GREMLIN Database
YBFD - H repeat-associated protein YbfD
UniProt: P28916 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11524
Length: 253 (234)
Sequences: 545 (462)
Seq/√Len: 30.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
195_V206_F6.0371.00
181_A193_F4.0711.00
152_I177_Q3.8921.00
160_N183_K3.6871.00
18_Q21_K3.4031.00
73_T76_R3.2081.00
14_P85_K2.9881.00
183_K187_Q2.8751.00
171_T175_G2.8271.00
33_T74_I2.6201.00
149_S154_A2.6111.00
168_I192_L2.5941.00
25_K28_D2.5470.99
155_I175_G2.5360.99
32_L64_F2.5340.99
105_V170_K2.4680.99
18_Q22_V2.4280.99
104_D133_S2.4120.99
197_G203_N2.3300.99
175_G180_I2.2850.99
112_I127_H2.2490.99
155_I180_I2.2040.98
182_E186_K2.1500.98
55_P59_K2.1080.98
19_A22_V2.0970.98
165_K188_G2.0650.98
184_I189_G2.0420.97
155_I171_T2.0280.97
48_E52_E1.8850.96
106_I131_A1.8850.96
36_A41_A1.8580.96
126_I144_K1.8490.95
203_N207_E1.8470.95
10_I89_S1.8320.95
32_L55_P1.8270.95
156_P180_I1.8100.95
150_N174_M1.8010.95
149_S152_I1.7730.94
71_H75_A1.7410.94
131_A158_L1.7370.94
42_E46_D1.7250.93
44_W78_V1.7190.93
222_S239_I1.7000.93
74_I78_V1.6710.92
195_V200_G1.6660.92
24_H76_R1.6540.92
29_I77_V1.6470.92
33_T78_V1.6270.91
32_L51_G1.5940.90
48_E68_I1.5810.90
13_I30_L1.5790.90
156_P175_G1.5420.89
224_A237_L1.5390.89
13_I66_N1.5350.88
87_H91_I1.5260.88
153_T180_I1.4930.87
51_G68_I1.4830.87
195_V202_L1.4790.86
106_I140_I1.4720.86
6_L10_I1.4660.86
64_F67_G1.4640.86
116_S125_A1.4410.85
149_S174_M1.4080.84
6_L30_L1.3710.82
75_A79_S1.3450.81
106_I189_G1.3360.80
113_H128_V1.3310.80
16_Y80_C1.3160.79
69_P111_K1.3010.78
207_E211_P1.2980.78
226_S233_E1.2930.78
241_C244_P1.2680.77
127_H142_Q1.2540.76
209_K243_V1.2460.75
178_K199_Q1.2390.75
146_D149_S1.2320.74
222_S237_L1.2300.74
32_L74_I1.2290.74
156_P171_T1.2220.74
28_D63_D1.1880.72
177_Q180_I1.1760.71
127_H174_M1.1620.70
116_S123_K1.1590.70
105_V134_T1.1470.69
149_S153_T1.1380.68
209_K241_C1.1380.68
208_E244_P1.1370.68
106_I164_I1.1350.68
33_T37_V1.1330.68
228_K233_E1.1210.67
51_G64_F1.1180.67
36_A47_I1.1130.67
24_H62_G1.1090.66
130_S139_V1.1020.66
10_I13_I1.1000.66
212_L216_N1.0880.65
26_L77_V1.0710.63
116_S126_I1.0590.63
171_T180_I1.0590.63
197_G200_G1.0470.62
141_G158_L1.0410.61
128_V142_Q1.0350.61
171_T193_F1.0350.61
43_G46_D1.0340.61
7_M11_S1.0210.60
31_L57_F1.0190.60
13_I89_S1.0190.60
33_T36_A1.0190.60
164_I169_I1.0190.60
171_T174_M1.0160.59
166_G169_I1.0120.59
162_L169_I0.9860.57
44_W75_A0.9850.57
55_P64_F0.9840.57
154_A180_I0.9650.55
55_P63_D0.9650.55
130_S231_G0.9640.55
86_F90_F0.9610.55
94_M97_Y0.9600.55
58_L61_Y0.9550.55
28_D59_K0.9480.54
13_I81_I0.9450.54
150_N177_Q0.9360.53
6_L34_I0.9250.52
55_P62_G0.9250.52
44_W50_F0.9250.52
145_T149_S0.9220.52
28_D67_G0.9160.51
70_V80_C0.9120.51
115_H124_G0.9050.51
174_M180_I0.9050.51
180_I184_I0.9030.50
41_A46_D0.8980.50
179_D182_E0.8950.50
224_A235_T0.8930.50
31_L61_Y0.8900.49
109_D151_E0.8850.49
156_P174_M0.8850.49
166_G188_G0.8640.47
153_T177_Q0.8520.46
45_E75_A0.8410.46
108_I131_A0.8370.45
141_G155_I0.8310.45
45_E71_H0.8280.44
108_I155_I0.8130.43
147_K225_I0.8050.43
47_I135_M0.8020.42
64_F74_I0.7980.42
18_Q74_I0.7980.42
149_S156_P0.7970.42
29_I32_L0.7950.42
192_L238_H0.7930.42
111_K115_H0.7930.42
38_I181_A0.7920.42
35_C102_D0.7910.42
33_T41_A0.7870.41
226_S235_T0.7840.41
86_F188_G0.7830.41
44_W93_W0.7820.41
135_M160_N0.7800.41
50_F200_G0.7800.41
112_I125_A0.7770.41
52_E56_D0.7760.40
38_I58_L0.7750.40
85_K189_G0.7730.40
41_A47_I0.7700.40
28_D65_E0.7670.40
81_I86_F0.7650.40
160_N182_E0.7650.40
58_L68_I0.7630.39
31_L64_F0.7630.39
185_Q188_G0.7600.39
84_A87_H0.7560.39
190_D202_L0.7550.39
225_I233_E0.7530.39
47_I112_I0.7500.38
170_K192_L0.7480.38
54_H68_I0.7460.38
129_I149_S0.7450.38
199_Q231_G0.7420.38
59_K65_E0.7400.38
11_S182_E0.7390.38
48_E71_H0.7380.38
208_E224_A0.7350.37
50_F137_S0.7320.37
99_S129_I0.7300.37
46_D49_D0.7180.36
172_D196_K0.7170.36
160_N187_Q0.7150.36
211_P241_C0.7130.36
31_L65_E0.7120.36
144_K149_S0.7110.36
205_A209_K0.7100.35
88_E92_N0.7100.35
87_H92_N0.7080.35
153_T175_G0.7000.35
46_D50_F0.6990.35
93_W127_H0.6990.35
90_F232_R0.6980.35
153_T156_P0.6940.34
224_A239_I0.6940.34
59_K63_D0.6940.34
112_I116_S0.6920.34
209_K212_L0.6890.34
31_L62_G0.6860.34
9_H43_G0.6860.34
5_K137_S0.6810.33
87_H128_V0.6780.33
177_Q206_F0.6770.33
24_H32_L0.6770.33
21_K145_T0.6770.33
235_T239_I0.6720.33
195_V211_P0.6710.33
35_C168_I0.6700.33
176_C231_G0.6670.32
176_C195_V0.6620.32
160_N164_I0.6620.32
150_N180_I0.6610.32
113_H240_V0.6580.32
177_Q183_K0.6550.32
36_A87_H0.6540.32
106_I141_G0.6530.31
13_I206_F0.6530.31
88_E189_G0.6500.31
162_L187_Q0.6490.31
42_E125_A0.6460.31
160_N227_E0.6450.31
35_C86_F0.6320.30
103_K128_V0.6320.30
19_A145_T0.6320.30
81_I185_Q0.6310.30
10_I195_V0.6290.30
83_P191_Y0.6290.30
176_C193_F0.6290.30
23_E34_I0.6280.30
128_V139_V0.6280.30
51_G55_P0.6270.30
43_G205_A0.6260.30
124_G135_M0.6230.29
89_S200_G0.6220.29
14_P40_G0.6210.29
28_D64_F0.6200.29
84_A145_T0.6190.29
144_K154_A0.6180.29
32_L47_I0.6130.29
101_D128_V0.6120.29
55_P65_E0.6100.29
90_F94_M0.6090.29
36_A51_G0.6090.29
174_M177_Q0.6080.28
201_R204_K0.6080.28
152_I180_I0.6070.28
23_E27_S0.6070.28
8_E203_N0.6060.28
59_K80_C0.6060.28
81_I184_I0.6050.28
24_H233_E0.6050.28
62_G159_L0.6050.28
229_S234_E0.6050.28
24_H66_N0.6030.28
164_I215_L0.6030.28
8_E163_D0.6030.28
112_I194_A0.6000.28
169_I207_E0.6000.28
127_H150_N0.5990.28
239_I244_P0.5960.28
127_H190_D0.5950.28
127_H159_L0.5950.28
51_G78_V0.5940.28
74_I129_I0.5930.27
106_I183_K0.5910.27
17_R36_A0.5910.27
5_K8_E0.5890.27
100_S104_D0.5880.27
9_H89_S0.5870.27
56_D124_G0.5870.27
85_K119_K0.5840.27
164_I188_G0.5800.27
25_K65_E0.5800.27
155_I190_D0.5790.27
176_C194_A0.5780.27
73_T176_C0.5780.27
111_K236_R0.5770.26
87_H238_H0.5770.26
29_I242_D0.5770.26
72_D90_F0.5760.26
98_H104_D0.5760.26
129_I199_Q0.5750.26
58_L67_G0.5740.26
205_A241_C0.5730.26
24_H28_D0.5700.26
84_A95_L0.5700.26
50_F99_S0.5690.26
59_K126_I0.5680.26
149_S158_L0.5660.26
56_D104_D0.5650.26
41_A74_I0.5570.25
128_V216_N0.5560.25
5_K160_N0.5550.25
145_T205_A0.5530.25
38_I89_S0.5520.25
233_E237_L0.5480.25
24_H29_I0.5470.25
194_A240_V0.5460.25
64_F70_V0.5450.25
81_I161_M0.5440.24
30_L146_D0.5380.24
129_I155_I0.5370.24
105_V167_K0.5360.24
200_G206_F0.5350.24
30_L167_K0.5330.24
208_E242_D0.5330.24
13_I86_F0.5320.24
160_N201_R0.5270.24
229_S232_R0.5260.23
39_S205_A0.5250.23
133_S155_I0.5220.23
205_A208_E0.5220.23
97_Y138_L0.5210.23
113_H124_G0.5200.23
235_T244_P0.5190.23
35_C170_K0.5180.23
153_T197_G0.5180.23
7_M14_P0.5180.23
176_C216_N0.5160.23
7_M10_I0.5160.23
51_G111_K0.5160.23
119_K123_K0.5150.23
115_H125_A0.5140.23
52_E143_I0.5140.23
191_Y196_K0.5130.23
25_K29_I0.5130.23
159_L183_K0.5130.23
81_I138_L0.5110.23
144_K191_Y0.5100.23
47_I107_A0.5100.23
90_F142_Q0.5100.23
152_I174_M0.5100.23
155_I174_M0.5090.22
179_D201_R0.5080.22
104_D189_G0.5080.22
109_D172_D0.5080.22
31_L44_W0.5040.22
14_P215_L0.5030.22
203_N241_C0.5030.22
210_F241_C0.5020.22
10_I21_K0.5020.22
49_D53_T0.5020.22
157_E180_I0.5020.22
112_I169_I0.5010.22
138_L186_K0.5000.22
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  
1musA 2 0.8933 85.2 0.944 Contact Map
1iufA 1 0.4348 17.7 0.966 Contact Map
3us6A 1 0.5494 16.8 0.966 Contact Map
2abkA 1 0.5336 16.3 0.966 Contact Map
4eukB 1 0.5652 14.6 0.967 Contact Map
1ornA 1 0.5375 14 0.967 Contact Map
1s69A 1 0.4743 13.2 0.968 Contact Map
4u7bA 2 0.8814 12 0.968 Contact Map
1lvaA 1 0.8617 11.9 0.968 Contact Map
4kl5A 2 0.3123 10.3 0.969 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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