GREMLIN Database
YFAD - Uncharacterized protein YfaD
UniProt: P37014 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12323
Length: 299 (282)
Sequences: 2186 (1898)
Seq/√Len: 113.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
256_Q260_Q4.1911.00
246_I250_L3.9871.00
277_Q286_A3.8481.00
255_H261_E3.5781.00
260_Q264_H3.5591.00
274_M287_T3.5191.00
263_M266_Q3.4931.00
242_R246_I3.4781.00
255_H259_W3.3361.00
252_Q260_Q3.2081.00
251_R257_I3.0781.00
277_Q287_T3.0631.00
280_E283_I3.0601.00
257_I261_E2.9911.00
259_W265_E2.9211.00
259_W263_M2.8171.00
256_Q264_H2.8151.00
264_H268_I2.7181.00
254_G258_G2.4581.00
279_F283_I2.3981.00
261_E265_E2.3661.00
252_Q256_Q2.3231.00
258_G262_G2.3101.00
247_A250_L2.2681.00
46_R67_S2.1981.00
250_L254_G2.1871.00
248_E256_Q2.1851.00
285_L292_D2.1711.00
251_R259_W2.1651.00
271_A290_L2.1251.00
291_T294_D2.1141.00
271_A288_T2.0841.00
247_A253_E2.0341.00
270_I274_M2.0331.00
279_F287_T1.9971.00
255_H263_M1.9911.00
274_M277_Q1.9901.00
247_A251_R1.9391.00
244_M250_L1.9371.00
243_L249_R1.9081.00
242_R250_L1.8931.00
238_L242_R1.8511.00
277_Q283_I1.8451.00
292_D296_P1.8421.00
84_Q94_R1.8321.00
273_R289_Q1.8041.00
263_M267_A1.7921.00
273_R277_Q1.7891.00
271_A274_M1.7851.00
266_Q269_K1.7751.00
285_L295_I1.7741.00
284_V295_I1.7021.00
266_Q270_I1.7011.00
274_M278_G1.6971.00
247_A255_H1.6841.00
226_T230_E1.6461.00
262_G266_Q1.6341.00
253_E261_E1.6111.00
283_I287_T1.6111.00
251_R255_H1.5951.00
244_M248_E1.5791.00
282_E292_D1.5681.00
263_M269_K1.5671.00
246_I249_R1.5651.00
25_R29_E1.5621.00
242_R245_T1.5561.00
253_E257_I1.5551.00
245_T250_L1.4881.00
274_M279_F1.4761.00
260_Q268_I1.4501.00
278_G288_T1.4211.00
278_G284_V1.4101.00
158_D161_I1.4001.00
264_H267_A1.3861.00
284_V288_T1.3791.00
271_A289_Q1.3751.00
248_E252_Q1.3591.00
271_A284_V1.3411.00
227_R231_E1.3401.00
249_R257_I1.3181.00
270_I288_T1.3071.00
230_E234_E1.3010.99
84_Q91_M1.2870.99
239_Q242_R1.2680.99
241_E244_M1.2500.99
273_R286_A1.2410.99
212_L216_L1.2260.99
62_S65_L1.2210.99
244_M247_A1.2210.99
91_M94_R1.2200.99
238_L241_E1.1950.99
281_R292_D1.1930.99
283_I286_A1.1880.99
257_I265_E1.1870.99
267_A270_I1.1730.99
96_M100_T1.1690.99
239_Q245_T1.1640.99
256_Q259_W1.1570.99
63_D66_W1.1430.99
268_I272_L1.1290.99
95_L119_P1.1250.99
246_I251_R1.1200.98
60_Y63_D1.1200.98
281_R284_V1.1190.98
239_Q243_L1.1180.98
274_M288_T1.1140.98
281_R291_T1.1110.98
93_F107_Q1.1020.98
273_R287_T1.0990.98
288_T295_I1.0900.98
245_T248_E1.0770.98
279_F285_L1.0740.98
230_E233_A1.0630.98
228_F232_I1.0570.98
285_L288_T1.0570.98
275_L284_V1.0540.98
241_E246_I1.0450.98
163_P166_E1.0410.98
58_R63_D1.0370.97
238_L246_I1.0350.97
281_R295_I1.0200.97
99_A119_P1.0150.97
278_G287_T1.0110.97
243_L247_A1.0110.97
259_W267_A1.0060.97
260_Q263_M1.0010.97
284_V290_L1.0000.97
271_A278_G0.9980.97
274_M283_I0.9970.97
239_Q246_I0.9910.97
21_P25_R0.9870.97
249_R253_E0.9860.97
278_G286_A0.9860.97
240_K243_L0.9850.97
101_A104_Q0.9830.96
252_Q264_H0.9740.96
293_A296_P0.9710.96
243_L246_I0.9640.96
272_L278_G0.9610.96
15_K51_S0.9590.96
278_G283_I0.9530.96
275_L278_G0.9520.96
231_E235_R0.9440.96
176_L180_Q0.9180.95
265_E269_K0.9150.95
278_G295_I0.9150.95
270_I287_T0.9090.95
279_F290_L0.9090.95
251_R254_G0.8980.94
270_I278_G0.8960.94
205_N208_Q0.8960.94
248_E251_R0.8920.94
282_E286_A0.8740.93
281_R285_L0.8670.93
274_M284_V0.8660.93
243_L250_L0.8600.93
11_D15_K0.8590.93
259_W264_H0.8580.93
250_L258_G0.8580.93
286_A289_Q0.8560.93
177_E180_Q0.8550.93
245_T249_R0.8520.92
284_V289_Q0.8500.92
225_F229_I0.8490.92
272_L276_E0.8480.92
227_R230_E0.8480.92
212_L219_C0.8430.92
58_R62_S0.8420.92
248_E260_Q0.8370.92
270_I277_Q0.8360.92
209_L213_F0.8310.92
245_T251_R0.8310.92
264_H294_D0.8310.92
176_L179_I0.8280.91
99_A103_M0.8260.91
275_L295_I0.8250.91
212_L215_Y0.8220.91
229_I233_A0.8170.91
280_E285_L0.8070.90
276_E283_I0.8070.90
278_G285_L0.8060.90
41_N44_T0.8010.90
276_E287_T0.7950.90
270_I273_R0.7930.89
213_F217_L0.7890.89
99_A117_V0.7850.89
257_I260_Q0.7830.89
273_R279_F0.7830.89
14_F83_H0.7810.89
240_K246_I0.7790.89
273_R276_E0.7790.89
242_R247_A0.7780.89
209_L216_L0.7770.89
208_Q212_L0.7750.88
241_E245_T0.7740.88
232_I235_R0.7740.88
113_R141_D0.7740.88
60_Y101_A0.7720.88
63_D73_G0.7690.88
97_R104_Q0.7670.88
215_Y219_C0.7670.88
288_T291_T0.7660.88
62_S66_W0.7660.88
278_G289_Q0.7630.88
85_S124_H0.7620.88
80_V119_P0.7600.87
245_T253_E0.7590.87
279_F288_T0.7580.87
28_L79_C0.7570.87
93_F100_T0.7560.87
274_M295_I0.7540.87
24_A29_E0.7540.87
274_M289_Q0.7520.87
281_R296_P0.7500.87
209_L212_L0.7470.87
47_L66_W0.7460.86
252_Q255_H0.7460.86
63_D68_V0.7450.86
219_C223_S0.7410.86
27_F31_H0.7410.86
239_Q244_M0.7390.86
269_K273_R0.7390.86
166_E169_Q0.7370.86
52_F65_L0.7360.86
133_S138_D0.7310.85
228_F231_E0.7300.85
219_C222_T0.7270.85
174_A178_L0.7260.85
244_M252_Q0.7210.85
251_R261_E0.7200.84
208_Q217_L0.7190.84
217_L220_G0.7170.84
216_L220_G0.7160.84
164_D178_L0.7110.84
135_N138_D0.7100.84
65_L68_V0.7090.84
29_E37_R0.7080.83
29_E36_L0.7060.83
225_F234_E0.7040.83
290_L295_I0.6970.82
250_L253_E0.6970.82
278_G281_R0.6950.82
60_Y65_L0.6880.82
253_E256_Q0.6880.82
52_F102_A0.6860.81
26_D30_I0.6850.81
290_L294_D0.6840.81
225_F235_R0.6830.81
175_L180_Q0.6820.81
80_V117_V0.6820.81
175_L178_L0.6820.81
244_M249_R0.6800.81
118_V155_L0.6790.81
235_R238_L0.6760.81
229_I234_E0.6750.80
27_F32_L0.6740.80
247_A259_W0.6730.80
274_M285_L0.6730.80
136_W142_D0.6680.80
212_L217_L0.6640.79
138_D141_D0.6640.79
246_I254_G0.6630.79
288_T294_D0.6610.79
102_A117_V0.6590.79
227_R232_I0.6590.79
36_L40_C0.6580.79
256_Q268_I0.6550.78
149_L153_A0.6550.78
80_V99_A0.6510.78
255_H258_G0.6500.78
91_M121_L0.6500.78
106_H115_P0.6480.78
192_V195_I0.6470.78
226_T229_I0.6470.78
273_R285_L0.6470.78
21_P44_T0.6420.77
103_M117_V0.6360.76
270_I279_F0.6360.76
286_A290_L0.6350.76
216_L219_C0.6340.76
28_L120_L0.6330.76
135_N151_T0.6310.76
291_T295_I0.6310.76
273_R278_G0.6310.76
225_F228_F0.6290.76
267_A271_A0.6280.75
207_S211_T0.6260.75
276_E280_E0.6250.75
18_M24_A0.6200.75
173_I177_E0.6170.74
68_V71_S0.6170.74
134_L137_L0.6160.74
135_N153_A0.6160.74
228_F233_A0.6160.74
36_L39_L0.6150.74
130_Y133_S0.6140.74
277_Q280_E0.6130.74
213_F219_C0.6120.74
285_L296_P0.6110.73
214_N218_Q0.6080.73
208_Q215_Y0.6080.73
70_T73_G0.6080.73
180_Q183_I0.6070.73
285_L291_T0.6070.73
90_N139_E0.6050.73
277_Q289_Q0.6020.72
95_L121_L0.6020.72
65_L102_A0.6020.72
44_T69_E0.6010.72
189_I192_V0.5990.72
63_D71_S0.5980.72
278_G290_L0.5980.72
244_M260_Q0.5970.72
208_Q219_C0.5950.72
54_E57_L0.5940.71
251_R263_M0.5940.71
258_G266_Q0.5930.71
25_R40_C0.5910.71
228_F235_R0.5910.71
82_E98_Y0.5870.71
240_K244_M0.5860.70
83_H123_Y0.5850.70
187_D190_G0.5840.70
274_M280_E0.5830.70
59_A63_D0.5830.70
254_G262_G0.5820.70
60_Y66_W0.5810.70
273_R296_P0.5810.70
270_I289_Q0.5810.70
178_L181_K0.5780.69
199_L205_N0.5770.69
209_L219_C0.5770.69
217_L221_D0.5730.69
272_L289_Q0.5730.69
96_M150_Y0.5720.69
207_S219_C0.5720.69
226_T231_E0.5710.68
246_I252_Q0.5710.68
215_Y221_D0.5700.68
174_A177_E0.5700.68
277_Q294_D0.5700.68
24_A32_L0.5700.68
15_K23_T0.5690.68
60_Y97_R0.5690.68
212_L222_T0.5680.68
252_Q261_E0.5630.67
202_G205_N0.5630.67
210_Q218_Q0.5620.67
286_A295_I0.5610.67
238_L243_L0.5610.67
292_D295_I0.5610.67
14_F18_M0.5600.67
239_Q250_L0.5590.67
237_P242_R0.5580.67
193_D197_T0.5580.67
62_S80_V0.5560.66
80_V95_L0.5550.66
275_L281_R0.5530.66
58_R66_W0.5520.66
280_E288_T0.5520.66
276_E292_D0.5510.66
125_G158_D0.5510.66
211_T215_Y0.5500.66
283_I292_D0.5500.66
283_I295_I0.5500.66
231_E234_E0.5490.65
47_L50_T0.5490.65
132_Y154_F0.5480.65
265_E268_I0.5480.65
136_W139_E0.5470.65
261_E264_H0.5470.65
284_V294_D0.5460.65
230_E235_R0.5460.65
12_A59_A0.5460.65
31_H120_L0.5450.65
176_L181_K0.5420.64
164_D167_I0.5410.64
208_Q216_L0.5350.63
27_F159_I0.5340.63
273_R283_I0.5330.63
225_F230_E0.5330.63
218_Q222_T0.5310.63
13_V140_F0.5300.63
209_L215_Y0.5300.63
229_I232_I0.5280.62
267_A274_M0.5250.62
254_G257_I0.5250.62
24_A33_P0.5250.62
261_E269_K0.5240.62
237_P241_E0.5220.62
287_T292_D0.5220.62
279_F282_E0.5200.61
137_L141_D0.5200.61
116_L148_Q0.5190.61
137_L151_T0.5180.61
216_L222_T0.5180.61
241_E249_R0.5180.61
267_A273_R0.5170.61
21_P24_A0.5160.61
26_D172_R0.5160.61
213_F223_S0.5150.61
136_W140_F0.5150.61
138_D142_D0.5150.61
279_F286_A0.5150.61
277_Q288_T0.5130.60
272_L287_T0.5130.60
196_T199_L0.5130.60
255_H260_Q0.5100.60
58_R65_L0.5090.60
68_V79_C0.5090.60
264_H269_K0.5080.59
87_A132_Y0.5080.59
99_A154_F0.5060.59
225_F232_I0.5060.59
67_S73_G0.5030.59
238_L244_M0.5030.59
273_R295_I0.5020.59
239_Q247_A0.5020.59
208_Q220_G0.5020.59
18_M81_I0.5010.58
137_L142_D0.5010.58
289_Q294_D0.5000.58
126_E160_T0.5000.58
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  
4dyqA 5 0.1338 63.1 0.936 Contact Map
1jkoC 1 0.1405 31.3 0.948 Contact Map
3e3vA 1 0.3411 29 0.948 Contact Map
2cobA 1 0.1672 24.7 0.95 Contact Map
3c1dA 2 0.3612 24 0.95 Contact Map
3dfgA 1 0.4314 23.6 0.95 Contact Map
2jpcA 1 0.1137 23.5 0.95 Contact Map
1tc3C 1 0.1405 21.4 0.952 Contact Map
3frwA 2 0.2508 18.9 0.953 Contact Map
1jhgA 2 0.2408 13.9 0.955 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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