GREMLIN Database
YNFL - Uncharacterized HTH-type transcriptional regulator YnfL
UniProt: P77559 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13850
Length: 297 (284)
Sequences: 79496 (58171)
Seq/√Len: 3451.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
72_Q76_M3.8091.00
17_E26_R3.4591.00
13_A26_R2.7901.00
69_D83_R2.6551.00
161_A293_L2.5821.00
162_V270_E2.5381.00
47_A62_A2.4141.00
12_V71_R2.3851.00
98_G144_L2.3221.00
169_M247_A2.3001.00
12_V16_E2.2821.00
94_E126_Q2.2391.00
165_H270_E2.2281.00
162_V165_H2.2221.00
10_Y37_Q2.2141.00
69_D76_M2.2111.00
13_A17_E2.1741.00
94_E124_H2.0991.00
176_H192_E2.0621.00
96_R126_Q2.0441.00
236_V243_S1.9901.00
15_A59_L1.9841.00
165_H268_V1.9721.00
167_P247_A1.9471.00
115_L291_H1.9431.00
73_I77_V1.9201.00
67_L71_R1.9131.00
10_Y34_L1.9061.00
13_A16_E1.8991.00
15_A67_L1.8911.00
185_T188_E1.8761.00
16_E71_R1.8401.00
69_D72_Q1.8211.00
12_V67_L1.8001.00
22_R25_A1.7871.00
193_P223_T1.7861.00
160_H272_W1.7571.00
195_V241_G1.7491.00
65_Q83_R1.7491.00
17_E22_R1.7171.00
254_L257_M1.7081.00
19_H22_R1.6841.00
138_P143_T1.6391.00
51_A58_L1.6361.00
161_A275_W1.5911.00
7_H44_Q1.5621.00
66_F80_A1.5521.00
76_M79_D1.5511.00
7_H40_A1.5481.00
105_F230_M1.5471.00
53_T58_L1.5361.00
12_V70_S1.5311.00
159_E277_K1.5301.00
135_Q147_G1.5161.00
69_D79_D1.5151.00
30_S33_P1.4971.00
7_H37_Q1.4921.00
275_W289_R1.4801.00
20_F38_I1.4741.00
138_P144_L1.4741.00
16_E26_R1.4621.00
159_E275_W1.4511.00
13_A27_L1.4481.00
137_A141_E1.4461.00
237_S253_Q1.4421.00
149_L274_V1.4331.00
68_A72_Q1.4311.00
169_M261_P1.4251.00
119_D291_H1.4141.00
96_R128_R1.4121.00
73_I80_A1.3891.00
289_R293_L1.3811.00
233_I253_Q1.3801.00
48_R51_A1.3721.00
206_Y210_L1.3711.00
162_V272_W1.3581.00
281_Q285_A1.3571.00
21_G31_Q1.3481.00
69_D80_A1.3431.00
116_F123_V1.3431.00
5_L77_V1.3411.00
166_E248_S1.3351.00
273_L289_R1.3351.00
151_N272_W1.3351.00
232_I243_S1.3331.00
65_Q69_D1.3311.00
139_L147_G1.3301.00
66_F81_A1.3301.00
116_F288_F1.3271.00
234_G237_S1.3231.00
29_I33_P1.3171.00
11_F67_L1.3101.00
36_Q40_A1.3061.00
4_E7_H1.2911.00
92_A122_D1.2811.00
114_S238_A1.2801.00
146_M273_L1.2751.00
12_V74_L1.2631.00
287_N290_I1.2621.00
140_I157_S1.2611.00
181_N188_E1.2561.00
192_E242_V1.2551.00
172_I242_V1.2421.00
10_Y29_I1.2381.00
117_R223_T1.2381.00
61_A64_K1.2371.00
115_L119_D1.2351.00
146_M285_A1.2341.00
117_R193_P1.2311.00
172_I260_V1.2251.00
65_Q68_A1.2251.00
177_P192_E1.2181.00
72_Q79_D1.2091.00
111_D238_A1.2081.00
174_H258_R1.2011.00
90_G122_D1.2001.00
114_S118_R1.1901.00
8_L70_S1.1881.00
182_P260_V1.1851.00
11_F15_A1.1781.00
183_N263_A1.1651.00
64_K68_A1.1531.00
44_Q81_A1.1481.00
128_R138_P1.1461.00
13_A23_A1.1381.00
160_H274_V1.1321.00
11_F50_L1.1301.00
234_G238_A1.1291.00
36_Q39_Q1.1281.00
161_A289_R1.1281.00
247_A251_R1.1231.00
77_V81_A1.1231.00
184_V188_E1.1171.00
73_I76_M1.1131.00
120_Y287_N1.1031.00
193_P221_V1.1031.00
37_Q40_A1.0841.00
233_I237_S1.0671.00
39_Q43_Q1.0671.00
196_F222_I1.0621.00
20_F57_V1.0611.00
75_S79_D1.0431.00
237_S258_R1.0421.00
174_H256_E1.0381.00
173_P239_G1.0371.00
62_A65_Q1.0361.00
167_P268_V1.0361.00
126_Q225_E1.0361.00
81_A85_E1.0281.00
95_L288_F1.0201.00
286_R290_I1.0191.00
140_I155_P1.0191.00
237_S256_E1.0151.00
66_F70_S1.0001.00
35_S39_Q0.9991.00
104_P129_E0.9981.00
116_F120_Y0.9851.00
72_Q75_S0.9811.00
6_R9_R0.9801.00
23_A34_L0.9791.00
114_S240_L0.9711.00
169_M259_W0.9671.00
116_F291_H0.9661.00
40_A43_Q0.9621.00
14_V23_A0.9601.00
115_L118_R0.9581.00
59_L63_G0.9511.00
18_L58_L0.9411.00
171_M250_K0.9361.00
207_D210_L0.9351.00
159_E162_V0.9331.00
207_D211_G0.9321.00
14_V20_F0.9311.00
247_A261_P0.9301.00
112_T292_L0.9271.00
9_R78_D0.9261.00
22_R26_R0.9241.00
195_V232_I0.9231.00
77_V80_A0.9231.00
11_F49_L0.9201.00
65_Q87_L0.9181.00
226_V232_I0.9181.00
283_P287_N0.9161.00
11_F41_L0.9141.00
79_D83_R0.9141.00
261_P264_E0.9131.00
78_D81_A0.9121.00
68_A71_R0.9101.00
6_R37_Q0.9051.00
290_I293_L0.9031.00
17_E23_A0.9011.00
212_L216_Y0.8941.00
15_A50_L0.8931.00
9_R13_A0.8921.00
170_A242_V0.8901.00
138_P141_E0.8861.00
282_S285_A0.8861.00
10_Y27_L0.8851.00
172_I176_H0.8821.00
9_R12_V0.8811.00
253_Q256_E0.8801.00
117_R240_L0.8791.00
76_M80_A0.8761.00
112_T291_H0.8711.00
64_K67_L0.8701.00
253_Q258_R0.8701.00
18_L56_S0.8691.00
101_S228_E0.8681.00
16_E67_L0.8671.00
175_D239_G0.8641.00
136_I140_I0.8631.00
226_V235_L0.8601.00
29_I34_L0.8581.00
53_T56_S0.8551.00
252_V256_E0.8521.00
11_F59_L0.8521.00
47_A84_A0.8511.00
15_A18_L0.8511.00
21_G25_A0.8441.00
151_N270_E0.8331.00
14_V50_L0.8321.00
128_R144_L0.8301.00
93_G284_A0.8291.00
185_T263_A0.8261.00
31_Q35_S0.8211.00
62_A84_A0.8191.00
193_P222_I0.8151.00
80_A84_A0.8141.00
213_M218_L0.8141.00
97_I146_M0.8141.00
78_D82_A0.8141.00
281_Q286_R0.8051.00
276_P279_H0.7991.00
71_R75_S0.7981.00
228_E231_T0.7931.00
50_L57_V0.7931.00
144_L147_G0.7921.00
70_S73_I0.7921.00
178_L192_E0.7901.00
235_L240_L0.7891.00
180_N193_P0.7891.00
27_L34_L0.7881.00
98_G149_L0.7811.00
9_R74_L0.7801.00
167_P266_D0.7781.00
172_I177_P0.7781.00
116_F287_N0.7761.00
167_P261_P0.7751.00
176_H179_A0.7751.00
98_G135_Q0.7751.00
14_V34_L0.7741.00
20_F34_L0.7711.00
99_F104_P0.7711.00
105_F234_G0.7651.00
287_N291_H0.7651.00
187_A190_A0.7641.00
173_P176_H0.7601.00
98_G147_G0.7601.00
11_F63_G0.7561.00
5_L74_L0.7551.00
173_P240_L0.7541.00
62_A87_L0.7531.00
111_D114_S0.7531.00
123_V284_A0.7511.00
61_A65_Q0.7511.00
142_G276_P0.7501.00
253_Q257_M0.7501.00
209_I213_M0.7491.00
251_R255_N0.7471.00
188_E191_K0.7471.00
69_D73_I0.7461.00
124_H221_V0.7451.00
208_D211_G0.7451.00
208_D212_L0.7431.00
39_Q48_R0.7391.00
212_L215_R0.7381.00
14_V38_I0.7351.00
59_L64_K0.7341.00
51_A60_T0.7311.00
134_E138_P0.7301.00
198_D225_E0.7281.00
15_A64_K0.7281.00
171_M259_W0.7261.00
134_E137_A0.7241.00
257_M261_P0.7241.00
140_I158_L0.7221.00
145_D285_A0.7201.00
170_A244_I0.7201.00
171_M245_L0.7171.00
7_H10_Y0.7161.00
146_M288_F0.7151.00
85_E88_H0.7151.00
177_P182_P0.7151.00
176_H180_N0.7121.00
158_L274_V0.7111.00
175_D179_A0.7051.00
190_A218_L0.7021.00
96_R145_D0.6981.00
15_A63_G0.6951.00
206_Y212_L0.6911.00
11_F66_F0.6901.00
210_L214_R0.6881.00
6_R40_A0.6861.00
18_L64_K0.6831.00
237_S254_L0.6821.00
25_A28_N0.6811.00
211_G215_R0.6801.00
279_H282_S0.6771.00
33_P37_Q0.6761.00
74_L78_D0.6701.00
91_E120_Y0.6691.00
197_F232_I0.6661.00
258_R261_P0.6641.00
129_E227_G0.6621.00
157_S277_K0.6561.00
150_R269_S0.6551.00
194_F220_P0.6551.00
93_G123_V0.6541.00
194_F242_V0.6521.00
58_L64_K0.6511.00
109_V112_T0.6501.00
171_M243_S0.6491.00
62_A66_F0.6471.00
283_P286_R0.6441.00
124_H225_E0.6431.00
119_D287_N0.6401.00
66_F84_A0.6381.00
45_I66_F0.6371.00
246_P249_F0.6351.00
79_D82_A0.6251.00
224_Q235_L0.6201.00
226_V231_T0.6191.00
139_L158_L0.6171.00
51_A56_S0.6151.00
96_R144_L0.6111.00
175_D178_L0.6101.00
146_M289_R0.6081.00
209_I212_L0.6081.00
110_S114_S0.6071.00
42_E52_R0.6041.00
140_I143_T0.6041.00
172_I178_L0.6031.00
257_M264_E0.6011.00
114_S117_R0.5971.00
198_D227_G0.5951.00
284_A287_N0.5941.00
83_R86_R0.5911.00
65_Q84_A0.5891.00
206_Y225_E0.5861.00
6_R10_Y0.5861.00
168_L244_I0.5841.00
20_F31_Q0.5841.00
111_D115_L0.5841.00
176_H242_V0.5791.00
47_A88_H0.5791.00
288_F292_L0.5761.00
151_N160_H0.5731.00
95_L146_M0.5721.00
23_A27_L0.5711.00
205_L209_I0.5651.00
178_L181_N0.5651.00
120_Y123_V0.5611.00
92_A124_H0.5601.00
75_S78_D0.5591.00
108_A112_T0.5591.00
205_L208_D0.5551.00
45_I48_R0.5541.00
14_V19_H0.5541.00
213_M220_P0.5531.00
197_F229_A0.5511.00
98_G128_R0.5491.00
40_A44_Q0.5471.00
99_F127_T0.5441.00
99_F109_V0.5441.00
93_G122_D0.5431.00
45_I84_A0.5421.00
230_M234_G0.5411.00
207_D212_L0.5401.00
82_A86_R0.5381.00
47_A51_A0.5381.00
124_H223_T0.5371.00
176_H193_P0.5371.00
211_G214_R0.5371.00
80_A83_R0.5361.00
275_W286_R0.5361.00
18_L57_V0.5351.00
50_L59_L0.5351.00
204_G207_D0.5351.00
12_V78_D0.5341.00
4_E40_A0.5331.00
286_R289_R0.5331.00
275_W281_Q0.5311.00
177_P181_N0.5311.00
210_L213_M0.5301.00
163_I273_L0.5301.00
139_L274_V0.5301.00
48_R62_A0.5291.00
170_A189_L0.5271.00
82_A85_E0.5271.00
166_E269_S0.5261.00
285_A289_R0.5241.00
100_T103_A0.5241.00
111_D234_G0.5191.00
178_L184_V0.5181.00
45_I81_A0.5181.00
33_P36_Q0.5171.00
32_P36_Q0.5151.00
124_H222_I0.5131.00
105_F228_E0.5111.00
133_R137_A0.5111.00
8_L66_F0.5111.00
172_I179_A0.5101.00
32_P35_S0.5091.00
118_R240_L0.5081.00
232_I236_V0.5081.00
148_L292_L0.5081.00
166_E246_P0.5081.00
29_I37_Q0.5081.00
103_A108_A0.5061.00
70_S74_L0.5041.00
187_A218_L0.5031.00
38_I42_E0.5031.00
73_I81_A0.5031.00
171_M257_M0.5021.00
245_L250_K0.5001.00
179_A258_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  
1ixcA 4 0.9865 100 0.069 Contact Map
2h98A 2 0.6869 100 0.075 Contact Map
2esnA 3 0.9832 100 0.076 Contact Map
3fzvA 4 0.963 100 0.078 Contact Map
2h9bA 2 0.6869 100 0.079 Contact Map
1uthA 2 0.7407 100 0.087 Contact Map
1al3A 1 0.697 100 0.089 Contact Map
3fxqA 3 0.9798 100 0.089 Contact Map
4x6gA 4 0.9832 100 0.094 Contact Map
3hhgA 3 0.9798 100 0.099 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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