GREMLIN Database
YGFI - Uncharacterized HTH-type transcriptional regulator YgfI
UniProt: P52044 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12974
Length: 298 (279)
Sequences: 78911 (57705)
Seq/√Len: 3454.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
73_P77_R3.5991.00
18_T27_K3.4061.00
164_S293_R2.5611.00
98_G142_L2.5401.00
70_K84_E2.4341.00
235_V242_T2.3071.00
14_L27_K2.2631.00
179_Y191_L2.2341.00
170_R246_H2.2191.00
168_P270_Q2.2041.00
165_E168_P2.2031.00
94_E124_Q2.1881.00
23_R26_E2.1391.00
94_E122_T2.1331.00
165_E270_Q2.1071.00
17_Q72_F2.0881.00
48_Y63_A2.0491.00
11_N38_S2.0411.00
96_V124_Q1.9931.00
13_I68_Y1.9821.00
236_E256_T1.9771.00
70_K77_R1.9701.00
168_P268_Y1.9641.00
13_I72_F1.9531.00
232_I251_L1.9301.00
14_L17_Q1.9221.00
194_L240_F1.9081.00
13_I17_Q1.9061.00
14_L18_T1.8981.00
11_N35_F1.8921.00
74_V78_L1.8901.00
113_S291_E1.8881.00
16_A60_L1.8851.00
172_G246_H1.8751.00
175_V260_F1.8671.00
68_Y72_F1.8361.00
21_I39_I1.8211.00
133_V145_I1.7851.00
52_T59_S1.7391.00
236_E251_L1.7141.00
67_L81_I1.7101.00
192_P222_I1.7051.00
66_E84_E1.6761.00
163_I272_Y1.6701.00
136_N141_Q1.6481.00
172_G259_Y1.6471.00
184_E187_L1.6281.00
16_A68_Y1.6201.00
17_Q27_K1.5971.00
12_F68_Y1.5811.00
18_T23_R1.5741.00
114_L288_H1.5611.00
13_I71_L1.5581.00
162_T277_R1.5501.00
11_N30_M1.5361.00
135_D139_D1.5361.00
114_L121_V1.5161.00
8_K38_S1.5151.00
22_A32_A1.5121.00
62_K65_Q1.4871.00
8_K45_Q1.4761.00
31_T34_P1.4551.00
164_S275_S1.4501.00
49_T52_T1.4451.00
70_K73_P1.4451.00
287_Q290_A1.4431.00
8_K41_A1.4331.00
20_N23_R1.4271.00
14_L28_I1.4211.00
13_I75_Y1.4141.00
91_R120_G1.4091.00
5_I8_K1.3971.00
70_K80_A1.3941.00
162_T275_S1.3861.00
147_S274_Y1.3821.00
281_Y285_M1.3771.00
74_V81_I1.3761.00
205_E209_D1.3751.00
149_Q272_Y1.3721.00
104_P229_M1.3531.00
6_S78_L1.3481.00
177_R256_T1.3461.00
96_V126_V1.3251.00
137_L145_I1.3181.00
136_N142_L1.3041.00
144_F285_M1.3021.00
138_F160_N1.3011.00
169_L247_F1.2941.00
54_K59_S1.2861.00
67_L82_D1.2801.00
231_K242_T1.2801.00
144_F273_L1.2751.00
175_V241_L1.2721.00
45_Q82_D1.2701.00
275_S289_I1.2631.00
191_L241_L1.2621.00
113_S117_K1.2601.00
77_R80_A1.2601.00
115_G222_I1.2401.00
69_Q73_P1.2291.00
246_H250_R1.2291.00
70_K81_I1.2061.00
233_S236_E1.2061.00
273_L289_I1.2031.00
65_Q69_Q1.1951.00
177_R258_K1.1951.00
40_A44_E1.1931.00
66_E69_Q1.1901.00
112_I116_D1.1881.00
212_M217_I1.1831.00
115_G192_P1.1821.00
117_K291_E1.1811.00
163_I274_Y1.1801.00
165_E272_Y1.1761.00
12_F51_F1.1701.00
246_H259_Y1.1601.00
180_E191_L1.1571.00
250_R253_N1.1521.00
12_F16_A1.1441.00
113_S116_D1.1431.00
37_K40_A1.1371.00
12_F50_L1.1331.00
30_M34_P1.1321.00
112_I237_R1.1071.00
37_K41_A1.1051.00
251_L256_T1.1051.00
194_L231_K1.1011.00
124_Q224_R1.0991.00
21_I58_I1.0981.00
36_G40_A1.0981.00
179_Y182_R1.0951.00
192_P220_T1.0911.00
114_L291_E1.0891.00
276_I279_H1.0891.00
286_L290_A1.0881.00
73_P80_A1.0841.00
95_I288_H1.0831.00
174_L259_Y1.0781.00
7_K10_R1.0771.00
259_Y262_A1.0771.00
74_V77_R1.0761.00
15_L24_A1.0711.00
9_M71_L1.0701.00
14_L24_A1.0671.00
10_R79_S1.0631.00
225_P231_K1.0631.00
176_S238_G1.0471.00
289_I293_R1.0441.00
38_S41_A1.0421.00
118_Y287_Q1.0421.00
109_D237_R1.0381.00
138_F158_L1.0321.00
60_L64_G1.0321.00
66_E70_K1.0301.00
290_A293_R1.0201.00
232_I236_E1.0191.00
175_V179_Y1.0151.00
233_S237_R1.0101.00
82_D86_H1.0001.00
174_L249_W0.9891.00
98_G133_V0.9881.00
173_F241_L0.9851.00
170_R268_Y0.9851.00
185_Q264_H0.9831.00
16_A51_F0.9801.00
30_M35_F0.9781.00
79_S83_N0.9771.00
11_N28_I0.9731.00
282_T285_M0.9691.00
79_S82_D0.9661.00
76_Q80_A0.9661.00
12_F60_L0.9631.00
225_P234_A0.9611.00
206_A209_D0.9541.00
195_Q221_I0.9501.00
114_L118_Y0.9441.00
15_L21_I0.9431.00
110_Q292_D0.9411.00
67_L71_L0.9391.00
283_A287_Q0.9381.00
126_V136_N0.9331.00
179_Y183_Q0.9311.00
136_N139_D0.9281.00
110_Q291_E0.9281.00
164_S289_I0.9271.00
12_F42_L0.9241.00
24_A35_F0.9231.00
160_N277_R0.9221.00
41_A44_E0.9211.00
66_E88_S0.9141.00
179_Y192_P0.9121.00
51_F58_I0.9101.00
48_Y85_I0.9081.00
142_L145_I0.8971.00
206_A210_A0.8971.00
16_A64_G0.8951.00
69_Q72_F0.8861.00
23_R27_K0.8841.00
187_L190_E0.8781.00
98_G147_S0.8751.00
101_N227_S0.8711.00
19_N59_S0.8681.00
122_T220_T0.8681.00
175_V180_E0.8621.00
149_Q270_Q0.8591.00
181_E191_L0.8571.00
121_V284_T0.8481.00
73_P76_Q0.8461.00
22_A26_E0.8461.00
161_L274_Y0.8421.00
54_K57_N0.8411.00
193_W219_P0.8401.00
28_I35_F0.8341.00
162_T165_E0.8341.00
192_P221_I0.8341.00
174_L242_T0.8341.00
183_Q192_P0.8321.00
97_I144_F0.8311.00
63_A88_S0.8281.00
134_I138_F0.8281.00
7_K38_S0.8251.00
126_V142_L0.8231.00
93_R121_V0.8201.00
6_S75_Y0.8091.00
98_G145_I0.8071.00
19_N65_Q0.8031.00
112_I239_H0.7991.00
63_A85_I0.7951.00
40_A49_T0.7931.00
211_N215_C0.7921.00
12_F67_L0.7891.00
176_S239_H0.7871.00
170_R261_D0.7871.00
78_L81_I0.7861.00
16_A19_N0.7851.00
32_A36_G0.7831.00
15_L39_I0.7821.00
17_Q68_Y0.7791.00
281_Y286_L0.7771.00
252_V255_A0.7751.00
186_E189_Q0.7751.00
132_G135_D0.7741.00
15_L51_F0.7711.00
18_T24_A0.7701.00
170_R266_P0.7681.00
182_R258_K0.7601.00
178_R182_R0.7581.00
80_A84_E0.7581.00
77_R81_I0.7551.00
115_G239_H0.7541.00
251_L254_P0.7541.00
234_A239_H0.7541.00
208_I212_M0.7521.00
86_H89_G0.7491.00
78_L82_D0.7471.00
63_A66_E0.7441.00
8_K11_N0.7431.00
19_N57_N0.7411.00
175_V181_E0.7401.00
59_S65_Q0.7311.00
138_F161_L0.7281.00
245_P248_A0.7281.00
96_V142_L0.7241.00
81_I85_I0.7221.00
71_L74_V0.7211.00
93_R284_T0.7211.00
180_E183_Q0.7191.00
10_R14_L0.7181.00
52_T61_N0.7171.00
60_L65_Q0.7171.00
174_L244_I0.7161.00
52_T57_N0.7131.00
211_N214_P0.7121.00
21_I35_F0.7121.00
175_V258_K0.7091.00
15_L35_F0.7021.00
186_E215_C0.7011.00
114_L287_Q0.6981.00
236_E254_P0.6971.00
34_P38_S0.6951.00
176_S179_Y0.6911.00
72_F76_Q0.6861.00
227_S230_A0.6861.00
205_E224_R0.6841.00
144_F288_H0.6831.00
63_A67_L0.6831.00
43_E48_Y0.6831.00
180_E184_E0.6821.00
95_I284_T0.6801.00
279_H282_T0.6791.00
283_A286_L0.6771.00
181_E184_E0.6761.00
210_A214_P0.6751.00
189_Q217_I0.6731.00
76_Q79_S0.6731.00
223_Y234_A0.6711.00
65_Q68_Y0.6691.00
207_M211_N0.6671.00
196_M231_K0.6661.00
190_E220_T0.6651.00
96_V143_D0.6651.00
62_K66_E0.6621.00
288_H292_D0.6611.00
122_T224_R0.6581.00
117_K287_Q0.6581.00
140_R276_I0.6581.00
71_L75_Y0.6571.00
178_R181_E0.6571.00
80_A83_N0.6551.00
39_I43_E0.6541.00
21_I57_N0.6511.00
209_D213_R0.6491.00
43_E53_R0.6471.00
67_L85_I0.6461.00
7_K41_A0.6451.00
99_I107_I0.6451.00
26_E29_H0.6431.00
146_I292_D0.6431.00
210_A213_R0.6371.00
178_R238_G0.6361.00
249_W252_V0.6361.00
24_A28_I0.6361.00
287_Q291_E0.6351.00
10_R13_I0.6341.00
178_R258_K0.6341.00
212_M219_P0.6301.00
137_L274_Y0.6271.00
104_P233_S0.6251.00
70_K74_V0.6221.00
127_E226_Y0.6211.00
92_S118_Y0.6191.00
143_D285_M0.6151.00
177_R255_A0.6151.00
95_I144_F0.6121.00
204_F208_I0.6101.00
107_I110_Q0.6081.00
173_F243_V0.6081.00
15_L20_N0.6061.00
179_Y184_E0.6051.00
167_P271_E0.6031.00
173_F188_L0.5981.00
252_V259_Y0.5961.00
193_W241_L0.5951.00
132_G136_N0.5951.00
127_E227_S0.5941.00
285_M289_I0.5921.00
83_N87_N0.5901.00
173_F193_W0.5881.00
66_E85_I0.5881.00
174_L252_V0.5881.00
87_N92_S0.5861.00
162_T278_N0.5851.00
234_A240_F0.5841.00
207_M210_A0.5831.00
231_K235_V0.5821.00
208_I211_N0.5801.00
60_L68_Y0.5791.00
169_L269_M0.5791.00
148_P269_M0.5771.00
33_S37_K0.5761.00
46_I85_I0.5751.00
137_L161_L0.5731.00
10_R75_Y0.5721.00
34_P37_K0.5671.00
133_V140_R0.5671.00
51_F60_L0.5661.00
275_S286_L0.5661.00
175_V182_R0.5651.00
200_N224_R0.5651.00
46_I67_L0.5631.00
225_P230_A0.5621.00
92_S120_G0.5621.00
48_Y52_T0.5611.00
189_Q218_N0.5581.00
7_K11_N0.5581.00
171_L243_V0.5561.00
109_D112_I0.5561.00
109_D113_S0.5561.00
284_T287_Q0.5551.00
31_T37_K0.5541.00
103_Y106_I0.5501.00
144_F289_I0.5501.00
93_R120_G0.5481.00
93_R118_Y0.5481.00
111_L123_A0.5481.00
209_D212_M0.5471.00
46_I49_T0.5421.00
179_Y241_L0.5411.00
69_Q84_E0.5411.00
228_F245_P0.5381.00
118_Y121_V0.5351.00
75_Y79_S0.5341.00
75_Y78_L0.5341.00
98_G126_V0.5341.00
244_I249_W0.5321.00
11_N39_I0.5311.00
70_K85_I0.5271.00
166_L273_L0.5251.00
104_P227_S0.5241.00
12_F64_G0.5231.00
146_I273_L0.5221.00
135_D141_Q0.5211.00
71_L78_L0.5191.00
39_I51_F0.5161.00
204_F207_M0.5161.00
30_M38_S0.5121.00
105_T108_F0.5121.00
21_I32_A0.5111.00
11_N24_A0.5111.00
149_Q163_I0.5101.00
100_D103_Y0.5081.00
49_T63_A0.5071.00
74_V82_D0.5071.00
19_N58_I0.5051.00
21_I53_R0.5051.00
174_L257_L0.5031.00
109_D233_S0.5021.00
150_H156_Q0.5001.00
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 0.9732 100 0.121 Contact Map
1uthA 2 0.7282 100 0.123 Contact Map
3fxqA 3 0.9732 100 0.129 Contact Map
2h98A 2 0.6711 100 0.131 Contact Map
2h9bA 2 0.6711 100 0.135 Contact Map
3fzvA 4 0.9463 100 0.135 Contact Map
1al3A 1 0.6846 100 0.136 Contact Map
1ixcA 4 0.9664 100 0.138 Contact Map
4x6gA 4 0.9698 100 0.147 Contact Map
3szpA 3 0.9497 100 0.172 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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