GREMLIN Database
YCBK - Uncharacterized protein YcbK
UniProt: P0AB06 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13703
Length: 182 (175)
Sequences: 641 (465)
Seq/√Len: 35.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
69_L89_F4.8261.00
61_Y90_D3.2481.00
105_V143_I3.0431.00
132_Y178_P2.9711.00
101_T145_G2.7451.00
114_I134_T2.5911.00
95_L174_I2.5811.00
156_L181_H2.5071.00
55_F90_D2.4971.00
73_F107_L2.4411.00
107_L139_M2.4191.00
88_L176_T2.3400.99
132_Y135_K2.3080.99
38_R55_F2.2370.99
75_D116_T2.0820.99
81_I84_I2.0740.99
152_R165_Y2.0570.99
42_L107_L2.0310.98
25_P30_A2.0250.98
39_I54_E1.9630.98
78_A115_D1.9170.98
124_S127_V1.9070.98
10_K13_A1.8600.97
132_Y137_Q1.8180.97
142_H170_N1.7620.96
141_F174_I1.6800.95
91_Q176_T1.6780.95
57_D62_I1.6760.95
77_R116_T1.6630.95
148_L172_V1.6540.94
39_I52_K1.6120.94
80_K115_D1.5970.93
85_D137_Q1.5880.93
121_R129_K1.5770.93
137_Q176_T1.5340.92
43_N106_Q1.5110.91
56_F59_R1.5060.91
42_L72_F1.5020.91
77_R169_S1.4980.91
49_E74_R1.4780.90
92_L141_F1.4720.90
46_H120_L1.4670.90
94_R160_A1.4540.90
155_A174_I1.4500.89
61_Y66_L1.4240.89
84_I136_G1.3910.87
51_I65_E1.3420.85
121_R124_S1.3240.85
99_L154_A1.3100.84
147_A150_N1.3090.84
85_D176_T1.3080.84
91_Q174_I1.3070.84
152_R156_L1.2980.83
106_Q144_E1.2960.83
46_H76_Y1.2740.82
70_N86_P1.2690.82
46_H152_R1.2610.82
156_L167_P1.2200.79
130_K135_K1.1950.78
53_A69_L1.1880.78
44_N110_G1.1790.77
38_R56_F1.1680.76
40_L89_F1.1390.74
108_I142_H1.1340.74
26_T29_F1.1320.74
118_N134_T1.1300.74
18_A21_A1.1290.74
148_L170_N1.1290.74
92_L174_I1.1280.74
28_A32_L1.1240.73
38_R90_D1.1220.73
26_T30_A1.1220.73
11_L14_L1.1070.72
113_S170_N1.0900.71
120_L127_V1.0840.71
126_G169_S1.0810.70
95_L155_A1.0770.70
47_T171_F1.0750.70
77_R119_E1.0720.70
8_R12_L1.0610.69
26_T32_L1.0590.69
70_N83_S1.0560.69
14_L18_A1.0500.68
160_A174_I1.0430.68
20_G24_L1.0380.67
42_L73_F1.0360.67
50_S104_P1.0350.67
102_R115_D1.0330.67
105_V141_F1.0190.66
44_N76_Y1.0150.66
95_L158_M1.0110.65
27_P31_T1.0100.65
105_V146_I1.0060.65
41_T50_S1.0060.65
52_K80_K0.9970.64
53_A65_E0.9890.63
11_L15_G0.9800.63
143_I146_I0.9790.63
44_N53_A0.9760.62
9_R12_L0.9730.62
20_G23_I0.9700.62
20_G151_I0.9610.61
109_S120_L0.9530.61
91_Q160_A0.9530.61
108_I127_V0.9500.60
14_L19_L0.9460.60
73_F139_M0.9380.59
99_L172_V0.9370.59
149_S153_K0.9340.59
105_V174_I0.9300.59
154_A158_M0.9140.57
79_N125_R0.9060.57
52_K57_D0.8950.56
31_T35_P0.8900.55
21_A149_S0.8830.55
106_Q142_H0.8810.55
95_L141_F0.8790.54
23_I119_E0.8700.54
11_L174_I0.8690.54
51_I69_L0.8650.53
49_E71_H0.8640.53
99_L157_S0.8540.52
119_E169_S0.8470.52
92_L105_V0.8460.52
14_L92_L0.8380.51
15_G20_G0.8320.50
130_K134_T0.8260.50
92_L139_M0.8250.50
148_L167_P0.8240.50
72_F95_L0.8190.49
25_P28_A0.8170.49
163_V171_F0.8140.49
79_N141_F0.7990.48
38_R93_Y0.7960.47
177_G182_W0.7940.47
98_L157_S0.7810.46
111_Y114_I0.7790.46
101_T143_I0.7780.46
84_I119_E0.7780.46
57_D137_Q0.7670.45
38_R75_D0.7670.45
45_L108_I0.7590.44
78_A113_S0.7540.44
109_S129_K0.7530.44
113_S127_V0.7490.43
55_F105_V0.7480.43
94_R157_S0.7440.43
18_A34_T0.7370.42
69_L121_R0.7330.42
123_R168_R0.7320.42
101_T104_P0.7260.41
123_R149_S0.7190.41
11_L17_V0.7170.41
47_T163_V0.7170.41
57_D65_E0.7150.40
46_H77_R0.7100.40
66_L70_N0.7000.39
164_G171_F0.6980.39
161_G177_G0.6960.39
86_P90_D0.6950.39
115_D159_R0.6930.39
10_K35_P0.6920.39
51_I81_I0.6840.38
121_R127_V0.6830.38
24_L149_S0.6820.38
49_E179_A0.6820.38
40_L92_L0.6800.38
81_I134_T0.6780.37
27_P30_A0.6740.37
103_K146_I0.6720.37
96_Q99_L0.6710.37
167_P170_N0.6690.37
30_A169_S0.6690.37
131_S166_Y0.6670.37
112_R131_S0.6670.37
112_R166_Y0.6670.37
157_S160_A0.6650.36
44_N107_L0.6540.35
88_L136_G0.6520.35
14_L17_V0.6520.35
125_R134_T0.6500.35
84_I89_F0.6500.35
29_F32_L0.6450.35
103_K145_G0.6440.35
31_T82_K0.6420.35
11_L20_G0.6410.34
44_N121_R0.6370.34
15_G23_I0.6350.34
67_A84_I0.6330.34
141_F151_I0.6290.34
39_I93_Y0.6280.33
139_M174_I0.6170.33
67_A157_S0.6160.33
119_E122_A0.6150.32
118_N129_K0.6130.32
15_G24_L0.6080.32
109_S115_D0.6050.32
95_L154_A0.6020.31
128_A180_R0.6010.31
46_H108_I0.5990.31
116_T119_E0.5990.31
142_H153_K0.5970.31
62_I81_I0.5940.31
76_Y116_T0.5940.31
124_S129_K0.5940.31
100_G137_Q0.5840.30
16_G72_F0.5820.30
43_N72_F0.5790.30
13_A20_G0.5790.30
47_T79_N0.5770.30
42_L51_I0.5740.29
177_G180_R0.5730.29
123_R152_R0.5720.29
55_F110_G0.5690.29
15_G29_F0.5650.29
76_Y82_K0.5650.29
152_R167_P0.5620.29
47_T76_Y0.5580.28
19_L70_N0.5570.28
57_D60_G0.5560.28
25_P29_F0.5540.28
77_R113_S0.5530.28
19_L22_A0.5530.28
111_Y118_N0.5500.28
17_V22_A0.5500.28
81_I110_G0.5490.28
98_L155_A0.5480.28
54_E65_E0.5480.28
141_F144_E0.5470.28
127_V169_S0.5460.27
115_D167_P0.5440.27
93_Y152_R0.5430.27
72_F110_G0.5430.27
56_F65_E0.5430.27
130_K178_P0.5390.27
89_F94_R0.5360.27
21_A172_V0.5350.27
19_L23_I0.5340.27
145_G180_R0.5320.27
51_I110_G0.5320.27
139_M165_Y0.5290.26
125_R135_K0.5280.26
50_S123_R0.5260.26
105_V145_G0.5260.26
74_R161_G0.5260.26
67_A107_L0.5250.26
73_F92_L0.5220.26
68_K71_H0.5210.26
28_A31_T0.5140.25
17_V25_P0.5140.25
20_G118_N0.5130.25
43_N168_R0.5110.25
100_G146_I0.5100.25
20_G48_G0.5080.25
58_G68_K0.5080.25
159_R167_P0.5070.25
36_R59_R0.5050.25
68_K87_G0.5050.25
96_Q145_G0.5040.25
73_F104_P0.5030.25
48_G169_S0.5010.25
33_S55_F0.5000.24
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  
3n1gB 1 0.7088 100 0.567 Contact Map
3k7iB 1 0.8132 100 0.619 Contact Map
2ibgE 1 0.7527 100 0.626 Contact Map
1lbuA 1 0.9011 99.9 0.701 Contact Map
2mxzA 1 0.5659 99 0.836 Contact Map
2vo9A 1 0.6429 97.9 0.88 Contact Map
4mphA 2 0.7692 97.6 0.889 Contact Map
4murA 2 0.7033 96.6 0.905 Contact Map
4muqA 1 0.7747 95.5 0.913 Contact Map
4ox3A 1 0.8187 94.5 0.918 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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