GREMLIN Database
YBFP - Uncharacterized HTH-type transcriptional regulator YbfP
UniProt: O31456 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 295 (242)
Sequences: 1034 (809)
Seq/√Len: 52.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
17_H20_E5.2771.00
14_I54_I3.8981.00
155_K158_M3.5091.00
199_L202_R3.4261.00
10_T38_F3.1901.00
154_L158_M2.9421.00
126_W231_A2.8411.00
59_L95_M2.7561.00
65_A80_Y2.7341.00
182_L185_S2.6861.00
65_A79_Y2.6211.00
162_I166_A2.4911.00
26_D29_N2.4111.00
103_Y110_F2.4061.00
154_L157_T2.3851.00
71_H76_I2.3511.00
65_A71_H2.2871.00
242_V246_G2.2661.00
89_T99_P2.2181.00
136_F220_P2.2111.00
182_L186_S2.2061.00
78_L85_Q2.1881.00
199_L203_V2.0901.00
237_P241_A2.0611.00
182_L187_F1.9991.00
185_S189_K1.9901.00
183_R187_F1.9851.00
5_K9_K1.9220.99
72_R75_D1.9150.99
121_K125_G1.8550.99
62_A88_F1.8420.99
69_T104_R1.7470.99
183_R186_S1.7440.99
166_A171_Q1.7170.99
141_D198_S1.7150.99
23_S26_D1.7070.99
73_I76_I1.6830.99
71_H79_Y1.6700.98
151_S155_K1.6440.98
25_E35_K1.6260.98
235_D239_N1.6240.98
45_E117_S1.6160.98
202_R207_A1.6130.98
70_D76_I1.6120.98
197_A202_R1.6060.98
197_A203_V1.6060.98
116_E120_E1.6010.98
202_R206_A1.6000.98
244_S248_Q1.5810.98
202_R205_S1.5790.98
13_W17_H1.5370.97
185_S188_I1.5130.97
201_M204_D1.5110.97
153_Y157_T1.5010.97
12_N115_E1.4950.97
149_K154_L1.4840.97
72_R85_Q1.4720.97
73_I104_R1.4600.96
136_F218_N1.4560.96
197_A201_M1.4500.96
162_I167_T1.4390.96
203_V207_A1.4390.96
74_I85_Q1.4270.96
181_R185_S1.4270.96
162_I165_F1.4220.96
161_D165_F1.4040.96
167_T170_Q1.3590.95
76_I104_R1.3460.94
195_H199_L1.3460.94
178_L185_S1.3420.94
200_W205_S1.3410.94
199_L207_A1.3360.94
166_A169_M1.3320.94
213_F216_M1.3270.94
112_S115_E1.2840.93
131_S224_T1.2820.93
6_A9_K1.2560.92
184_L187_F1.2500.92
200_W203_V1.2460.92
131_S226_N1.2340.91
203_V206_A1.2310.91
197_A200_W1.2100.90
238_E242_V1.2060.90
201_M207_A1.2040.90
201_M205_S1.1940.90
15_E57_R1.1890.90
244_S247_V1.1890.90
198_S202_R1.1830.89
185_S190_T1.1770.89
98_M103_Y1.1720.89
22_I27_I1.1360.87
186_S189_K1.1270.87
84_S90_R1.1240.87
186_S191_K1.1220.87
22_I54_I1.1200.87
135_Q221_I1.1200.87
175_D178_L1.1140.86
90_R94_K1.1140.86
180_K183_R1.1090.86
242_V245_F1.1090.86
14_I27_I1.0930.85
215_N222_T1.0930.85
195_H204_D1.0920.85
56_L95_M1.0910.85
216_M222_T1.0900.85
199_L206_A1.0900.85
70_D73_I1.0870.85
177_Y182_L1.0860.85
175_D180_K1.0860.85
237_P240_S1.0600.84
181_R184_L1.0580.83
199_L204_D1.0420.82
132_H135_Q1.0360.82
2_Y5_K1.0340.82
43_Q50_V1.0290.82
26_D30_V1.0240.81
47_G245_F1.0200.81
243_I246_G1.0180.81
56_L113_K1.0170.81
182_L188_I1.0130.81
199_L205_S1.0110.80
60_A115_E1.0080.80
161_D164_E1.0040.80
237_P247_V1.0000.80
236_V239_N0.9970.80
166_A170_Q0.9960.79
5_K65_A0.9910.79
34_S87_A0.9810.78
134_F220_P0.9770.78
137_E228_N0.9640.77
188_I191_K0.9560.77
138_M205_S0.9550.77
160_Q169_M0.9530.76
177_Y181_R0.9520.76
138_M216_M0.9510.76
161_D166_A0.9500.76
59_L94_K0.9490.76
9_K16_S0.9340.75
177_Y185_S0.9270.74
228_N247_V0.9140.73
163_G168_M0.9090.73
178_L187_F0.9080.73
82_F103_Y0.9040.72
153_Y156_S0.8980.72
187_F190_T0.8980.72
121_K129_S0.8970.72
176_R180_K0.8940.72
14_I17_H0.8920.71
232_I236_V0.8890.71
27_I118_Y0.8890.71
177_Y180_K0.8820.71
181_R187_F0.8790.70
169_M172_F0.8730.70
232_I243_I0.8690.69
59_L89_T0.8680.69
200_W204_D0.8680.69
243_I247_V0.8620.69
75_D129_S0.8570.68
19_H76_I0.8530.68
184_L193_V0.8480.68
178_L182_L0.8460.67
82_F96_Y0.8440.67
150_A241_A0.8380.67
66_L73_I0.8370.67
165_F169_M0.8360.66
234_L237_P0.8320.66
112_S127_V0.8270.66
40_R63_A0.8270.66
243_I248_Q0.8260.66
161_D169_M0.8070.64
24_N27_I0.8000.63
38_F91_T0.7980.63
160_Q165_F0.7960.63
49_S67_L0.7960.63
152_G155_K0.7920.62
18_L61_N0.7910.62
141_D200_W0.7900.62
12_N16_S0.7880.62
149_K158_M0.7840.61
144_N153_Y0.7830.61
70_D78_L0.7800.61
166_A172_F0.7800.61
14_I73_I0.7780.61
138_M207_A0.7740.60
151_S154_L0.7730.60
44_K50_V0.7720.60
200_W207_A0.7710.60
189_K192_G0.7620.59
130_G229_H0.7610.59
168_M172_F0.7600.59
164_E167_T0.7600.59
66_L76_I0.7590.59
38_F75_D0.7590.59
90_R95_M0.7540.58
138_M141_D0.7530.58
14_I21_Q0.7530.58
7_V27_I0.7480.58
149_K156_S0.7420.57
11_I192_G0.7370.57
235_D238_E0.7360.57
87_A96_Y0.7340.56
3_Y41_I0.7340.56
50_V114_K0.7280.56
84_S114_K0.7260.56
219_R244_S0.7250.55
61_N97_H0.7230.55
34_S135_Q0.7230.55
48_M113_K0.7210.55
236_V240_S0.7210.55
188_I194_Q0.7170.55
76_I136_F0.7150.54
179_G214_D0.7150.54
111_T126_W0.7110.54
58_R63_A0.7040.53
195_H200_W0.7040.53
197_A204_D0.7010.53
234_L240_S0.6970.53
168_M225_T0.6970.53
85_Q96_Y0.6950.52
217_S222_T0.6940.52
49_S106_F0.6940.52
245_F248_Q0.6920.52
54_I79_Y0.6910.52
160_Q164_E0.6910.52
39_H46_V0.6900.52
111_T124_K0.6810.51
236_V241_A0.6800.51
196_F206_A0.6800.51
137_E145_V0.6800.51
184_L188_I0.6790.51
41_I248_Q0.6780.51
9_K27_I0.6770.50
23_S105_T0.6760.50
167_T171_Q0.6740.50
178_L186_S0.6720.50
60_A231_A0.6710.50
160_Q168_M0.6680.50
7_V70_D0.6680.50
212_Q215_N0.6660.49
178_L181_R0.6640.49
145_V152_G0.6630.49
165_F171_Q0.6620.49
105_T134_F0.6620.49
48_M56_L0.6590.49
27_I31_S0.6580.48
239_N245_F0.6570.48
234_L239_N0.6540.48
41_I44_K0.6540.48
66_L103_Y0.6530.48
2_Y59_L0.6520.48
162_I171_Q0.6510.48
164_E168_M0.6490.48
46_V50_V0.6470.47
176_R182_L0.6460.47
241_A244_S0.6440.47
47_G83_E0.6410.47
180_K185_S0.6390.47
234_L241_A0.6330.46
241_A246_G0.6320.46
175_D185_S0.6300.46
50_V54_I0.6240.45
67_L106_F0.6240.45
168_M171_Q0.6230.45
178_L184_L0.6210.45
185_S193_V0.6210.45
122_K125_G0.6190.44
13_W30_V0.6150.44
241_A247_V0.6140.44
66_L228_N0.6120.44
163_G166_A0.6100.44
26_D94_K0.6090.43
142_R161_D0.6090.43
164_E170_Q0.6090.43
5_K75_D0.6080.43
176_R185_S0.6080.43
35_K122_K0.6070.43
176_R186_S0.6070.43
58_R86_E0.5980.42
241_A245_F0.5980.42
37_H228_N0.5960.42
22_I26_D0.5940.42
67_L107_M0.5930.42
9_K12_N0.5910.42
27_I38_F0.5890.41
201_M206_A0.5880.41
182_L189_K0.5880.41
195_H206_A0.5870.41
66_L69_T0.5860.41
6_A32_S0.5840.41
45_E132_H0.5840.41
19_H80_Y0.5830.41
22_I64_A0.5810.41
15_E82_F0.5800.40
134_F224_T0.5790.40
153_Y158_M0.5770.40
175_D182_L0.5750.40
151_S156_S0.5730.40
142_R157_T0.5710.40
24_N90_R0.5710.40
240_S244_S0.5690.39
178_L189_K0.5680.39
35_K39_H0.5670.39
37_H86_E0.5660.39
96_Y103_Y0.5660.39
232_I244_S0.5590.38
110_F227_W0.5590.38
13_W207_A0.5580.38
33_F86_E0.5580.38
163_G170_Q0.5570.38
50_V117_S0.5570.38
37_H90_R0.5560.38
152_G156_S0.5550.38
198_S205_S0.5550.38
86_E89_T0.5510.38
37_H40_R0.5510.38
74_I78_L0.5460.37
49_S110_F0.5460.37
239_N243_I0.5460.37
69_T130_G0.5460.37
200_W206_A0.5440.37
233_V247_V0.5410.37
133_P224_T0.5400.36
168_M202_R0.5390.36
179_G186_S0.5390.36
180_K190_T0.5370.36
219_R222_T0.5370.36
49_S233_V0.5360.36
11_I231_A0.5350.36
190_T193_V0.5350.36
180_K186_S0.5340.36
161_D170_Q0.5320.36
196_F207_A0.5320.36
76_I164_E0.5310.36
80_Y222_T0.5280.35
9_K22_I0.5270.35
150_A153_Y0.5260.35
185_S192_G0.5260.35
17_H30_V0.5260.35
33_F103_Y0.5250.35
121_K127_V0.5250.35
73_I79_Y0.5240.35
49_S65_A0.5240.35
32_S133_P0.5220.35
64_A67_L0.5200.35
103_Y108_K0.5190.34
30_V50_V0.5190.34
197_A205_S0.5180.34
63_A96_Y0.5180.34
77_A121_K0.5170.34
119_M126_W0.5150.34
117_S121_K0.5110.34
13_W26_D0.5110.34
186_S190_T0.5110.34
31_S180_K0.5100.34
38_F242_V0.5090.34
55_R96_Y0.5090.34
4_E8_Q0.5080.33
14_I61_N0.5070.33
178_L183_R0.5070.33
61_N96_Y0.5040.33
157_T201_M0.5020.33
71_H75_D0.5000.33
46_V87_A0.5000.33
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 0.9254 100 0.606 Contact Map
3gbgA 1 0.3695 99.9 0.755 Contact Map
4fe7A 2 0.3695 99.9 0.761 Contact Map
3oioA 1 0.3763 99.9 0.764 Contact Map
2k9sA 1 0.3593 99.9 0.765 Contact Map
3mn2A 1 0.3593 99.9 0.765 Contact Map
3w6vA 1 0.3763 99.9 0.765 Contact Map
1bl0A 1 0.3932 99.9 0.768 Contact Map
3lsgA 2 0.3458 99.9 0.768 Contact Map
3oouA 1 0.3559 99.9 0.768 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.

Page generated in 0.0096 seconds.