GREMLIN Database
YKUO - Uncharacterized protein YkuO
UniProt: O34879 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 297 (239)
Sequences: 1033 (958)
Seq/√Len: 62.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
55_L67_S7.9151.00
26_I57_G4.7531.00
69_D73_T3.2181.00
209_F225_L3.1651.00
58_V64_V3.1331.00
53_P70_E3.0541.00
17_Y29_Y3.0171.00
84_T88_I2.9721.00
132_L141_I2.7841.00
109_D113_S2.7661.00
31_L34_G2.7631.00
13_A52_G2.6581.00
107_S111_G2.5771.00
25_G37_K2.3441.00
12_S16_G2.2911.00
18_F67_S2.2861.00
129_I143_T2.1281.00
97_C100_G2.1131.00
51_I54_Y2.1071.00
104_I141_I2.0971.00
169_K175_S2.0501.00
94_G110_F2.0281.00
21_V27_F2.0121.00
188_M191_V1.9691.00
247_Y251_L1.9591.00
96_V99_H1.9461.00
227_E231_I1.9391.00
124_H129_I1.9261.00
153_W164_V1.9141.00
248_Q252_E1.9031.00
54_Y66_R1.8931.00
172_M175_S1.8791.00
84_T87_A1.8651.00
104_I117_A1.8451.00
97_C134_L1.8411.00
54_Y68_A1.8161.00
247_Y252_E1.8161.00
250_D253_A1.8001.00
249_V253_A1.7931.00
245_R250_D1.7771.00
230_G233_Y1.7590.99
48_I57_G1.7430.99
130_R144_Q1.7230.99
173_T214_S1.6840.99
64_V98_A1.6540.99
249_V252_E1.6480.99
35_W74_W1.6220.99
159_R163_Q1.6200.99
103_C124_H1.6120.99
50_Y54_Y1.5950.99
187_A191_V1.5500.99
170_N174_A1.4920.98
191_V195_H1.4810.98
107_S114_W1.4790.98
79_F83_A1.4720.98
248_Q251_L1.4630.98
99_H129_I1.4480.98
91_R95_F1.3790.97
80_P83_A1.3750.97
30_S70_E1.3730.97
36_R72_K1.3720.97
144_Q151_G1.3530.97
247_Y250_D1.3420.97
186_A191_V1.3370.96
125_N139_L1.3190.96
105_Y116_V1.3150.96
47_C58_V1.3110.96
169_K174_A1.2820.96
171_R175_S1.2770.95
196_G200_V1.2740.95
28_H38_L1.2730.95
140_F154_A1.2720.95
43_S59_G1.2640.95
71_G109_D1.2520.95
33_Q36_R1.2500.95
193_G197_A1.2360.95
192_K197_A1.2260.94
243_F246_I1.2240.94
170_N173_T1.2230.94
14_F19_V1.2100.94
97_C159_R1.1960.93
244_S247_Y1.1920.93
251_L254_R1.1830.93
67_S71_G1.1730.93
31_L69_D1.1710.93
230_G234_V1.1540.92
97_C163_Q1.1480.92
35_W114_W1.1390.92
91_R163_Q1.1280.91
30_S36_R1.1210.91
59_G62_G1.1170.91
139_L142_G1.1130.91
10_T29_Y1.0940.90
91_R97_C1.0930.90
180_N188_M1.0900.90
26_I48_I1.0890.90
143_T149_F1.0860.90
188_M192_K1.0860.90
168_E173_T1.0790.89
138_N154_A1.0760.89
29_Y33_Q1.0580.88
109_D115_R1.0560.88
221_S227_E1.0420.88
63_T135_H1.0390.88
51_I93_N1.0390.88
47_C84_T1.0260.87
63_T101_K1.0250.87
221_S233_Y1.0240.87
27_F37_K1.0200.87
166_K173_T1.0150.86
52_G102_H1.0010.85
22_Q25_G0.9980.85
137_G163_Q0.9960.85
18_F55_L0.9940.85
178_V181_E0.9910.85
67_S74_W0.9900.85
227_E243_F0.9870.85
11_A105_Y0.9860.85
29_Y35_W0.9860.85
231_I235_T0.9820.84
12_S52_G0.9750.84
87_A99_H0.9720.84
187_A190_S0.9670.83
238_Q243_F0.9450.82
58_V85_V0.9420.82
245_R249_V0.9390.82
68_A71_G0.9390.82
246_I250_D0.9390.82
20_A45_I0.9370.81
43_S61_K0.9340.81
246_I252_E0.9310.81
185_V191_V0.9280.81
96_V100_G0.9270.81
31_L109_D0.9200.80
45_I59_G0.9170.80
197_A201_R0.9140.80
225_L243_F0.9090.79
244_S251_L0.8990.79
165_V170_N0.8940.78
72_K112_V0.8910.78
19_V27_F0.8910.78
135_H140_F0.8850.78
71_G111_G0.8760.77
107_S112_V0.8740.77
161_T173_T0.8720.77
133_C142_G0.8700.76
131_S144_Q0.8700.76
127_P131_S0.8690.76
95_F106_V0.8670.76
105_Y114_W0.8630.76
250_D254_R0.8630.76
22_Q131_S0.8610.76
188_M193_G0.8510.75
161_T165_V0.8470.74
50_Y56_F0.8460.74
58_V98_A0.8430.74
246_I251_L0.8420.74
242_G251_L0.8400.74
28_H31_L0.8390.74
143_T151_G0.8380.74
22_Q63_T0.8370.74
108_D115_R0.8350.73
45_I198_V0.8340.73
239_D243_F0.8290.73
165_V169_K0.8250.72
15_S30_S0.8220.72
224_D232_I0.8200.72
46_H58_V0.8150.72
100_G103_C0.8110.71
249_V254_R0.7870.69
245_R251_L0.7850.69
200_V203_L0.7830.69
104_I129_I0.7800.68
129_I132_L0.7740.68
62_G143_T0.7740.68
116_V124_H0.7700.67
76_M116_V0.7680.67
69_D107_S0.7680.67
138_N159_R0.7650.67
44_K63_T0.7620.66
186_A190_S0.7610.66
126_P129_I0.7610.66
168_E175_S0.7610.66
226_S237_T0.7610.66
26_I178_V0.7560.66
222_F231_I0.7550.66
184_L191_V0.7540.66
50_Y140_F0.7540.66
60_E63_T0.7500.65
67_S114_W0.7450.65
71_G114_W0.7450.65
77_S94_G0.7450.65
244_S248_Q0.7420.64
90_G107_S0.7410.64
18_F38_L0.7400.64
47_C63_T0.7400.64
190_S193_G0.7370.64
235_T244_S0.7360.64
29_Y32_E0.7310.63
205_N211_I0.7300.63
229_D253_A0.7290.63
91_R137_G0.7280.63
44_K60_E0.7250.63
17_Y130_R0.7250.63
166_K175_S0.7240.62
63_T142_G0.7150.61
72_K93_N0.7140.61
68_A75_T0.7110.61
11_A17_Y0.7070.61
85_V100_G0.7020.60
206_G209_F0.6990.60
178_V186_A0.6960.59
151_G154_A0.6960.59
242_G245_R0.6950.59
139_L155_Y0.6920.59
225_L230_G0.6890.59
28_H53_P0.6880.59
51_I90_G0.6870.58
16_G80_P0.6850.58
210_T213_S0.6850.58
103_C152_I0.6850.58
181_E191_V0.6830.58
162_V165_V0.6820.58
192_K195_H0.6750.57
187_A197_A0.6740.57
75_T112_V0.6730.57
77_S105_Y0.6710.57
76_M144_Q0.6660.56
24_E48_I0.6630.56
60_E142_G0.6630.56
37_K40_R0.6610.55
46_H63_T0.6600.55
36_R129_I0.6590.55
231_I236_T0.6560.55
109_D114_W0.6520.54
117_A155_Y0.6520.54
247_Y253_A0.6520.54
101_K142_G0.6520.54
74_W111_G0.6510.54
105_Y127_P0.6500.54
159_R162_V0.6490.54
61_K64_V0.6410.53
16_G30_S0.6410.53
225_L244_S0.6400.53
248_Q254_R0.6380.53
165_V175_S0.6360.53
67_S120_F0.6320.52
227_E233_Y0.6320.52
35_W107_S0.6270.52
240_E250_D0.6270.52
65_I101_K0.6200.51
103_C149_F0.6180.51
143_T153_W0.6170.50
17_Y46_H0.6170.50
56_F110_F0.6150.50
28_H55_L0.6150.50
117_A162_V0.6150.50
200_V204_L0.6140.50
52_G188_M0.6140.50
239_D247_Y0.6090.50
185_V188_M0.6000.49
89_T95_F0.6000.49
178_V187_A0.6000.49
56_F66_R0.5980.48
232_I235_T0.5970.48
61_K242_G0.5960.48
100_G125_N0.5940.48
14_F68_A0.5940.48
125_N128_V0.5920.48
166_K170_N0.5910.48
170_N175_S0.5900.47
135_H170_N0.5890.47
8_A13_A0.5890.47
47_C61_K0.5880.47
44_K59_G0.5870.47
218_N221_S0.5870.47
202_N206_G0.5840.47
181_E184_L0.5840.47
34_G137_G0.5820.46
218_N235_T0.5810.46
45_I193_G0.5810.46
11_A68_A0.5800.46
66_R112_V0.5790.46
152_I156_D0.5790.46
51_I96_V0.5700.45
238_Q241_N0.5690.45
220_E252_E0.5690.45
55_L69_D0.5680.45
161_T164_V0.5670.45
225_L248_Q0.5650.45
67_S72_K0.5640.44
55_L224_D0.5630.44
10_T31_L0.5630.44
21_V25_G0.5620.44
73_T98_A0.5610.44
83_A105_Y0.5600.44
221_S230_G0.5590.44
242_G248_Q0.5580.44
166_K169_K0.5580.44
244_S249_V0.5570.44
42_K50_Y0.5560.44
72_K113_S0.5560.44
25_G39_F0.5560.44
219_E230_G0.5550.43
99_H104_I0.5550.43
139_L143_T0.5540.43
59_G67_S0.5520.43
85_V98_A0.5520.43
167_K237_T0.5490.43
86_W89_T0.5430.42
200_V206_G0.5420.42
59_G201_R0.5420.42
18_F21_V0.5410.42
22_Q158_K0.5400.42
171_R174_A0.5400.42
22_Q144_Q0.5390.42
85_V155_Y0.5380.42
182_N185_V0.5380.42
18_F28_H0.5370.41
237_T240_E0.5360.41
227_E247_Y0.5350.41
21_V24_E0.5330.41
53_P97_C0.5330.41
133_C136_G0.5320.41
225_L228_D0.5300.41
212_Q220_E0.5290.41
119_P124_H0.5260.40
128_V144_Q0.5250.40
234_V247_Y0.5240.40
225_L251_L0.5230.40
226_S229_D0.5220.40
141_I155_Y0.5190.39
46_H129_I0.5190.39
110_F226_S0.5180.39
242_G246_I0.5180.39
185_V195_H0.5180.39
134_L153_W0.5180.39
185_V197_A0.5180.39
9_V128_V0.5170.39
52_G133_C0.5170.39
87_A107_S0.5170.39
66_R79_F0.5160.39
8_A12_S0.5150.39
166_K171_R0.5150.39
221_S244_S0.5130.39
17_Y232_I0.5130.39
246_I253_A0.5130.39
227_E235_T0.5120.39
165_V171_R0.5110.39
230_G237_T0.5110.39
138_N141_I0.5090.38
92_N95_F0.5090.38
23_R65_I0.5060.38
152_I219_E0.5040.38
190_S197_A0.5020.38
9_V15_S0.5020.38
77_S110_F0.5010.38
227_E254_R0.5000.37
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  
3v9fA 1 0.9596 100 0.444 Contact Map
4a2lA 4 0.9529 100 0.484 Contact Map
3ottA 2 0.9495 100 0.502 Contact Map
3b7fA 1 0.5791 99.8 0.636 Contact Map
3a0fA 1 0.5118 99.7 0.666 Contact Map
4lgnA 1 0.5185 99.5 0.717 Contact Map
2cn3A 1 0.5084 99.5 0.718 Contact Map
1sqjA 2 0.569 99.5 0.722 Contact Map
3wsxA 1 0.9259 99.4 0.745 Contact Map
2xbgA 2 0.5219 99.3 0.747 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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