GREMLIN Database
YCSF - UPF0271 protein YcsF
UniProt: P42963 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 257 (247)
Sequences: 2309 (1582)
Seq/√Len: 100.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
54_A104_L3.3601.00
44_S86_D3.0721.00
27_E56_R3.0241.00
173_S210_Q2.9551.00
173_S212_H2.7941.00
96_S100_K2.7691.00
30_T248_V2.5551.00
66_L118_M2.4431.00
199_K213_D2.4241.00
173_S208_S2.3781.00
208_S212_H2.3321.00
16_A19_I2.3251.00
205_A213_D2.3171.00
93_G97_G2.2781.00
76_N118_M2.2421.00
143_F220_T2.2091.00
46_M95_L2.1521.00
199_K203_E2.1281.00
89_V136_V2.1161.00
123_Q149_E2.0781.00
149_E152_K2.0771.00
96_S136_V2.0691.00
47_R102_E2.0491.00
51_A102_E2.0301.00
141_I162_A2.0281.00
170_T178_T2.0201.00
197_V221_V1.9961.00
165_V218_A1.9871.00
85_Y135_K1.9581.00
85_Y131_K1.9441.00
172_Q179_P1.9061.00
67_P77_M1.8971.00
50_V98_F1.8631.00
170_T184_D1.8191.00
127_D156_R1.7981.00
47_R86_D1.7831.00
71_G75_R1.7821.00
207_K213_D1.7151.00
29_V32_A1.7081.00
5_D31_S1.6811.00
172_Q182_Q1.6621.00
170_T186_L1.6541.00
21_L24_D1.6441.00
60_M104_L1.6311.00
199_K205_A1.6281.00
26_L29_V1.6131.00
38_F90_Y1.6131.00
172_Q176_T1.6121.00
13_S45_V1.6111.00
130_A153_A1.6071.00
238_R242_K1.6051.00
190_D194_V1.5861.00
119_A129_I1.5671.00
172_Q178_T1.5451.00
99_L104_L1.5421.00
223_I234_A1.5401.00
50_V99_L1.5301.00
144_G161_T1.5101.00
193_A233_F1.5041.00
84_A125_L1.4821.00
67_P87_L1.4771.00
121_V176_T1.4751.00
47_R51_A1.4421.00
79_I84_A1.4401.00
162_A219_D1.4061.00
194_V240_Q1.4051.00
179_P182_Q1.4041.00
131_K135_K1.4031.00
144_G151_V1.4021.00
170_T196_Q1.4021.00
205_A215_S1.3911.00
151_V163_N1.3851.00
198_I240_Q1.3820.99
170_T209_Q1.3720.99
199_K207_K1.3700.99
191_D236_K1.3550.99
76_N122_D1.3540.99
5_D30_T1.3230.99
151_V161_T1.3130.99
76_N121_V1.3040.99
92_I136_V1.2950.99
203_E213_D1.2920.99
227_G233_F1.2890.99
127_D157_I1.2730.99
187_I193_A1.2730.99
23_Q52_L1.2730.99
127_D153_A1.2700.99
70_L87_L1.2670.99
118_M125_L1.2670.99
190_D236_K1.2330.99
232_T235_Q1.2280.99
3_Q249_T1.2260.99
26_L56_R1.2250.99
240_Q244_A1.2200.99
149_E153_A1.2150.99
119_A150_L1.2100.99
167_A221_V1.2090.99
110_K222_C1.2050.99
206_V214_V1.1890.98
109_V133_V1.1750.98
50_V60_M1.1720.98
202_K244_A1.1710.98
59_K107_Q1.1480.98
14_F69_L1.1440.98
118_M122_D1.1430.98
90_Y94_A1.1340.98
52_L56_R1.1250.98
79_I87_L1.1210.98
127_D131_K1.1070.98
50_V95_L1.1070.98
153_A156_R1.1060.98
52_L55_E1.0950.97
208_S214_V1.0920.97
242_K248_V1.0900.97
130_A159_L1.0890.97
163_N219_D1.0860.97
108_H143_F1.0810.97
189_S192_A1.0780.97
99_L106_M1.0780.97
44_S83_E1.0680.97
131_K157_I1.0660.97
154_G161_T1.0650.97
48_K52_L1.0600.97
82_E86_D1.0550.97
130_A157_I1.0540.97
239_K243_A1.0530.97
151_V155_E1.0510.97
80_S83_E1.0390.96
144_G150_L1.0390.96
164_E222_C1.0140.96
134_Y157_I1.0140.96
137_D140_L1.0110.96
178_T209_Q1.0100.96
130_A154_G1.0030.96
239_K242_K1.0020.96
38_F87_L1.0020.96
89_V101_A0.9940.95
123_Q153_A0.9880.95
110_K164_E0.9870.95
186_L227_G0.9860.95
4_I201_V0.9820.95
92_I109_V0.9810.95
54_A60_M0.9740.95
197_V201_V0.9700.95
14_F17_Y0.9620.94
198_I202_K0.9540.94
128_A132_A0.9520.94
165_V200_M0.9500.94
191_D195_T0.9490.94
90_Y93_G0.9490.94
160_Q219_D0.9460.94
34_I49_T0.9460.94
143_F162_A0.9390.94
24_D27_E0.9350.94
155_E217_K0.9220.93
51_A55_E0.9220.93
162_A220_T0.9200.93
32_A58_V0.9050.92
23_Q48_K0.8880.92
167_A197_V0.8830.92
105_H137_D0.8760.91
200_M218_A0.8710.91
137_D160_Q0.8590.90
120_A176_T0.8590.90
34_I60_M0.8540.90
65_G77_M0.8490.90
107_Q143_F0.8460.90
133_V159_L0.8450.90
192_A196_Q0.8440.90
28_Y234_A0.8440.90
3_Q247_E0.8430.90
59_K108_H0.8340.89
48_K51_A0.8250.89
123_Q127_D0.8170.88
26_L53_A0.8170.88
169_R180_R0.8160.88
13_S49_T0.8160.88
192_A195_T0.8150.88
123_Q152_K0.8130.88
141_I160_Q0.8110.88
117_N180_R0.8090.88
98_F102_E0.8030.87
11_G49_T0.8030.87
10_L26_L0.8010.87
85_Y89_V0.7910.86
15_G71_G0.7890.86
43_P90_Y0.7830.86
241_L246_I0.7810.86
195_T240_Q0.7780.85
66_L84_A0.7760.85
165_V221_V0.7750.85
130_A134_Y0.7710.85
119_A125_L0.7700.85
108_H141_I0.7700.85
70_L79_I0.7650.84
172_Q209_Q0.7640.84
206_V216_L0.7620.84
81_P128_A0.7620.84
54_A99_L0.7610.84
196_Q200_M0.7580.84
42_D71_G0.7570.84
36_C62_A0.7500.83
146_A163_N0.7490.83
202_K246_I0.7480.83
13_S25_I0.7470.83
155_E163_N0.7460.83
200_M206_V0.7460.83
163_N217_K0.7390.82
17_Y45_V0.7370.82
116_Y166_F0.7320.82
148_S151_V0.7320.82
198_I244_A0.7300.82
111_P129_I0.7290.82
110_K116_Y0.7270.81
235_Q239_K0.7260.81
27_E235_Q0.7250.81
8_C25_I0.7230.81
89_V135_K0.7200.81
67_P70_L0.7200.81
126_S153_A0.7190.81
28_Y238_R0.7150.80
193_A196_Q0.7150.80
28_Y231_L0.7130.80
53_A60_M0.7080.80
111_P116_Y0.7050.79
46_M63_H0.7020.79
188_E229_H0.7020.79
15_G69_L0.7010.79
142_L150_L0.6970.79
84_A87_L0.6960.78
191_D240_Q0.6910.78
19_I63_H0.6900.78
96_S137_D0.6850.77
121_V174_D0.6830.77
145_L166_F0.6780.77
117_N177_L0.6780.77
189_S196_Q0.6750.76
26_L32_A0.6740.76
182_Q209_Q0.6710.76
60_M99_L0.6680.76
116_Y164_E0.6640.75
190_D229_H0.6620.75
117_N120_A0.6620.75
201_V246_I0.6620.75
167_A237_I0.6620.75
10_L32_A0.6610.75
14_F71_G0.6590.75
116_Y144_G0.6580.74
194_V236_K0.6540.74
153_A157_I0.6530.74
117_N179_P0.6530.74
83_E181_S0.6510.74
50_V104_L0.6490.73
117_N169_R0.6490.73
142_L154_G0.6450.73
4_I221_V0.6440.73
100_K105_H0.6410.73
116_Y145_L0.6380.72
120_A148_S0.6330.72
13_S20_G0.6330.72
79_I83_E0.6320.71
14_F42_D0.6310.71
8_C29_V0.6290.71
203_E206_V0.6290.71
28_Y235_Q0.6280.71
177_L180_R0.6240.71
47_R101_A0.6230.70
50_V102_E0.6220.70
84_A88_V0.6210.70
134_Y138_P0.6210.70
14_F70_L0.6200.70
142_L159_L0.6150.69
97_G136_V0.6140.69
89_V132_A0.6100.69
170_T187_I0.6100.69
88_V128_A0.6090.69
110_K166_F0.6080.69
93_G98_F0.6070.68
81_P124_K0.6050.68
100_K136_V0.6050.68
84_A128_A0.6040.68
90_Y97_G0.6040.68
126_S150_L0.6000.68
177_L185_A0.6000.68
7_N110_K0.5980.67
8_C223_I0.5960.67
139_G160_Q0.5940.67
198_I241_L0.5930.67
5_D59_K0.5930.67
67_P79_I0.5920.67
47_R98_F0.5920.67
236_K240_Q0.5890.66
192_A207_K0.5890.66
180_R185_A0.5860.66
166_F222_C0.5850.66
195_T199_K0.5820.65
15_G42_D0.5820.65
7_N222_C0.5810.65
43_P94_A0.5810.65
152_K156_R0.5790.65
169_R179_P0.5790.65
60_M106_M0.5760.64
66_L79_I0.5760.64
194_V233_F0.5740.64
25_I234_A0.5740.64
93_G101_A0.5730.64
32_A53_A0.5730.64
228_A232_T0.5710.64
35_A42_D0.5710.64
94_A97_G0.5700.64
180_R184_D0.5690.63
54_A103_G0.5690.63
231_L234_A0.5690.63
65_G69_L0.5680.63
227_G230_A0.5670.63
178_T182_Q0.5660.63
201_V241_L0.5650.63
25_I28_Y0.5610.62
170_T185_A0.5580.62
92_I96_S0.5540.61
52_L58_V0.5540.61
133_V137_D0.5540.61
38_F43_P0.5530.61
104_L107_Q0.5530.61
150_L154_G0.5530.61
66_L76_N0.5520.61
22_D49_T0.5520.61
238_R248_V0.5510.61
64_P88_V0.5510.61
81_P131_K0.5500.61
152_K155_E0.5490.61
116_Y222_C0.5490.61
15_G19_I0.5460.60
75_R83_E0.5460.60
15_G75_R0.5450.60
49_T197_V0.5440.60
170_T181_S0.5420.60
145_L148_S0.5410.60
232_T239_K0.5400.59
111_P150_L0.5400.59
242_K247_E0.5390.59
89_V96_S0.5380.59
80_S84_A0.5380.59
125_L220_T0.5370.59
240_Q243_A0.5360.59
178_T196_Q0.5330.59
184_D209_Q0.5310.58
132_A136_V0.5300.58
48_K82_E0.5300.58
197_V200_M0.5290.58
42_D45_V0.5290.58
17_Y20_G0.5290.58
50_V63_H0.5280.58
111_P119_A0.5270.58
45_V70_L0.5260.58
8_C225_G0.5250.57
145_L165_V0.5180.56
106_M221_V0.5170.56
6_L223_I0.5150.56
63_H77_M0.5130.56
166_F177_L0.5100.55
82_E85_Y0.5100.55
15_G70_L0.5090.55
11_G35_A0.5080.55
186_L193_A0.5070.55
234_A237_I0.5060.55
10_L28_Y0.5060.55
124_K127_D0.5040.54
201_V215_S0.5010.54
180_R183_P0.5000.54
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  
2dfaA 4 0.9611 100 0.037 Contact Map
1v6tA 4 0.9689 100 0.037 Contact Map
2xu2A 4 0.9261 100 0.061 Contact Map
1xw8A 2 0.8949 100 0.067 Contact Map
2i5iA 4 0.8638 96.3 0.937 Contact Map
4m1bA 1 0.6965 93.3 0.947 Contact Map
2vyoA 1 0.7276 87.4 0.954 Contact Map
1ny1A 1 0.7082 86.6 0.954 Contact Map
3kwsA 2 0.8288 86 0.955 Contact Map
2nlyA 1 0.7938 79.5 0.958 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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