GREMLIN Database
YDCI - Uncharacterized HTH-type transcriptional regulator YdcI
UniProt: P77171 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13752
Length: 307 (287)
Sequences: 79348 (57590)
Seq/√Len: 3399.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
80_R84_A3.6851.00
25_Q34_T3.3851.00
170_E302_R2.6071.00
77_H91_S2.5201.00
21_A34_T2.5191.00
106_G151_I2.4831.00
171_L279_P2.2991.00
102_V133_Q2.2431.00
171_L174_L2.2281.00
174_L279_P2.2161.00
55_A70_P2.2041.00
185_H200_W2.1911.00
20_V79_V2.1531.00
243_T250_W2.1481.00
18_T45_T2.1221.00
20_V24_Q2.0831.00
102_V131_T2.0701.00
77_H84_A2.0661.00
178_K254_S2.0641.00
176_S254_S2.0261.00
244_V265_T2.0221.00
174_L277_G2.0121.00
122_Q300_A1.9981.00
21_A25_Q1.9951.00
193_T196_R1.9791.00
104_R133_Q1.9681.00
30_R33_E1.9521.00
21_A24_Q1.9201.00
23_A67_L1.8891.00
20_V75_L1.8801.00
18_T42_L1.8561.00
81_V85_I1.8531.00
240_R260_D1.8511.00
24_Q79_V1.8491.00
203_V248_Y1.8481.00
75_L79_V1.8351.00
178_K268_A1.8321.00
181_V269_L1.7951.00
201_P230_C1.7671.00
244_V260_D1.7461.00
23_A75_L1.7301.00
169_Y281_G1.7221.00
73_Q91_S1.7101.00
59_E66_Q1.6891.00
145_G150_E1.6791.00
74_F88_A1.6551.00
25_Q30_R1.6431.00
77_H80_R1.6161.00
170_E284_T1.5571.00
27_T30_R1.5541.00
168_N286_V1.5461.00
20_V78_A1.5441.00
28_L46_L1.5421.00
15_H52_L1.5391.00
24_Q34_T1.5081.00
15_H45_T1.5071.00
144_A148_T1.4951.00
15_H48_E1.4751.00
284_T298_I1.4571.00
77_H87_T1.4451.00
113_L237_S1.4421.00
38_S41_A1.4401.00
61_G66_Q1.4371.00
56_R59_E1.4321.00
21_A35_L1.4321.00
123_F297_M1.4261.00
212_R216_D1.4251.00
156_G283_L1.4251.00
168_N284_T1.4131.00
84_A87_T1.4121.00
98_L129_E1.4041.00
19_F75_L1.4021.00
298_I302_R1.4001.00
18_T37_L1.3981.00
12_R15_H1.3981.00
29_G39_Q1.3951.00
158_M281_G1.3891.00
145_G151_I1.3841.00
126_Q300_A1.3731.00
104_R135_A1.3681.00
146_L154_G1.3671.00
123_F130_T1.3661.00
100_N129_E1.3401.00
81_V88_A1.3391.00
296_L299_N1.3351.00
76_T80_R1.3261.00
290_F294_C1.3211.00
69_L72_E1.3171.00
20_V82_L1.3161.00
175_E255_G1.3131.00
74_F89_G1.3061.00
282_I298_I1.3021.00
239_S250_W1.2941.00
13_L85_I1.2891.00
77_H88_A1.2831.00
241_Q244_V1.2801.00
153_I282_I1.2761.00
147_K166_G1.2701.00
183_P267_V1.2571.00
171_L281_G1.2501.00
37_L41_A1.2491.00
200_W249_V1.2481.00
122_Q126_Q1.2441.00
183_P265_T1.2441.00
181_V249_V1.2291.00
153_I294_C1.2251.00
124_H230_C1.2241.00
73_Q76_T1.2231.00
124_H201_P1.2211.00
260_D265_T1.2191.00
44_K48_E1.2141.00
254_S268_A1.2081.00
121_G245_E1.2051.00
19_F58_F1.1921.00
121_G125_Q1.1901.00
254_S258_K1.1801.00
73_Q77_H1.1751.00
19_F23_A1.1631.00
169_Y283_L1.1601.00
118_S245_E1.1601.00
190_E267_V1.1361.00
137_M145_G1.1361.00
44_K47_N1.1331.00
268_A271_V1.1321.00
191_N272_P1.1321.00
186_P200_W1.1231.00
80_R87_T1.1141.00
201_P228_S1.1121.00
72_E76_T1.1091.00
16_L78_A1.0981.00
133_Q232_E1.0891.00
127_Q296_L1.0881.00
241_Q245_E1.0861.00
170_E298_I1.0861.00
192_V196_R1.0841.00
47_N51_Q1.0801.00
52_L89_G1.0761.00
147_K164_M1.0721.00
21_A31_A1.0681.00
45_T48_E1.0591.00
112_A136_T1.0581.00
240_R244_V1.0551.00
28_L65_A1.0501.00
81_V84_A1.0481.00
180_V268_A1.0451.00
135_A145_G1.0441.00
89_G93_H1.0341.00
258_K262_R1.0301.00
213_Q217_A1.0291.00
43_S47_N1.0251.00
259_D263_H1.0221.00
295_Q299_N1.0201.00
182_R246_Y1.0181.00
176_S277_G1.0171.00
14_R17_H1.0141.00
299_N302_R1.0141.00
122_Q125_Q1.0121.00
285_R288_A1.0071.00
123_F300_A1.0071.00
19_F57_L1.0071.00
83_D87_T1.0061.00
103_V297_M0.9961.00
213_Q216_D0.9921.00
119_V301_I0.9921.00
22_V31_A0.9911.00
203_V239_S0.9851.00
219_V224_C0.9831.00
233_T239_S0.9811.00
74_F78_A0.9751.00
123_F127_Q0.9741.00
204_V229_G0.9721.00
48_E51_Q0.9631.00
67_L71_G0.9621.00
22_V28_L0.9621.00
194_L273_G0.9561.00
37_L42_L0.9461.00
31_A42_L0.9461.00
23_A58_F0.9431.00
180_V257_V0.9411.00
80_R83_D0.9371.00
17_H86_N0.9371.00
30_R34_T0.9361.00
73_Q95_K0.9361.00
86_N89_G0.9341.00
179_L249_V0.9271.00
85_I89_G0.9261.00
181_V185_H0.9201.00
300_A303_K0.9191.00
18_T35_L0.9161.00
145_G148_T0.9131.00
233_T242_L0.9121.00
19_F67_L0.9091.00
19_F49_L0.9091.00
109_P235_S0.9041.00
106_G154_G0.8961.00
119_V300_A0.8931.00
70_P73_Q0.8921.00
185_H188_L0.8911.00
26_G66_Q0.8891.00
126_Q303_K0.8851.00
86_N90_R0.8791.00
14_R45_T0.8781.00
202_V227_P0.8771.00
291_S294_C0.8761.00
121_G247_D0.8711.00
168_N171_L0.8681.00
218_L222_Q0.8671.00
11_I52_L0.8661.00
158_M279_P0.8651.00
244_V263_H0.8581.00
76_T79_V0.8581.00
55_A92_L0.8561.00
58_F65_A0.8541.00
106_G156_G0.8541.00
29_G33_E0.8501.00
61_G64_G0.8451.00
143_L147_K0.8431.00
151_I154_G0.8401.00
101_D293_G0.8331.00
87_T91_S0.8311.00
292_S296_L0.8291.00
85_I88_A0.8291.00
201_P229_G0.8261.00
135_A151_I0.8261.00
185_H189_Q0.8221.00
124_H247_D0.8211.00
26_G64_G0.8211.00
17_H21_A0.8191.00
70_P95_K0.8171.00
35_L42_L0.8161.00
131_T228_S0.8161.00
39_Q43_S0.8151.00
70_P92_L0.8141.00
23_A26_G0.8131.00
25_Q31_A0.8121.00
290_F295_Q0.8111.00
105_V153_I0.8101.00
130_T293_G0.8081.00
24_Q75_L0.8071.00
187_L200_W0.8041.00
260_D263_H0.8001.00
84_A88_A0.8001.00
19_F74_F0.7991.00
195_S198_L0.7961.00
181_V186_P0.7931.00
23_A71_G0.7931.00
22_V58_F0.7911.00
186_P190_E0.7901.00
182_R247_D0.7861.00
189_Q201_P0.7861.00
193_T272_P0.7821.00
26_G72_E0.7811.00
167_L283_L0.7771.00
13_L82_L0.7761.00
188_L267_V0.7751.00
176_S275_G0.7711.00
72_E75_L0.7711.00
79_V83_D0.7701.00
215_S219_V0.7701.00
257_V260_D0.7681.00
180_V250_W0.7671.00
242_L247_D0.7651.00
47_N56_R0.7611.00
15_H18_T0.7591.00
235_S238_L0.7571.00
88_A92_L0.7561.00
261_L264_A0.7501.00
28_L42_L0.7481.00
176_S270_P0.7461.00
107_A112_A0.7451.00
22_V42_L0.7441.00
78_A81_V0.7421.00
182_R185_H0.7401.00
59_E68_T0.7391.00
17_H20_V0.7391.00
184_N246_Y0.7361.00
123_F296_L0.7341.00
101_D130_T0.7311.00
180_V252_V0.7301.00
288_A291_S0.7281.00
93_H96_E0.7271.00
149_G285_R0.7261.00
218_L221_S0.7261.00
22_V46_L0.7261.00
206_P232_E0.7191.00
296_L300_A0.7181.00
196_R199_E0.7171.00
153_I297_M0.7161.00
69_L73_Q0.7161.00
166_G286_V0.7161.00
214_H218_L0.7141.00
185_H201_P0.7111.00
299_N303_K0.7111.00
147_K167_L0.7101.00
126_Q296_L0.7051.00
113_L241_Q0.7001.00
181_V267_V0.6931.00
152_D294_C0.6921.00
184_N188_L0.6911.00
70_P74_F0.6901.00
217_A221_S0.6871.00
99_N127_Q0.6871.00
193_T273_G0.6831.00
259_D262_R0.6821.00
159_S162_E0.6821.00
253_P256_A0.6811.00
77_H81_V0.6801.00
104_R152_D0.6791.00
181_V187_L0.6751.00
41_A45_T0.6731.00
191_N270_P0.6711.00
67_L72_E0.6701.00
14_R48_E0.6701.00
180_V261_L0.6701.00
257_V261_L0.6691.00
216_D220_Q0.6671.00
74_F92_L0.6661.00
17_H82_L0.6641.00
104_R151_I0.6631.00
213_Q218_L0.6601.00
118_S121_G0.6581.00
66_Q72_E0.6571.00
205_S239_S0.6571.00
202_V249_V0.6561.00
214_H217_A0.6541.00
59_E64_G0.6541.00
19_F71_G0.6531.00
179_L251_F0.6531.00
215_S218_L0.6501.00
87_T90_R0.6441.00
33_E36_N0.6441.00
11_I89_G0.6421.00
198_L224_C0.6391.00
157_R278_E0.6351.00
50_E60_R0.6341.00
217_A220_Q0.6251.00
184_N187_L0.6241.00
206_P234_L0.6231.00
131_T232_E0.6221.00
261_L268_A0.6221.00
116_L119_V0.6211.00
136_T234_L0.6201.00
292_S295_Q0.6151.00
231_I242_L0.6121.00
83_D86_N0.6111.00
53_T74_F0.6091.00
23_A72_E0.6021.00
153_I298_I0.6001.00
82_L86_N0.5961.00
22_V27_T0.5951.00
233_T238_L0.5941.00
122_Q303_K0.5931.00
179_L197_V0.5931.00
195_S222_Q0.5901.00
90_R94_R0.5891.00
14_R18_T0.5861.00
127_Q130_T0.5831.00
109_P138_S0.5821.00
107_A116_L0.5801.00
31_A35_L0.5791.00
199_E228_S0.5771.00
46_L50_E0.5771.00
118_S122_Q0.5751.00
106_G135_A0.5751.00
78_A82_L0.5731.00
146_L167_L0.5721.00
212_R232_E0.5711.00
103_V153_I0.5701.00
284_T295_Q0.5701.00
177_L251_F0.5701.00
55_A59_E0.5671.00
185_H249_V0.5671.00
50_E55_A0.5671.00
106_G137_M0.5651.00
184_N267_V0.5621.00
183_P264_A0.5581.00
100_N131_T0.5581.00
158_M169_Y0.5571.00
41_A44_K0.5571.00
53_T92_L0.5561.00
175_E278_E0.5561.00
216_D219_V0.5541.00
91_S94_R0.5541.00
58_F67_L0.5531.00
212_R218_L0.5511.00
73_Q92_L0.5511.00
252_V257_V0.5511.00
103_V293_G0.5511.00
297_M301_I0.5501.00
12_R52_L0.5491.00
224_C227_P0.5481.00
115_I119_V0.5461.00
28_L39_Q0.5461.00
239_S243_T0.5441.00
172_L282_I0.5441.00
40_P44_K0.5421.00
113_L235_S0.5381.00
53_T56_R0.5381.00
117_P121_G0.5381.00
219_V227_P0.5371.00
146_L283_L0.5361.00
101_D129_E0.5351.00
37_L45_T0.5351.00
147_K150_E0.5351.00
38_S44_K0.5311.00
56_R70_P0.5301.00
90_R93_H0.5291.00
26_G65_A0.5281.00
293_G296_L0.5281.00
136_T235_S0.5281.00
94_R99_N0.5261.00
107_A134_V0.5251.00
187_L192_V0.5231.00
67_L75_L0.5221.00
111_A115_I0.5221.00
125_Q188_L0.5221.00
118_S241_Q0.5201.00
28_L64_G0.5151.00
179_L202_V0.5151.00
207_E232_E0.5151.00
121_G124_H0.5151.00
18_T46_L0.5141.00
173_F280_I0.5111.00
242_L248_Y0.5111.00
88_A91_S0.5111.00
294_C298_I0.5101.00
237_S241_Q0.5091.00
131_T230_C0.5071.00
40_P43_S0.5061.00
265_T268_A0.5001.00
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 0.9739 100 0.088 Contact Map
1uthA 2 0.7264 100 0.088 Contact Map
3fxqA 3 0.9642 100 0.101 Contact Map
4x6gA 4 0.9707 100 0.113 Contact Map
3fzvA 4 0.9381 100 0.113 Contact Map
2h98A 2 0.658 100 0.114 Contact Map
1ixcA 4 0.9479 100 0.116 Contact Map
1al3A 1 0.6775 100 0.117 Contact Map
2h9bA 2 0.658 100 0.12 Contact Map
3szpA 3 0.9414 100 0.128 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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