GREMLIN Database
YIDL - Uncharacterized HTH-type transcriptional regulator YidL
UniProt: P31449 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11707
Length: 297 (236)
Sequences: 25983 (22099)
Seq/√Len: 1438.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
242_L275_F3.1601.00
250_N258_T3.0891.00
238_L275_F3.0681.00
227_K235_D2.9701.00
194_H236_A2.9441.00
204_A214_E2.9211.00
240_L243_S2.7101.00
196_S199_Q2.6111.00
192_T196_S2.5231.00
235_D274_K2.4291.00
241_A267_F2.4161.00
271_F282_V2.3731.00
244_L258_T2.1991.00
189_L217_L2.1661.00
221_F232_Y2.1141.00
73_K81_Q2.0301.00
250_N254_E2.0281.00
244_L259_L1.9691.00
277_Y285_N1.9671.00
193_L233_Y1.9181.00
202_S205_D1.8771.00
244_L250_N1.8321.00
73_K83_T1.7881.00
238_L274_K1.7831.00
230_K234_L1.7801.00
75_L81_Q1.7781.00
186_I225_T1.7551.00
161_F164_K1.7421.00
197_L236_A1.7371.00
189_L210_I1.7261.00
69_Q108_E1.7031.00
245_L252_V1.6991.00
68_V110_Y1.6921.00
190_I225_T1.6811.00
203_V218_R1.6721.00
192_T209_T1.6681.00
251_S254_E1.6561.00
71_C83_T1.6341.00
264_S268_S1.6311.00
191_A195_A1.6091.00
206_M229_P1.6081.00
242_L282_V1.5941.00
253_G264_S1.5891.00
243_S247_Q1.5701.00
62_W94_P1.5651.00
270_A273_H1.5571.00
216_W220_L1.5391.00
85_H88_C1.5301.00
229_P233_Y1.5301.00
217_L229_P1.5261.00
236_A240_L1.5201.00
77_K96_D1.5081.00
227_K231_E1.5021.00
240_L244_L1.4971.00
192_T201_W1.4901.00
216_W219_R1.4861.00
194_H232_Y1.4721.00
254_E258_T1.4651.00
212_C216_W1.4491.00
261_F270_A1.4441.00
75_L99_S1.4421.00
160_A167_Y1.4311.00
197_L240_L1.4291.00
71_C85_H1.4221.00
266_H270_A1.4211.00
253_G257_D1.4001.00
214_E218_R1.3971.00
164_K168_Q1.3931.00
73_K101_H1.3811.00
280_S284_K1.3721.00
265_F268_S1.3691.00
277_Y281_A1.3621.00
183_R224_Y1.3591.00
218_R229_P1.3581.00
240_L259_L1.3571.00
193_L236_A1.3541.00
241_A259_L1.3461.00
255_V259_L1.3411.00
254_E257_D1.3311.00
198_Q258_T1.3271.00
215_A219_R1.3261.00
204_A208_A1.3241.00
205_D209_T1.3101.00
268_S278_A1.2791.00
212_C217_L1.2641.00
57_L98_H1.2621.00
248_Q283_L1.2621.00
63_V98_H1.2301.00
236_A239_D1.2191.00
228_T231_E1.2161.00
268_S280_S1.2151.00
213_S216_W1.2071.00
189_L206_M1.2041.00
150_P154_K1.2011.00
160_A164_K1.1961.00
234_L270_A1.1871.00
141_T145_E1.1781.00
235_D239_D1.1681.00
69_Q86_G1.1671.00
93_K96_D1.1661.00
199_Q205_D1.1551.00
59_A98_H1.1441.00
160_A163_T1.1391.00
185_Q212_C1.1381.00
56_P97_I1.1231.00
68_V108_E1.1221.00
190_I194_H1.1151.00
242_L246_K1.1101.00
281_A284_K1.1001.00
157_L164_K1.0701.00
146_L150_P1.0621.00
201_W206_M1.0571.00
142_E146_L1.0511.00
157_L161_F1.0421.00
203_V229_P1.0351.00
280_S283_L1.0281.00
220_L223_R1.0261.00
206_M209_T1.0211.00
205_D208_A1.0131.00
200_R205_D1.0101.00
163_T167_Y1.0081.00
126_Q129_V1.0031.00
138_Q142_E1.0001.00
220_L224_Y0.9971.00
239_D242_L0.9951.00
185_Q220_L0.9921.00
263_D269_K0.9841.00
193_L229_P0.9831.00
184_R188_K0.9811.00
72_G107_W0.9761.00
269_K273_H0.9711.00
250_N255_V0.9701.00
278_A281_A0.9621.00
248_Q255_V0.9541.00
185_Q210_I0.9501.00
187_E191_A0.9491.00
192_T210_I0.9481.00
198_Q240_L0.9421.00
167_Y171_C0.9401.00
246_K286_T0.9401.00
207_A214_E0.9391.00
203_V214_E0.9381.00
234_L273_H0.9361.00
138_Q141_T0.9251.00
270_A274_K0.9251.00
59_A63_V0.9201.00
192_T206_M0.9201.00
281_A285_N0.9191.00
268_S272_K0.9091.00
190_I232_Y0.9081.00
128_S132_N0.9061.00
238_L270_A0.8941.00
210_I217_L0.8921.00
62_W91_F0.8871.00
67_T72_G0.8861.00
188_K209_T0.8851.00
186_I189_L0.8801.00
76_L80_E0.8791.00
72_G84_L0.8761.00
231_E234_L0.8691.00
230_K266_H0.8631.00
197_L233_Y0.8611.00
159_V163_T0.8591.00
215_A218_R0.8541.00
132_N136_Y0.8541.00
237_R259_L0.8511.00
71_C103_E0.8501.00
244_L255_V0.8481.00
242_L271_F0.8471.00
188_K191_A0.8411.00
116_P120_M0.8401.00
200_R262_F0.8381.00
188_K210_I0.8331.00
231_E274_K0.8331.00
231_E235_D0.8251.00
234_L274_K0.8191.00
66_Y89_I0.8171.00
252_V255_V0.8131.00
139_E142_E0.8021.00
73_K103_E0.8011.00
197_L259_L0.8001.00
275_F282_V0.7951.00
75_L101_H0.7921.00
74_I90_I0.7891.00
164_K167_Y0.7881.00
134_E137_N0.7861.00
221_F225_T0.7861.00
75_L78_N0.7811.00
212_C220_L0.7791.00
63_V113_E0.7791.00
128_S131_Y0.7781.00
156_N160_A0.7781.00
218_R228_T0.7771.00
56_P99_S0.7761.00
65_V111_W0.7751.00
77_K80_E0.7731.00
145_E149_S0.7641.00
186_I220_L0.7641.00
221_F229_P0.7611.00
266_H269_K0.7601.00
245_L283_L0.7571.00
147_I150_P0.7531.00
238_L267_F0.7511.00
187_E190_I0.7511.00
130_I136_Y0.7501.00
257_D262_F0.7491.00
72_G83_T0.7481.00
230_K233_Y0.7481.00
245_L255_V0.7461.00
272_K281_A0.7461.00
196_S205_D0.7441.00
168_Q172_L0.7421.00
206_M217_L0.7311.00
67_T109_Q0.7301.00
127_Q131_Y0.7291.00
157_L167_Y0.7291.00
255_V283_L0.7281.00
197_L201_W0.7281.00
241_A244_L0.7251.00
193_L232_Y0.7251.00
189_L192_T0.7241.00
189_L229_P0.7231.00
58_I97_I0.7231.00
65_V109_Q0.7201.00
61_S113_E0.7201.00
155_N159_V0.7181.00
246_K282_V0.7181.00
67_T70_G0.7151.00
84_L90_I0.7101.00
182_Q223_R0.7081.00
238_L261_F0.7061.00
69_Q106_V0.7061.00
186_I224_Y0.7001.00
142_E145_E0.7001.00
272_K278_A0.6981.00
189_L221_F0.6981.00
133_G137_N0.6971.00
263_D266_H0.6931.00
72_G100_Y0.6891.00
92_L98_H0.6871.00
139_E147_I0.6871.00
252_V280_S0.6861.00
262_F266_H0.6831.00
251_S255_V0.6821.00
271_F277_Y0.6781.00
232_Y236_A0.6781.00
118_S121_D0.6761.00
277_Y282_V0.6741.00
256_A264_S0.6731.00
156_N159_V0.6701.00
125_G128_S0.6641.00
241_A255_V0.6621.00
139_E143_V0.6601.00
218_R222_L0.6571.00
154_K158_A0.6561.00
157_L160_A0.6561.00
64_A89_I0.6551.00
74_I100_Y0.6541.00
143_V146_L0.6531.00
227_K232_Y0.6471.00
183_R220_L0.6461.00
201_W237_R0.6461.00
153_I156_N0.6451.00
265_F278_A0.6441.00
142_E164_K0.6401.00
233_Y237_R0.6381.00
65_V90_I0.6321.00
139_E146_L0.6311.00
157_L171_C0.6291.00
132_N135_I0.6281.00
158_A161_F0.6261.00
64_A91_F0.6221.00
196_S209_T0.6221.00
203_V230_K0.6221.00
107_W111_W0.6211.00
156_N163_T0.6141.00
201_W205_D0.6141.00
182_Q224_Y0.6121.00
197_L237_R0.6101.00
88_C131_Y0.6061.00
218_R230_K0.6061.00
186_I190_I0.6021.00
67_T84_L0.6021.00
185_Q188_K0.6001.00
142_E161_F0.6001.00
161_F168_Q0.5991.00
222_L228_T0.5961.00
182_Q185_Q0.5951.00
88_C129_V0.5921.00
234_L266_H0.5891.00
138_Q145_E0.5891.00
152_A155_N0.5881.00
219_R223_R0.5861.00
267_F279_P0.5851.00
190_I221_F0.5851.00
189_L209_T0.5821.00
146_L171_C0.5811.00
117_T120_M0.5811.00
67_T107_W0.5811.00
143_V147_I0.5811.00
189_L193_L0.5791.00
144_A148_T0.5781.00
137_N141_T0.5771.00
124_V128_S0.5771.00
76_L92_L0.5761.00
74_I92_L0.5761.00
62_W65_V0.5751.00
126_Q130_I0.5721.00
129_V132_N0.5681.00
203_V215_A0.5681.00
249_G255_V0.5681.00
265_F269_K0.5621.00
60_N115_T0.5601.00
186_I217_L0.5601.00
77_K97_I0.5591.00
68_V141_T0.5561.00
217_L220_L0.5531.00
66_Y140_L0.5521.00
157_L168_Q0.5521.00
194_H240_L0.5521.00
233_Y236_A0.5491.00
264_S267_F0.5471.00
180_D183_R0.5471.00
117_T121_D0.5461.00
200_R237_R0.5451.00
256_A261_F0.5451.00
65_V92_L0.5441.00
129_V136_Y0.5441.00
239_D274_K0.5431.00
263_D273_H0.5401.00
124_V136_Y0.5391.00
170_I173_M0.5381.00
193_L201_W0.5371.00
78_N81_Q0.5371.00
60_N95_M0.5321.00
53_K101_H0.5291.00
267_F271_F0.5281.00
244_L247_Q0.5221.00
201_W233_Y0.5211.00
62_W93_K0.5211.00
63_V92_L0.5201.00
261_F266_H0.5201.00
153_I157_L0.5191.00
119_M122_I0.5171.00
102_C107_W0.5171.00
206_M210_I0.5131.00
208_A211_P0.5121.00
158_A169_W0.5071.00
196_S201_W0.5071.00
192_T205_D0.5051.00
243_S246_K0.5041.00
65_V100_Y0.5031.00
131_Y136_Y0.5021.00
130_I133_G0.5001.00
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 0.8316 100 0.291 Contact Map
1bl0A 1 0.3872 100 0.503 Contact Map
3w6vA 1 0.3737 100 0.504 Contact Map
3oouA 1 0.3535 100 0.505 Contact Map
3oioA 1 0.3771 100 0.505 Contact Map
3mklA 1 0.3737 100 0.511 Contact Map
3mn2A 1 0.3569 100 0.511 Contact Map
2k9sA 1 0.3569 100 0.517 Contact Map
3lsgA 2 0.3434 100 0.521 Contact Map
1d5yA 1 0.3906 99.9 0.531 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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