GREMLIN Database
YNEJ - Uncharacterized HTH-type transcriptional regulator YneJ
UniProt: P77309 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13818
Length: 293 (278)
Sequences: 79334 (57639)
Seq/√Len: 3456.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
70_Q74_L3.6521.00
15_A24_K3.3841.00
156_I283_D2.6541.00
67_Y81_V2.5271.00
11_A24_K2.5091.00
94_G139_L2.4581.00
157_P261_T2.3071.00
157_P160_R2.2361.00
160_R261_T2.2351.00
90_L121_S2.2351.00
45_V60_A2.2191.00
171_Y183_S2.2121.00
225_V232_A2.1691.00
10_N69_Q2.1291.00
8_M35_R2.1231.00
90_L119_Q2.0841.00
10_N14_E2.0751.00
164_M236_R2.0571.00
67_Y74_L2.0501.00
160_R259_W2.0411.00
162_E236_R2.0331.00
110_E281_L2.0201.00
11_A15_A2.0051.00
226_I247_Q1.9771.00
92_S121_S1.9601.00
20_Q23_A1.9511.00
11_A14_E1.9091.00
222_L242_M1.8961.00
13_A57_L1.8901.00
10_N65_L1.8841.00
226_I242_M1.8751.00
8_M32_L1.8541.00
71_I75_V1.8481.00
14_E69_Q1.8441.00
164_M250_A1.8391.00
186_Y230_G1.8321.00
65_L69_Q1.8301.00
167_T251_W1.8141.00
184_N212_I1.7421.00
13_A65_L1.7231.00
155_G263_W1.7131.00
49_I56_R1.6861.00
63_N81_V1.6791.00
133_G138_K1.6571.00
64_F78_A1.6451.00
15_A20_Q1.6401.00
67_Y70_Q1.5981.00
154_D268_R1.5831.00
18_I36_L1.5611.00
10_N68_S1.5461.00
17_S20_Q1.5431.00
156_I266_W1.5261.00
14_E24_K1.5211.00
5_Q42_E1.5131.00
5_Q35_R1.5031.00
266_W279_I1.4901.00
5_Q38_Q1.4891.00
132_D136_E1.4741.00
111_F278_F1.4561.00
101_A219_H1.4561.00
154_D266_W1.4551.00
28_V31_N1.4531.00
11_A25_V1.4441.00
67_Y77_E1.4351.00
279_I283_D1.4321.00
46_D49_I1.4291.00
51_E56_R1.4281.00
144_I265_V1.4211.00
9_F65_L1.4201.00
8_M27_R1.4031.00
74_L77_E1.3961.00
114_R281_L1.3951.00
133_G139_L1.3911.00
111_F118_I1.3881.00
146_G263_W1.3811.00
19_T29_P1.3791.00
271_K275_L1.3791.00
86_E117_K1.3631.00
92_S123_S1.3621.00
71_I78_A1.3601.00
134_V142_A1.3511.00
195_R199_E1.3481.00
277_A280_Q1.3371.00
64_F79_R1.3361.00
242_M247_Q1.3341.00
59_P62_H1.3261.00
161_E237_S1.3231.00
66_R70_Q1.3201.00
88_Q117_K1.3151.00
264_L279_I1.3151.00
10_N72_L1.3141.00
221_M232_A1.2881.00
169_Q247_Q1.2871.00
141_A264_L1.2861.00
67_Y78_A1.2841.00
135_L152_A1.2831.00
223_A226_I1.2761.00
110_E114_R1.2691.00
169_Q249_E1.2651.00
27_R31_N1.2591.00
157_P263_W1.2581.00
3_L75_V1.2491.00
176_R179_Q1.2481.00
167_T231_I1.2341.00
112_N212_I1.2331.00
183_S231_I1.2231.00
63_N66_R1.2221.00
109_A227_A1.2101.00
42_E79_R1.2101.00
34_T38_Q1.2091.00
141_A275_L1.2071.00
109_A113_R1.2031.00
9_F48_F1.1941.00
236_R250_A1.1861.00
63_N67_Y1.1731.00
9_F13_A1.1681.00
112_N184_N1.1651.00
155_G265_V1.1511.00
125_G133_G1.1471.00
106_A227_A1.1371.00
250_A253_L1.1371.00
34_T37_R1.1241.00
115_Y277_A1.1191.00
240_E244_G1.1151.00
236_R240_E1.1141.00
62_H66_R1.1091.00
167_T171_Y1.1081.00
156_I279_I1.1031.00
6_L68_S1.1011.00
70_Q77_E1.0981.00
121_S214_E1.0971.00
184_N210_G1.0941.00
223_A227_A1.0801.00
222_L226_I1.0741.00
172_A183_S1.0691.00
11_A21_A1.0691.00
37_R41_T1.0671.00
18_I55_L1.0581.00
100_A124_T1.0541.00
280_Q283_D1.0531.00
166_V250_A1.0531.00
71_I74_L1.0511.00
171_Y174_V1.0501.00
9_F47_L1.0361.00
135_L150_H1.0341.00
33_T37_R1.0341.00
79_R83_A1.0331.00
35_R38_Q1.0291.00
241_S245_H1.0271.00
276_E280_Q1.0271.00
123_S133_G1.0231.00
162_E259_W1.0191.00
168_P228_G1.0181.00
267_R270_A1.0171.00
107_T282_L1.0111.00
111_F281_L1.0071.00
12_V21_A1.0031.00
73_A77_E1.0001.00
110_E113_R0.9991.00
281_L284_V0.9961.00
64_F68_S0.9941.00
172_A176_R0.9911.00
196_R199_E0.9871.00
166_V239_L0.9861.00
187_A211_T0.9781.00
91_F278_F0.9781.00
4_T7_E0.9761.00
215_M221_M0.9751.00
38_Q41_T0.9701.00
186_Y221_M0.9701.00
111_F115_Y0.9701.00
12_V18_I0.9691.00
57_L61_G0.9591.00
177_A255_E0.9581.00
21_A32_L0.9581.00
202_F207_A0.9511.00
27_R32_L0.9401.00
13_A48_F0.9391.00
7_E76_D0.9361.00
70_Q73_A0.9301.00
8_M25_V0.9281.00
76_D79_R0.9281.00
20_Q24_K0.9241.00
165_I231_I0.9241.00
9_F39_L0.9211.00
75_V79_R0.9141.00
9_F57_L0.9131.00
133_G136_E0.9121.00
215_M224_C0.9051.00
107_T281_L0.9041.00
76_D80_S0.8971.00
16_G56_R0.8941.00
272_T275_L0.8921.00
114_R284_V0.8891.00
45_V82_V0.8871.00
146_G261_T0.8861.00
242_M245_H0.8841.00
97_E217_S0.8801.00
94_G142_A0.8761.00
196_R200_S0.8711.00
89_G274_P0.8671.00
201_W205_D0.8641.00
109_A229_A0.8591.00
154_D157_P0.8591.00
48_F55_L0.8571.00
66_R69_Q0.8521.00
60_A63_N0.8501.00
94_G144_I0.8491.00
184_N211_T0.8471.00
19_T23_A0.8431.00
139_L142_A0.8421.00
77_E81_V0.8411.00
60_A82_V0.8391.00
131_L135_L0.8331.00
51_E54_R0.8331.00
75_V78_A0.8291.00
185_I209_P0.8241.00
112_N229_A0.8231.00
25_V32_L0.8221.00
74_L78_A0.8191.00
198_F202_F0.8181.00
123_S139_L0.8181.00
16_G54_R0.8161.00
273_R277_A0.8151.00
29_P33_T0.8121.00
167_T173_P0.8111.00
15_A21_A0.8071.00
13_A16_G0.8061.00
118_I274_P0.8041.00
14_E65_L0.8021.00
7_E11_A0.8021.00
93_L141_A0.8011.00
271_K276_E0.7991.00
168_P171_Y0.7981.00
9_F64_F0.7971.00
153_I265_V0.7901.00
4_T35_R0.7871.00
119_Q210_G0.7871.00
13_A61_G0.7841.00
178_S181_N0.7831.00
12_V48_F0.7831.00
62_H65_L0.7801.00
69_Q73_A0.7771.00
16_G62_H0.7751.00
179_Q182_G0.7741.00
3_L72_L0.7731.00
224_C229_A0.7691.00
166_V232_A0.7681.00
168_P229_A0.7661.00
89_G118_I0.7631.00
78_A82_V0.7621.00
5_Q8_M0.7601.00
37_R46_D0.7591.00
162_E252_P0.7591.00
174_V249_E0.7531.00
137_G267_R0.7511.00
95_S100_A0.7501.00
49_I58_S0.7501.00
277_A281_L0.7491.00
68_S71_I0.7481.00
12_V32_L0.7481.00
18_I32_L0.7461.00
171_Y184_N0.7441.00
7_E10_N0.7431.00
280_Q284_V0.7411.00
166_V234_I0.7361.00
111_F277_A0.7361.00
239_L242_M0.7341.00
12_V36_L0.7311.00
173_P183_S0.7291.00
141_A278_F0.7261.00
201_W204_A0.7241.00
172_A175_T0.7231.00
217_S220_G0.7221.00
189_R214_E0.7211.00
197_H201_W0.7181.00
198_F201_W0.7181.00
170_G228_G0.7171.00
114_R277_A0.7171.00
135_L153_I0.7141.00
167_T249_E0.7131.00
162_E257_W0.7131.00
60_A64_F0.7051.00
200_S204_A0.7031.00
59_P63_N0.7021.00
101_A223_A0.6971.00
140_N275_L0.6931.00
181_N207_A0.6901.00
87_P115_Y0.6851.00
152_A268_R0.6831.00
235_P238_M0.6821.00
199_E203_H0.6751.00
64_F82_V0.6741.00
67_Y71_I0.6741.00
31_N35_R0.6741.00
173_P176_R0.6731.00
57_L62_H0.6711.00
92_S140_N0.6661.00
200_S203_H0.6641.00
197_H200_S0.6631.00
56_R62_H0.6591.00
106_A109_A0.6591.00
77_E80_S0.6531.00
92_S139_L0.6531.00
23_A26_H0.6471.00
7_E72_L0.6461.00
165_I233_L0.6461.00
49_I54_R0.6431.00
185_I231_I0.6431.00
9_F61_G0.6401.00
188_F221_M0.6401.00
145_D260_L0.6401.00
40_E50_R0.6371.00
196_R201_W0.6361.00
124_T216_E0.6331.00
119_Q214_E0.6321.00
273_R276_E0.6261.00
73_A76_D0.6241.00
178_S205_D0.6241.00
213_H224_C0.6221.00
40_E45_V0.6091.00
241_S244_G0.6061.00
4_T8_M0.6041.00
104_I107_T0.6041.00
72_L76_D0.6031.00
12_V17_S0.6021.00
36_L40_E0.6001.00
45_V49_I0.5981.00
13_A62_H0.5971.00
266_W276_E0.5951.00
141_A279_I0.5941.00
4_T38_Q0.5921.00
110_E284_V0.5921.00
80_S84_G0.5901.00
182_G210_G0.5901.00
169_Q246_H0.5901.00
170_G249_E0.5891.00
189_R216_E0.5861.00
43_L64_F0.5851.00
95_S104_I0.5851.00
167_T174_V0.5841.00
91_F141_A0.5831.00
68_S72_L0.5811.00
21_A25_V0.5791.00
215_M220_G0.5761.00
106_A110_E0.5761.00
199_E202_F0.5761.00
195_R214_E0.5751.00
161_E260_L0.5751.00
115_Y118_I0.5751.00
91_F274_P0.5721.00
63_N82_V0.5711.00
226_I245_H0.5701.00
103_R107_T0.5681.00
88_Q119_Q0.5681.00
165_I180_V0.5641.00
97_E126_P0.5641.00
158_V264_L0.5611.00
48_F57_L0.5601.00
89_G117_K0.5591.00
171_Y231_I0.5581.00
278_F282_L0.5581.00
43_L82_V0.5561.00
94_G123_S0.5541.00
134_V153_I0.5541.00
31_N34_T0.5521.00
18_I29_P0.5521.00
94_G125_G0.5501.00
146_G155_G0.5491.00
163_L233_L0.5481.00
28_V34_T0.5471.00
221_M225_V0.5461.00
193_S196_R0.5451.00
124_T217_S0.5451.00
194_Y198_F0.5441.00
170_G174_V0.5441.00
43_L46_D0.5441.00
84_G87_P0.5421.00
195_R201_W0.5411.00
234_I239_L0.5381.00
30_S34_T0.5371.00
165_I185_I0.5371.00
105_P109_A0.5351.00
16_G55_L0.5351.00
134_V265_V0.5351.00
95_S122_L0.5331.00
27_R35_R0.5311.00
194_Y197_H0.5291.00
109_A112_N0.5281.00
81_V84_G0.5271.00
46_D60_A0.5261.00
99_T103_R0.5241.00
266_W271_K0.5231.00
8_M36_L0.5221.00
274_P277_A0.5211.00
159_Y262_T0.5191.00
154_D269_G0.5181.00
57_L65_L0.5181.00
202_F209_P0.5171.00
106_A223_A0.5171.00
178_S207_A0.5151.00
275_L279_I0.5141.00
135_L138_K0.5141.00
218_Y235_P0.5111.00
224_C230_G0.5111.00
101_A217_S0.5111.00
78_A81_V0.5101.00
252_P255_E0.5081.00
219_H223_A0.5071.00
66_R81_V0.5071.00
247_Q250_A0.5061.00
80_S83_A0.5061.00
6_L64_F0.5051.00
195_R198_F0.5041.00
18_I50_R0.5021.00
71_I79_R0.5021.00
18_I54_R0.5001.00
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 0.9829 100 0.098 Contact Map
3fxqA 3 0.9795 100 0.102 Contact Map
1uthA 2 0.7543 100 0.104 Contact Map
1ixcA 4 0.9761 100 0.109 Contact Map
2h98A 2 0.6928 100 0.112 Contact Map
2h9bA 2 0.6962 100 0.116 Contact Map
3fzvA 4 0.9556 100 0.12 Contact Map
1al3A 1 0.7065 100 0.122 Contact Map
4x6gA 4 1 100 0.124 Contact Map
3szpA 3 0.9659 100 0.135 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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