1.7681.00
140_I175_T1.7661.00
180_Q184_A1.7471.00
214_L218_T1.7261.00
147_L186_L1.7231.00
39_D48_K1.7181.00
39_D46_Q1.7041.00
192_K232_Y1.6961.00
143_I183_I1.6641.00
139_S160_E1.6621.00
188_L224_S1.6441.00
166_Y170_W1.6371.00
220_W223_K1.6261.00
153_I168_S1.6171.00
201_T204_V1.6101.00
123_M126_Q1.5951.00
126_Q130_E1.5921.00
41_E46_Q1.5711.00
186_L190_E1.5521.00
142_Y151_L1.5461.00
166_Y169_S1.5441.00
193_R197_E1.5311.00
190_E194_M1.5261.00
156_L179_P1.5191.00
34_L74_L1.5161.00
37_S48_K1.5081.00
177_K181_N1.4811.00
35_E72_E1.4731.00
164_P168_S1.4721.00
167_Y179_P1.4651.00
195_L202_L1.4631.00
203_T214_L1.4591.00
141_A145_S1.4541.00
216_S220_W1.4481.00
50_N53_H1.4251.00
179_P183_I1.3931.00
140_I144_H1.3911.00
28_S59_P1.3721.00
41_E64_R1.3711.00
227_M231_L1.3681.00
147_L190_E1.3681.00
204_V208_A1.3661.00
191_A209_L1.3641.00
215_S218_T1.3601.00
204_V207_E1.3591.00
211_F220_W1.3521.00
203_T207_E1.3461.00
122_H126_Q1.3441.00
162_Y166_Y1.3441.00
190_E209_L1.3431.00
230_R234_N1.3431.00
144_H182_Y1.3321.00
165_A169_S1.3091.00
123_M130_E1.3051.00
39_D66_R1.2971.00
37_S50_N1.2901.00
185_D189_E1.2831.00
155_K159_I1.2811.00
168_S179_P1.2751.00
205_V209_L1.2691.00
184_A220_W1.2641.00
148_F208_A1.2631.00
178_S181_N1.2361.00
162_Y167_Y1.2341.00
104_S108_L1.2191.00
186_L189_E1.2111.00
163_H166_Y1.2101.00
43_E61_C1.2051.00
139_S156_L1.2041.00
154_K158_E1.1801.00
149_E155_K1.1771.00
130_E134_S1.1741.00
218_T228_P1.1701.00
192_K196_M1.1551.00
123_M127_Y1.1541.00
58_P61_C1.1511.00
143_I186_L1.1281.00
198_R233_R1.1151.00
218_T230_R1.1141.00
200_E205_V1.0851.00
219_R223_K1.0821.00
35_E51_P1.0801.00
34_L72_E1.0751.00
189_E192_K1.0611.00
231_L234_N1.0571.00
103_S107_Y1.0381.00
170_W174_Q1.0351.00
151_L156_L1.0351.00
228_P231_L1.0321.00
170_W173_K1.0291.00
157_A164_P1.0231.00
29_Q63_H1.0131.00
104_S107_Y1.0101.00
184_A223_K1.0041.00
230_R233_R1.0031.00
107_Y111_E1.0011.00
25_H63_H0.9981.00
153_I179_P0.9881.00
148_F190_E0.9761.00
140_I182_Y0.9701.00
23_H63_H0.9691.00
218_T222_T0.9601.00
22_S62_E0.9591.00
142_Y160_E0.9451.00
38_I71_N0.9431.00
213_N219_R0.9411.00
150_R212_Q0.9391.00
171_F175_T0.9311.00
202_L205_V0.9281.00
194_M205_V0.9151.00
147_L151_L0.9091.00
94_I97_A0.9071.00
162_Y170_W0.9061.00
181_N184_A0.9041.00
165_A168_S0.9021.00
155_K158_E0.8971.00
231_L235_T0.8941.00
139_S142_Y0.8941.00
220_W224_S0.8931.00
150_R155_K0.8931.00
33_P38_I0.8931.00
156_L159_I0.8781.00
94_I98_L0.8781.00
160_E167_Y0.8771.00
225_T232_Y0.8701.00
216_S219_R0.8651.00
153_I164_P0.8611.00
195_L233_R0.8591.00
184_A224_S0.8551.00
181_N185_D0.8371.00
227_M232_Y0.8361.00
188_L220_W0.8351.00
80_L84_K0.8261.00
222_T228_P0.8231.00
106_R112_E0.8221.00
180_Q216_S0.8161.00
143_I179_P0.8131.00
31_L75_V0.8111.00
187_R209_L0.8101.00
22_S64_R0.8101.00
192_K221_F0.8101.00
206_S214_L0.8091.00
53_H97_A0.8031.00
99_D102_W0.8001.00
37_S68_I0.7991.00
38_I49_L0.7981.00
188_L217_F0.7921.00
71_N75_V0.7901.00
39_D68_I0.7891.00
41_E44_G0.7881.00
28_S56_Y0.7861.00
147_L183_I0.7861.00
195_L205_V0.7861.00
112_E116_G0.7801.00
181_N224_S0.7791.00
41_E66_R0.7771.00
142_Y156_L0.7711.00
182_Y186_L0.7691.00
171_F179_P0.7681.00
139_S171_F0.7671.00
139_S143_I0.7631.00
180_Q183_I0.7611.00
113_A116_G0.7611.00
198_R205_V0.7581.00
108_L112_E0.7551.00
127_Y130_E0.7511.00
125_V131_K0.7471.00
168_S172_K0.7421.00
95_E98_L0.7391.00
207_E212_Q0.7391.00
101_F104_S0.7251.00
117_T120_S0.7251.00
191_A194_M0.7241.00
146_H159_I0.7211.00
29_Q77_D0.7201.00
146_H155_K0.7171.00
42_T45_R0.7141.00
151_L155_K0.7141.00
147_L209_L0.7111.00
140_I171_F0.7051.00
92_S95_E0.7031.00
40_L55_L0.7021.00
127_Y131_K0.7001.00
222_T231_L0.6971.00
121_L124_L0.6931.00
156_L167_Y0.6891.00
109_L112_E0.6841.00
38_I48_K0.6831.00
124_L127_Y0.6831.00
143_I182_Y0.6801.00
122_H125_V0.6781.00
214_L217_F0.6751.00
110_T114_K0.6731.00
196_M232_Y0.6711.00
205_V233_R0.6691.00
104_S111_E0.6671.00
25_H29_Q0.6671.00
108_L111_E0.6621.00
168_S180_Q0.6591.00
121_L132_L0.6591.00
215_S228_P0.6581.00
57_I63_H0.6561.00
177_K182_Y0.6561.00
32_F54_F0.6531.00
175_T182_Y0.6501.00
31_L73_C0.6481.00
24_K62_E0.6471.00
33_P73_C0.6451.00
213_N216_S0.6451.00
201_T205_V0.6441.00
33_P36_G0.6401.00
122_H130_E0.6391.00
144_H190_E0.6371.00
49_L55_L0.6311.00
168_S178_S0.6311.00
156_L160_E0.6301.00
30_F56_Y0.6281.00
172_K178_S0.6251.00
217_F221_F0.6251.00
169_S173_K0.6231.00
28_S31_L0.6221.00
212_Q216_S0.6161.00
31_L57_I0.6161.00
139_S179_P0.6121.00
112_E115_A0.6101.00
188_L211_F0.6081.00
199_N205_V0.6051.00
157_A160_E0.6051.00
105_I109_L0.6041.00
121_L127_Y0.6031.00
122_H129_K0.6001.00
189_E224_S0.5971.00
215_S219_R0.5941.00
153_I180_Q0.5941.00
107_Y110_T0.5901.00
30_F54_F0.5871.00
184_A216_S0.5861.00
121_L131_K0.5851.00
80_L83_M0.5841.00
27_Y77_D0.5841.00
151_L187_R0.5811.00
38_I65_F0.5751.00
158_E161_H0.5731.00
191_A205_V0.5731.00
131_K135_H0.5721.00
217_F229_P0.5701.00
183_I187_R0.5701.00
33_P71_N0.5671.00
194_M197_E0.5641.00
189_E225_T0.5631.00
31_L40_L0.5611.00
213_N223_K0.5601.00
193_R196_M0.5601.00
141_A144_H0.5591.00
139_S159_I0.5591.00
111_E115_A0.5581.00
139_S170_W0.5581.00
221_F227_M0.5551.00
206_S211_F0.5531.00
33_P49_L0.5521.00
121_L125_V0.5521.00
147_L187_R0.5481.00
133_Q136_S0.5471.00
43_E62_E0.5461.00
202_L230_R0.5461.00
81_H84_K0.5451.00
151_L183_I0.5421.00
105_I108_L0.5381.00
143_I151_L0.5361.00
142_Y155_K0.5341.00
124_L132_L0.5311.00
126_Q136_S0.5281.00
106_R110_T0.5271.00
121_L126_Q0.5251.00
153_I165_A0.5251.00
130_E133_Q0.5231.00
197_E200_E0.5171.00
40_L65_F0.5151.00
191_A221_F0.5141.00
192_K227_M0.5111.00
181_N223_K0.5111.00
220_W225_T0.5101.00
167_Y170_W0.5091.00
103_S106_R0.5091.00
26_A79_P0.5061.00
37_S69_G0.5061.00
131_K134_S0.5051.00
202_L214_L0.5041.00
93_G97_A0.5031.00
125_V136_S0.5031.00
160_E164_P0.5021.00
39_D42_T0.5011.00
211_F216_S0.5011.00
31_L55_L0.5001.00
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  
3gbgA 1 0.9751 100 0.226 Contact Map
1bl0A 1 0.4564 100 0.455 Contact Map
3mn2A 1 0.4398 100 0.457 Contact Map
3oouA 1 0.4357 100 0.457 Contact Map
2k9sA 1 0.4398 99.9 0.459 Contact Map
3oioA 1 0.4647 99.9 0.463 Contact Map
3w6vA 1 0.4523 99.9 0.466 Contact Map
3mklA 1 0.4606 99.9 0.469 Contact Map
3lsgA 2 0.4232 99.9 0.471 Contact Map
1d5yA 1 0.4564 99.9 0.482 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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