GREMLIN Database
YIJO - Uncharacterized HTH-type transcriptional regulator YijO
UniProt: P32677 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11913
Length: 283 (238)
Sequences: 34381 (29566)
Seq/√Len: 1916.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
227_K260_T3.2151.00
212_I220_H3.1861.00
235_L243_A2.9811.00
223_L260_T2.9641.00
179_D221_T2.9521.00
189_E199_P2.8481.00
225_H228_T2.7771.00
177_Y181_R2.7671.00
220_H259_N2.6411.00
181_R184_S2.6081.00
256_F267_Y2.5771.00
229_L243_A2.3041.00
226_A252_F2.2921.00
174_I202_L2.2691.00
206_F217_Y2.0961.00
229_L244_C2.0911.00
262_R270_Q2.0421.00
187_T190_S2.0221.00
235_L239_E1.9791.00
182_Y221_T1.9081.00
52_V57_G1.8731.00
177_Y194_A1.8671.00
178_I218_L1.8531.00
223_L259_N1.8231.00
229_L235_L1.8151.00
215_N219_N1.7981.00
175_R210_G1.7961.00
174_I195_F1.7871.00
171_F210_G1.7831.00
236_K239_E1.7261.00
52_V59_T1.7071.00
249_S253_C1.6831.00
201_Y205_L1.6751.00
227_K267_Y1.6741.00
188_R203_S1.6701.00
191_V214_F1.6691.00
47_L85_F1.6431.00
48_E83_T1.6261.00
255_L258_K1.6221.00
61_V64_D1.6221.00
238_K249_S1.5871.00
176_D180_E1.5811.00
145_I148_S1.5701.00
225_H229_L1.5561.00
230_L237_V1.5421.00
50_E59_T1.5381.00
199_P203_S1.5261.00
202_L214_F1.5141.00
212_I216_E1.5111.00
179_D217_Y1.4971.00
221_T225_H1.4711.00
228_T232_G1.4711.00
182_Y225_H1.4601.00
144_L151_S1.4571.00
214_F218_L1.4481.00
177_Y186_L1.4461.00
41_P70_A1.4411.00
201_Y204_H1.4401.00
168_Q209_T1.4401.00
239_E243_A1.4401.00
251_Y255_L1.4321.00
262_R266_E1.4271.00
238_K242_H1.4181.00
239_E242_H1.4141.00
197_I201_Y1.4091.00
265_S269_R1.3811.00
240_V244_C1.3721.00
175_R179_D1.3651.00
50_E61_V1.3641.00
183_A243_A1.3551.00
226_A244_C1.3541.00
200_N204_H1.3531.00
52_V77_Q1.3521.00
246_F255_L1.3481.00
174_I191_V1.3451.00
54_T57_G1.3371.00
148_S152_H1.3341.00
250_N253_C1.3331.00
178_I221_T1.3271.00
144_L148_S1.3211.00
225_H244_C1.3191.00
213_G216_E1.3031.00
203_S214_F1.2771.00
190_S194_A1.2641.00
197_I202_L1.2631.00
220_H224_E1.2611.00
219_N255_L1.2531.00
189_E193_Q1.2491.00
54_T75_F1.2401.00
184_S190_S1.2291.00
221_T224_E1.2261.00
143_R147_A1.2221.00
253_C263_S1.2151.00
233_Y268_R1.2121.00
253_C265_S1.2081.00
198_S201_Y1.1911.00
48_E62_P1.1711.00
144_L147_A1.1681.00
69_P72_G1.1641.00
227_K231_K1.1381.00
36_Y74_N1.1341.00
122_G132_M1.1221.00
170_L197_I1.1161.00
127_Q131_E1.1161.00
126_L132_M1.1061.00
254_R258_K1.1041.00
47_L83_T1.0861.00
147_A151_S1.0851.00
235_L240_V1.0771.00
224_E227_K1.0661.00
263_S266_E1.0631.00
188_R214_F1.0591.00
205_L208_K1.0571.00
186_L191_V1.0421.00
266_E269_R1.0401.00
192_A199_P1.0351.00
124_F127_Q1.0341.00
123_S127_Q1.0331.00
183_A225_H1.0291.00
177_Y195_F1.0281.00
170_L205_L1.0251.00
51_F82_A1.0181.00
35_A73_W1.0141.00
169_A173_A1.0121.00
132_M135_Q1.0091.00
38_V74_N1.0091.00
141_T145_I1.0051.00
205_L209_T1.0001.00
219_N258_K0.9971.00
172_E176_D0.9931.00
185_A190_S0.9921.00
170_L195_F0.9921.00
131_E135_Q0.9911.00
200_N203_S0.9901.00
151_S155_D0.9901.00
265_S268_R0.9901.00
38_V42_R0.9891.00
42_R74_N0.9841.00
248_D254_R0.9831.00
185_A247_V0.9791.00
216_E219_N0.9751.00
229_L240_V0.9561.00
188_R199_P0.9511.00
190_S193_Q0.9511.00
148_S151_S0.9461.00
173_A194_A0.9451.00
177_Y191_V0.9271.00
191_V194_A0.9221.00
46_V51_F0.9201.00
126_L130_N0.9181.00
195_F202_L0.9161.00
255_L259_N0.9111.00
106_Y109_L0.9061.00
237_V240_V0.9051.00
253_C257_R0.9011.00
171_F205_L0.9001.00
122_G128_T0.8931.00
175_R217_Y0.8921.00
141_T148_S0.8901.00
260_T267_Y0.8871.00
251_Y254_R0.8821.00
110_A113_H0.8781.00
140_Q147_A0.8731.00
227_K256_F0.8701.00
266_E270_Q0.8701.00
182_Y186_L0.8671.00
197_I205_L0.8651.00
222_R244_C0.8611.00
257_R263_S0.8601.00
129_L132_M0.8591.00
178_I214_F0.8581.00
152_H156_L0.8551.00
122_G126_L0.8481.00
216_E220_H0.8421.00
223_L255_L0.8391.00
219_N259_N0.8381.00
215_N218_L0.8341.00
173_A176_D0.8301.00
127_Q130_N0.8281.00
215_N251_Y0.8281.00
182_Y218_L0.8221.00
51_F60_L0.8201.00
217_Y221_T0.8151.00
171_F174_I0.8141.00
206_F210_G0.8101.00
181_R194_A0.8021.00
128_T132_M0.7911.00
119_P122_G0.7891.00
262_R267_Y0.7871.00
173_A195_F0.7841.00
45_I65_V0.7821.00
140_Q143_R0.7801.00
171_F209_T0.7781.00
230_L268_R0.7771.00
223_L252_F0.7771.00
41_P67_Y0.7761.00
181_R190_S0.7721.00
172_E175_R0.7691.00
42_R88_L0.7691.00
206_F214_F0.7681.00
46_V49_G0.7671.00
139_Q143_R0.7661.00
216_E259_N0.7631.00
233_Y240_V0.7631.00
91_K95_G0.7621.00
226_A229_L0.7591.00
230_L240_V0.7581.00
112_Q115_A0.7561.00
140_Q144_L0.7551.00
191_V202_L0.7471.00
44_E86_S0.7451.00
120_R123_S0.7441.00
257_R266_E0.7431.00
174_I177_Y0.7431.00
128_T131_E0.7431.00
167_S208_K0.7401.00
231_K267_Y0.7321.00
171_F175_R0.7311.00
35_A75_F0.7311.00
82_A86_S0.7301.00
132_M136_P0.7281.00
153_C157_L0.7281.00
138_E142_A0.7261.00
105_Q108_N0.7211.00
241_A249_S0.7191.00
182_Y244_C0.7171.00
186_L190_S0.7161.00
174_I206_F0.7151.00
178_I217_Y0.7081.00
242_H247_V0.7081.00
124_F131_E0.7051.00
204_H208_K0.7051.00
48_E81_P0.7001.00
122_G125_L0.6981.00
203_S207_Q0.6951.00
168_Q205_L0.6941.00
46_V84_T0.6931.00
130_N134_M0.6891.00
49_G52_V0.6891.00
68_V74_N0.6881.00
203_S213_G0.6881.00
51_F59_T0.6871.00
248_D251_Y0.6861.00
123_S126_L0.6811.00
40_F88_L0.6761.00
175_R206_F0.6721.00
107_Q111_K0.6711.00
174_I214_F0.6711.00
247_V251_Y0.6691.00
37_Q73_W0.6661.00
182_Y222_R0.6651.00
118_G121_I0.6621.00
170_L173_A0.6581.00
212_I217_Y0.6541.00
223_L246_F0.6541.00
236_K240_V0.6481.00
117_R121_I0.6471.00
111_K114_V0.6421.00
219_N251_Y0.6391.00
135_Q138_E0.6381.00
60_L66_L0.6371.00
188_R215_N0.6361.00
54_T77_Q0.6351.00
167_S170_L0.6341.00
203_S215_N0.6321.00
133_Q136_P0.6311.00
141_T151_S0.6301.00
179_D225_H0.6291.00
224_E260_T0.6271.00
192_A195_F0.6271.00
240_V268_R0.6241.00
252_F256_F0.6191.00
44_E84_T0.6191.00
249_S252_F0.6191.00
95_G99_V0.6181.00
174_I178_I0.6171.00
124_F128_T0.6141.00
226_A240_V0.6121.00
168_Q172_E0.6121.00
207_Q213_G0.6101.00
186_L222_R0.6101.00
46_V60_L0.6101.00
133_Q137_Q0.6061.00
250_N263_S0.6031.00
50_E80_A0.6021.00
119_P123_S0.6011.00
229_L232_G0.5971.00
174_I194_A0.5961.00
121_I128_T0.5951.00
256_F262_R0.5951.00
210_G217_Y0.5871.00
51_F76_P0.5831.00
78_W82_A0.5831.00
167_S209_T0.5821.00
125_L129_L0.5811.00
104_K107_Q0.5801.00
43_L65_V0.5801.00
76_P84_T0.5781.00
118_G124_F0.5781.00
112_Q116_R0.5771.00
224_E259_N0.5721.00
121_I132_M0.5711.00
252_F264_P0.5691.00
154_R158_G0.5681.00
185_A222_R0.5681.00
44_E68_V0.5661.00
141_T152_H0.5661.00
191_V195_F0.5641.00
121_I124_F0.5631.00
237_V265_S0.5621.00
44_E66_L0.5611.00
115_A118_G0.5571.00
167_S201_Y0.5561.00
177_Y190_S0.5541.00
125_L128_T0.5531.00
193_Q196_Y0.5521.00
142_A146_V0.5521.00
250_N254_R0.5471.00
178_I186_L0.5441.00
157_L161_I0.5441.00
171_F202_L0.5431.00
227_K262_R0.5411.00
141_T155_D0.5401.00
246_F251_Y0.5401.00
176_D179_D0.5391.00
218_L222_R0.5381.00
104_K108_N0.5371.00
93_Q96_F0.5361.00
165_S168_Q0.5341.00
241_A246_F0.5331.00
120_R124_F0.5331.00
65_V68_V0.5331.00
43_L67_Y0.5321.00
107_Q110_A0.5311.00
130_N133_Q0.5301.00
141_T144_L0.5291.00
138_E155_D0.5291.00
91_K94_L0.5281.00
218_L221_T0.5251.00
219_N223_L0.5241.00
140_Q151_S0.5241.00
64_D116_R0.5231.00
92_Q95_G0.5211.00
39_D90_G0.5201.00
146_V153_C0.5181.00
195_F199_P0.5151.00
51_F78_W0.5131.00
248_D258_K0.5121.00
188_R200_N0.5081.00
230_L267_Y0.5081.00
181_R186_L0.5081.00
228_T231_K0.5071.00
121_I126_L0.5061.00
255_L260_T0.5021.00
107_Q112_Q0.5021.00
117_R122_G0.5011.00
186_L218_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 0.8728 100 0.244 Contact Map
3oouA 1 0.371 100 0.472 Contact Map
3oioA 1 0.3958 100 0.472 Contact Map
3w6vA 1 0.3922 100 0.474 Contact Map
1bl0A 1 0.4099 100 0.475 Contact Map
3mn2A 1 0.3746 100 0.476 Contact Map
3mklA 1 0.3922 100 0.476 Contact Map
2k9sA 1 0.3746 100 0.483 Contact Map
3lsgA 2 0.3604 100 0.492 Contact Map
1d5yA 1 0.4134 99.9 0.505 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.

Page generated in 0.0083 seconds.