GREMLIN Database
YKGA - Putative HTH-type transcriptional regulator YkgA
UniProt: P77601 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13381
Length: 239 (223)
Sequences: 2796 (2153)
Seq/√Len: 144.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
28_N31_H6.0291.00
76_L91_L3.7131.00
73_A99_F3.7021.00
146_E223_T3.4901.00
36_E46_R3.4701.00
76_L90_S3.4051.00
148_P221_E2.9731.00
24_W28_N2.9501.00
143_N228_L2.8511.00
83_S86_D2.8311.00
21_L49_I2.8131.00
95_S98_S2.6481.00
82_K90_S2.5011.00
85_L89_L2.5011.00
82_K87_I2.4901.00
34_S37_D2.4221.00
25_I65_I2.3081.00
77_V84_M2.3061.00
148_P223_T2.2151.00
37_D40_Q2.1791.00
26_E68_R2.1791.00
146_E226_R2.1481.00
53_F64_Y2.0861.00
70_L106_L2.0561.00
168_E171_L1.9881.00
87_I115_R1.9841.00
96_Q100_S1.9721.00
167_E170_K1.9351.00
14_R52_L1.9031.00
170_K174_H1.8921.00
189_F205_V1.8871.00
100_S110_S1.8871.00
85_L96_Q1.8721.00
139_C232_T1.8711.00
26_E64_Y1.8071.00
29_L68_R1.7921.00
21_L41_K1.7831.00
59_V67_K1.7801.00
80_T115_R1.7241.00
138_E233_H1.7031.00
64_Y68_R1.6611.00
76_L82_K1.6371.00
147_T224_T1.6261.00
30_E72_R1.6201.00
21_L38_I1.6091.00
133_Q137_T1.5581.00
151_G206_E1.5481.00
89_L96_Q1.5361.00
143_N226_R1.4981.00
24_W41_K1.4931.00
203_L207_T1.4861.00
29_L72_R1.4611.00
149_I208_F1.4441.00
199_S202_L1.4391.00
144_F147_T1.4321.00
207_T210_G1.4291.00
38_I41_K1.4231.00
17_I43_G1.4161.00
140_R231_P1.4051.00
82_K86_D1.3761.00
153_S204_T1.3411.00
153_S220_K1.3371.00
25_I33_I1.3331.00
167_E171_L1.3081.00
188_Y191_S1.2841.00
113_E117_R1.2801.00
205_V209_A1.2741.00
142_I231_P1.2721.00
205_V210_G1.2701.00
153_S206_E1.2701.00
193_F204_T1.2541.00
30_E90_S1.2331.00
205_V208_F1.2231.00
158_I161_S1.2101.00
150_F211_T1.2081.00
35_I50_Q1.1901.00
150_F219_P1.1801.00
25_I28_N1.1541.00
18_L57_M1.1440.99
54_R60_P1.1160.99
145_P226_R1.1040.99
70_L107_F1.1020.99
165_P168_E1.1000.99
180_M183_F1.0980.99
98_S102_E1.0970.99
164_S168_E1.0920.99
94_D98_S1.0750.99
168_E172_R1.0680.99
191_S205_V1.0570.99
169_V173_R1.0440.99
194_E198_K1.0420.99
14_R44_Y1.0420.99
160_V163_K1.0370.99
101_R105_K1.0370.99
63_E66_R1.0360.99
151_G222_W1.0350.99
31_H37_D1.0310.99
17_I20_Q1.0280.99
167_E174_H1.0250.99
85_L97_Q1.0250.99
20_Q41_K1.0230.99
96_Q112_R1.0110.99
178_R181_K1.0020.99
42_S49_I0.9960.99
100_S111_P0.9900.98
113_E116_H0.9820.98
25_I38_I0.9760.98
170_K173_R0.9700.98
139_C230_D0.9640.98
192_T195_P0.9610.98
74_A114_Y0.9560.98
86_D89_L0.9560.98
154_F164_S0.9480.98
109_C114_Y0.9470.98
61_L65_I0.9410.98
97_Q100_S0.9400.98
35_I46_R0.9370.98
67_K106_L0.9370.98
62_G65_I0.9350.98
22_L64_Y0.9300.98
157_D160_V0.9240.98
63_E67_K0.9240.98
37_D41_K0.9160.97
139_C142_I0.9150.97
99_F189_F0.9090.97
154_F170_K0.9080.97
25_I61_L0.9050.97
175_H178_R0.9020.97
84_M112_R0.8890.97
48_N52_L0.8870.97
50_Q101_R0.8850.97
16_K20_Q0.8790.97
134_Q137_T0.8780.97
203_L206_E0.8730.97
48_N51_L0.8680.97
175_H180_M0.8680.97
144_F229_Y0.8660.96
148_P214_E0.8650.96
71_C107_F0.8640.96
15_Q19_Q0.8640.96
93_F236_W0.8560.96
67_K71_C0.8480.96
99_F103_F0.8460.96
187_I191_S0.8450.96
22_L68_R0.8430.96
188_Y193_F0.8380.96
128_S132_R0.8330.96
155_K202_L0.8330.96
47_R50_Q0.8290.95
147_T186_D0.8250.95
168_E174_H0.8220.95
78_R118_D0.8180.95
84_M115_R0.8100.95
104_K113_E0.8080.95
123_A127_P0.8080.95
80_T87_I0.8070.95
20_Q23_E0.8060.95
29_L65_I0.8030.95
21_L42_S0.8000.94
84_M96_Q0.7930.94
85_L95_S0.7910.94
50_Q62_G0.7910.94
155_K204_T0.7880.94
24_W33_I0.7870.94
64_Y71_C0.7870.94
34_S93_F0.7830.94
49_I97_Q0.7830.94
177_A182_N0.7750.94
84_M87_I0.7710.93
104_K110_S0.7700.93
33_I38_I0.7680.93
212_V215_Y0.7660.93
47_R136_K0.7640.93
201_D208_F0.7630.93
141_L230_D0.7600.93
176_L180_M0.7510.92
72_R75_I0.7480.92
47_R51_L0.7450.92
188_Y208_F0.7450.92
164_S167_E0.7410.92
171_L174_H0.7370.92
186_D189_F0.7360.92
178_R183_F0.7320.91
177_A180_M0.7270.91
174_H209_A0.7180.91
211_T215_Y0.7180.91
173_R219_P0.7150.90
141_L228_L0.7100.90
62_G66_R0.7060.90
232_T236_W0.7050.90
20_Q27_C0.7040.90
157_D200_V0.7040.90
114_Y117_R0.6960.89
213_C216_A0.6950.89
129_F132_R0.6920.89
184_K191_S0.6890.89
45_S51_L0.6880.89
151_G220_K0.6870.89
186_D210_G0.6820.88
184_K187_I0.6790.88
22_L53_F0.6780.88
206_E211_T0.6760.88
23_E27_C0.6760.88
68_R151_G0.6760.88
75_I79_L0.6720.88
93_F98_S0.6720.88
17_I44_Y0.6700.87
177_A189_F0.6650.87
159_E162_N0.6640.87
64_Y93_F0.6640.87
68_R91_L0.6620.87
46_R50_Q0.6600.87
112_R116_H0.6570.86
175_H179_C0.6500.86
93_F107_F0.6480.86
110_S113_E0.6480.86
127_P131_I0.6460.85
33_I37_D0.6410.85
168_E173_R0.6360.85
70_L102_E0.6360.85
77_V87_I0.6360.85
72_R91_L0.6320.84
97_Q101_R0.6320.84
148_P215_Y0.6310.84
22_L26_E0.6310.84
71_C151_G0.6290.84
227_G230_D0.6290.84
146_E225_T0.6280.84
28_N33_I0.6260.84
188_Y210_G0.6250.84
60_P63_E0.6240.83
66_R70_L0.6220.83
44_Y52_L0.6200.83
47_R102_E0.6150.83
29_L33_I0.6130.82
37_D65_I0.6100.82
124_N127_P0.6090.82
189_F207_T0.6060.82
35_I61_L0.6060.82
191_S195_P0.6030.81
59_V63_E0.5950.80
39_A66_R0.5940.80
24_W38_I0.5940.80
57_M138_E0.5900.80
177_A181_K0.5880.80
198_K204_T0.5860.79
24_W79_L0.5860.79
18_L49_I0.5860.79
44_Y49_I0.5850.79
195_P199_S0.5840.79
180_M190_V0.5840.79
54_R137_T0.5830.79
71_C75_I0.5820.79
156_Y167_E0.5820.79
54_R113_E0.5810.79
28_N228_L0.5800.79
54_R114_Y0.5800.79
69_R91_L0.5800.79
181_K184_K0.5790.79
49_I102_E0.5760.78
68_R71_C0.5760.78
33_I78_R0.5760.78
154_F167_E0.5750.78
86_D144_F0.5730.78
49_I61_L0.5720.78
128_S146_E0.5720.78
19_Q23_E0.5670.77
214_E221_E0.5670.77
180_M185_T0.5630.77
169_V174_H0.5620.77
94_D97_Q0.5620.77
123_A126_F0.5610.76
152_N219_P0.5600.76
153_S192_T0.5560.76
163_K207_T0.5550.76
201_D204_T0.5500.75
152_N174_H0.5500.75
107_F114_Y0.5480.75
161_S207_T0.5480.75
200_V203_L0.5470.75
72_R76_L0.5470.75
44_Y47_R0.5460.75
62_G97_Q0.5430.74
180_M184_K0.5420.74
161_S191_S0.5420.74
208_F213_C0.5410.74
38_I61_L0.5390.74
206_E222_W0.5370.73
203_L210_G0.5360.73
89_L97_Q0.5350.73
176_L179_C0.5330.73
98_S234_V0.5300.72
39_A92_H0.5300.72
14_R50_Q0.5300.72
129_F134_Q0.5290.72
191_S203_L0.5290.72
183_F186_D0.5290.72
76_L107_F0.5280.72
121_D124_N0.5270.72
184_K188_Y0.5270.72
126_F129_F0.5260.72
93_F104_K0.5260.72
198_K203_L0.5250.72
107_F128_S0.5250.72
134_Q138_E0.5250.72
35_I49_I0.5250.72
193_F202_L0.5250.72
76_L80_T0.5240.72
187_I190_V0.5230.71
66_R95_S0.5230.71
93_F114_Y0.5220.71
206_E209_A0.5220.71
195_P204_T0.5220.71
179_C182_N0.5170.71
107_F125_I0.5160.70
30_E91_L0.5150.70
50_Q57_M0.5150.70
151_G190_V0.5140.70
129_F145_P0.5130.70
38_I161_S0.5120.70
103_F111_P0.5110.70
22_L57_M0.5110.70
36_E89_L0.5090.69
100_S128_S0.5080.69
196_S199_S0.5080.69
203_L220_K0.5070.69
45_S48_N0.5030.68
203_L208_F0.5030.68
133_Q141_L0.5020.68
36_E40_Q0.5020.68
14_R17_I0.5020.68
54_R61_L0.5020.68
172_R175_H0.5010.68
77_V228_L0.5000.68
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  
1d5yA 1 0.9247 100 0.377 Contact Map
3gbgA 1 0.5021 100 0.525 Contact Map
1bl0A 1 0.4854 100 0.541 Contact Map
3oioA 1 0.4686 100 0.545 Contact Map
4fe7A 2 0.5021 100 0.546 Contact Map
3oouA 1 0.4393 100 0.549 Contact Map
3mn2A 1 0.4435 100 0.55 Contact Map
2k9sA 1 0.4435 100 0.552 Contact Map
3w6vA 1 0.4644 100 0.554 Contact Map
3lsgA 2 0.4268 100 0.558 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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