GREMLIN Database
YBGF - Uncharacterized protein YbgF
UniProt: P45955 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12854
Length: 263 (222)
Sequences: 1959 (1661)
Seq/√Len: 111.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
158_R161_D6.9981.00
195_K198_D5.0091.00
232_D235_K4.8311.00
41_R46_E2.9611.00
224_G240_Y2.8711.00
83_Q88_V2.5941.00
183_N202_Y2.5831.00
200_A223_V2.4901.00
190_N198_D2.4731.00
227_M239_V2.3981.00
242_Q246_K2.3021.00
200_A226_I2.2821.00
223_V239_V2.2611.00
69_D74_R2.2411.00
187_G203_F2.2031.00
62_Q67_Q2.1531.00
218_D252_G2.1111.00
188_Q222_K2.0971.00
160_D193_K2.0471.00
143_N147_N2.0271.00
152_L165_A1.9281.00
167_Q186_L1.8901.00
228_Q240_Y1.8841.00
205_S209_N1.8451.00
166_F185_W1.8441.00
186_L223_V1.8331.00
203_F222_K1.8071.00
227_M235_K1.7931.00
206_V219_A1.7381.00
184_Y203_F1.7241.00
142_A176_S1.7231.00
186_L202_Y1.7011.00
27_Q30_I1.7001.00
146_Y150_I1.6911.00
204_A223_V1.6831.00
66_N70_I1.6641.00
163_M193_K1.6591.00
156_K159_Q1.6591.00
146_Y181_N1.6511.00
190_N202_Y1.6471.00
168_N172_N1.5741.00
163_M186_L1.5711.00
226_I230_K1.5631.00
38_V42_V1.5571.00
191_Y196_K1.5471.00
163_M189_L1.5301.00
146_Y149_A1.5301.00
204_A208_K1.4821.00
197_D230_K1.4811.00
170_I182_A1.4631.00
170_I183_N1.4621.00
150_I154_Q1.4241.00
187_G202_Y1.4221.00
237_K241_Q1.3901.00
68_S71_D1.3771.00
250_T256_A1.3281.00
152_L161_D1.2900.99
200_A227_M1.2890.99
90_R94_I1.2880.99
29_P32_S1.2870.99
207_V220_M1.2830.99
223_V227_M1.2810.99
181_N185_W1.2770.99
35_S38_V1.2760.99
184_Y222_K1.2470.99
152_L158_R1.2450.99
148_A152_L1.2370.99
227_M232_D1.2290.99
168_N171_K1.2230.99
146_Y185_W1.2090.99
38_V41_R1.2000.99
244_I253_A1.1900.99
146_Y166_F1.1880.99
222_K225_V1.1850.99
150_I166_F1.1730.99
161_D165_A1.1680.99
169_F176_S1.1610.99
196_K226_I1.1470.99
97_Q101_L1.1410.99
191_Y203_F1.1370.99
186_L190_N1.1230.98
89_E93_Q1.1190.98
95_L99_D1.1190.98
147_N151_A1.1110.98
129_G132_N1.1100.98
42_V46_E1.1010.98
181_N215_K1.1000.98
170_I179_L1.0970.98
43_T47_R1.0900.98
145_D148_A1.0850.98
185_W188_Q1.0830.98
241_Q245_S1.0790.98
254_K257_Q1.0760.98
183_N205_S1.0750.98
107_A111_T1.0670.98
27_Q32_S1.0580.98
49_S52_H1.0570.98
155_D158_R1.0510.98
112_S115_Q1.0460.97
58_Q61_Q1.0430.97
59_L63_L1.0400.97
145_D149_A1.0380.97
185_W215_K1.0240.97
33_V36_G1.0240.97
207_V216_A1.0230.97
167_Q190_N1.0220.97
34_G39_E1.0200.97
252_G256_A1.0190.97
101_L106_A1.0120.97
187_G224_G1.0080.97
126_A129_G1.0050.97
141_N144_T1.0040.97
149_A152_L1.0010.97
142_A149_A0.9940.97
220_M242_Q0.9920.97
205_S208_K0.9830.96
166_F170_I0.9780.96
39_E42_V0.9720.96
82_Y86_Q0.9700.96
180_P206_V0.9660.96
36_G40_D0.9630.96
221_F243_V0.9590.96
45_L50_N0.9530.96
116_S124_P0.9530.96
127_D131_A0.9510.96
35_S46_E0.9510.96
128_A131_A0.9470.95
199_A203_F0.9470.95
37_S41_R0.9410.95
149_A166_F0.9390.95
80_N84_L0.9350.95
77_I80_N0.9350.95
163_M190_N0.9320.95
63_L66_N0.9320.95
200_A230_K0.9260.95
224_G243_V0.9230.95
76_Q79_E0.9220.95
97_Q100_S0.9210.95
45_L49_S0.9060.94
250_T253_A0.8990.94
85_N88_V0.8980.94
35_S39_E0.8970.94
198_D201_Y0.8970.94
84_L87_V0.8940.94
91_Q94_I0.8860.94
221_F225_V0.8790.93
41_R45_L0.8750.93
30_I33_V0.8660.93
183_N220_M0.8640.93
194_G229_D0.8620.93
247_Y250_T0.8560.92
200_A204_A0.8530.92
221_F240_Y0.8410.92
103_S109_Q0.8390.92
181_N184_Y0.8390.92
142_A169_F0.8360.91
29_P33_V0.8310.91
76_Q81_Q0.8280.91
61_Q64_S0.8230.91
220_M239_V0.8220.91
189_L226_I0.8170.90
207_V219_A0.8150.90
66_N69_D0.8110.90
58_Q78_Q0.8110.90
42_V45_L0.8100.90
217_A247_Y0.8080.90
57_T61_Q0.8020.90
235_K238_A0.8000.90
170_I202_Y0.7990.90
93_Q96_L0.7990.90
153_V166_F0.7940.89
34_G38_V0.7920.89
28_A33_V0.7880.89
215_K222_K0.7870.89
113_G116_S0.7850.89
210_Y213_S0.7810.88
249_G257_Q0.7810.88
217_A248_P0.7800.88
167_Q171_K0.7800.88
162_A166_F0.7770.88
188_Q191_Y0.7760.88
44_Q47_R0.7730.88
128_A132_N0.7720.88
204_A235_K0.7670.88
107_A110_S0.7640.87
167_Q198_D0.7630.87
180_P185_W0.7600.87
184_Y188_Q0.7590.87
197_D200_A0.7560.87
69_D72_S0.7480.86
180_P213_S0.7460.86
153_V189_L0.7460.86
220_M243_V0.7440.86
149_A169_F0.7440.86
136_P139_S0.7410.86
103_S106_A0.7330.85
58_Q62_Q0.7320.85
190_N194_G0.7320.85
93_Q100_S0.7320.85
191_Y226_I0.7290.85
151_A155_D0.7240.84
146_Y182_A0.7210.84
209_N214_P0.7200.84
244_I257_Q0.7190.84
34_G37_S0.7170.84
79_E82_Y0.7140.84
126_A131_A0.7130.83
103_S107_A0.7120.83
81_Q84_L0.7080.83
222_K243_V0.7050.83
47_R51_A0.7050.83
215_K218_D0.7010.82
221_F256_A0.7000.82
148_A165_A0.6890.81
173_Y182_A0.6830.81
170_I186_L0.6830.81
44_Q48_I0.6800.80
184_Y218_D0.6780.80
150_I153_V0.6770.80
185_W218_D0.6670.79
64_S68_S0.6650.79
94_I97_Q0.6650.79
109_Q113_G0.6640.79
196_K229_D0.6620.79
144_T234_A0.6600.78
40_D44_Q0.6580.78
196_K230_K0.6570.78
227_M230_K0.6560.78
75_G82_Y0.6550.78
179_L183_N0.6540.78
176_S179_L0.6520.78
110_S113_G0.6510.78
236_A240_Y0.6510.78
164_V168_N0.6510.78
145_D165_A0.6480.77
190_N195_K0.6470.77
251_D255_Q0.6420.77
149_A165_A0.6350.76
189_L193_K0.6330.76
187_G222_K0.6320.75
85_N89_E0.6300.75
81_Q87_V0.6290.75
94_I103_S0.6290.75
130_T133_A0.6220.74
91_Q95_L0.6220.74
40_D43_T0.6220.74
177_T214_P0.6210.74
169_F185_W0.6190.74
197_D201_Y0.6150.73
49_S53_S0.6140.73
38_V49_S0.6140.73
198_D202_Y0.6140.73
187_G199_A0.6130.73
163_M167_Q0.6110.73
240_Y256_A0.6090.73
87_V90_R0.6080.73
125_T128_A0.6040.72
65_D68_S0.6030.72
203_F223_V0.6020.72
188_Q225_V0.6010.72
194_G199_A0.6010.72
63_L76_Q0.5980.71
185_W222_K0.5980.71
169_F206_V0.5970.71
139_S144_T0.5960.71
224_G236_A0.5940.71
238_A242_Q0.5910.70
79_E83_Q0.5900.70
39_E45_L0.5870.70
98_I166_F0.5830.69
167_Q170_I0.5790.69
36_G39_E0.5780.69
40_D46_E0.5780.69
34_G42_V0.5770.69
169_F173_Y0.5760.69
146_Y153_V0.5750.68
148_A151_A0.5740.68
200_A237_K0.5720.68
93_Q97_Q0.5710.68
111_T114_D0.5660.67
208_K242_Q0.5640.67
166_F240_Y0.5640.67
169_F172_N0.5630.67
199_A223_V0.5620.67
39_E46_E0.5610.67
110_S115_Q0.5600.66
167_Q212_K0.5580.66
206_V243_V0.5570.66
224_G239_V0.5560.66
29_P35_S0.5550.66
102_S106_A0.5530.65
78_Q82_Y0.5510.65
191_Y229_D0.5500.65
191_Y222_K0.5480.65
224_G227_M0.5460.64
127_D130_T0.5460.64
208_K211_P0.5460.64
73_L77_I0.5450.64
33_V37_S0.5440.64
46_E49_S0.5430.64
228_Q233_T0.5420.64
33_V41_R0.5420.64
159_Q193_K0.5420.64
83_Q86_Q0.5400.64
94_I98_I0.5380.63
27_Q33_V0.5350.63
145_D152_L0.5340.63
239_V242_Q0.5340.63
99_D102_S0.5330.63
243_V254_K0.5330.63
220_M247_Y0.5310.62
169_F182_A0.5280.62
59_L224_G0.5280.62
216_A247_Y0.5270.62
101_L105_G0.5240.61
37_S40_D0.5240.61
55_L78_Q0.5230.61
206_V209_N0.5180.60
182_A185_W0.5160.60
197_D204_A0.5160.60
243_V257_Q0.5150.60
97_Q102_S0.5110.59
99_D106_A0.5110.59
33_V39_E0.5110.59
202_Y239_V0.5090.59
109_Q115_Q0.5080.59
82_Y89_E0.5070.59
247_Y256_A0.5070.59
210_Y247_Y0.5050.58
96_L102_S0.5040.58
46_E50_N0.5040.58
90_R162_A0.5010.58
88_V92_K0.5000.58
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  
2pziA 1 0.8897 99.8 0.514 Contact Map
1dceA 1 0.673 99.8 0.515 Contact Map
2vsyA 1 0.4449 99.8 0.518 Contact Map
4i2zA 1 0.4601 99.8 0.519 Contact Map
4ja7A 1 0.4563 99.7 0.521 Contact Map
3urzA 1 0.4449 99.7 0.522 Contact Map
3dssA 1 0.6274 99.7 0.523 Contact Map
2xevA 1 0.4601 99.7 0.526 Contact Map
3qkyA 1 0.4753 99.7 0.53 Contact Map
4gywA 2 0.5551 99.7 0.53 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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