GREMLIN Database
YLBF - Regulatory protein YlbF
UniProt: O34412 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 149 (143)
Sequences: 291 (238)
Seq/√Len: 19.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
72_E76_K4.7481.00
59_D73_I4.6821.00
101_Q105_D4.5641.00
40_D89_K3.3891.00
46_I87_N3.1320.99
57_Y74_S2.5160.97
43_A89_K2.3620.96
37_L43_A2.3450.96
40_D43_A2.3320.96
43_A46_I2.3170.96
138_C144_C2.3100.96
43_A87_N2.0730.92
30_Y93_F1.9840.90
21_I107_V1.9800.90
6_E101_Q1.9540.90
108_S122_P1.8530.87
40_D87_N1.8360.87
15_Q19_E1.8260.86
62_R67_H1.8260.86
63_F67_H1.8200.86
123_T129_D1.8130.86
56_Q73_I1.7890.85
27_A31_R1.7840.85
139_G144_C1.7800.85
2_Y84_L1.7380.83
34_Y38_Q1.7030.82
102_S106_E1.6710.81
55_E73_I1.6400.79
34_Y112_G1.6250.79
74_S84_L1.6240.79
91_A139_G1.5270.74
99_E143_S1.5110.73
125_N128_F1.4730.71
124_G128_F1.4690.71
24_S120_K1.4580.71
22_L27_A1.4570.71
22_L34_Y1.4480.70
60_V69_D1.4470.70
53_I76_K1.4460.70
56_Q59_D1.3890.67
88_D92_D1.3780.66
95_R99_E1.3420.64
43_A93_F1.3190.63
57_Y73_I1.3160.63
40_D46_I1.2010.55
53_I77_M1.2010.55
9_R44_G1.1830.54
41_E88_D1.1590.53
70_Y120_K1.1460.52
11_Q67_H1.0680.47
50_F107_V1.0680.47
42_E45_R1.0640.47
47_I84_L1.0410.45
115_V119_V1.0300.44
2_Y7_S1.0270.44
15_Q101_Q1.0250.44
10_L111_I1.0210.44
46_I94_K1.0200.44
71_R124_G1.0200.44
5_M18_A1.0190.44
141_G144_C1.0160.43
61_Q117_E1.0120.43
46_I84_L1.0090.43
80_I88_D1.0090.43
118_H145_G1.0010.42
42_E55_E0.9870.42
28_E88_D0.9870.42
71_R94_K0.9830.41
54_K58_E0.9820.41
123_T126_P0.9760.41
19_E115_V0.9540.40
54_K111_I0.9490.39
42_E54_K0.9370.39
12_S128_F0.9300.38
29_N49_S0.9260.38
2_Y34_Y0.9220.38
64_G120_K0.9070.37
30_Y72_E0.8970.36
24_S70_Y0.8930.36
124_G127_Y0.8900.36
109_V112_G0.8880.36
137_G140_S0.8820.35
96_A121_V0.8750.35
31_R34_Y0.8600.34
48_R52_K0.8600.34
70_Y73_I0.8590.34
25_E37_L0.8510.33
57_Y75_R0.8500.33
110_E114_A0.8470.33
78_R105_D0.8460.33
75_R81_K0.8430.33
16_Q88_D0.8430.33
78_R81_K0.8430.33
18_A21_I0.8370.33
74_S78_R0.8370.33
23_Q76_K0.8230.32
47_I51_I0.8190.32
85_D94_K0.8180.32
6_E105_D0.8110.31
58_E61_Q0.8090.31
111_I117_E0.8080.31
60_V73_I0.8070.31
105_D128_F0.7960.30
33_C36_R0.7940.30
59_D67_H0.7900.30
78_R82_R0.7880.30
11_Q15_Q0.7760.29
65_K146_C0.7740.29
14_A120_K0.7720.29
25_E60_V0.7700.29
10_L40_D0.7620.28
73_I94_K0.7620.28
21_I93_F0.7610.28
79_E107_V0.7580.28
30_Y100_L0.7520.28
58_E65_K0.7480.28
29_N96_A0.7450.28
66_Y100_L0.7400.27
78_R125_N0.7340.27
39_E43_A0.7300.27
63_F103_I0.7150.26
37_L118_H0.7070.26
36_R117_E0.7070.26
14_A112_G0.7020.25
53_I100_L0.6980.25
137_G144_C0.6880.25
35_K112_G0.6870.25
35_K113_T0.6870.25
107_V113_T0.6830.24
36_R76_K0.6790.24
60_V81_K0.6770.24
78_R120_K0.6760.24
98_N105_D0.6710.24
64_G67_H0.6670.24
32_N36_R0.6670.24
87_N127_Y0.6660.24
82_R86_L0.6660.24
57_Y61_Q0.6630.24
36_R99_E0.6610.23
130_G134_C0.6610.23
25_E99_E0.6590.23
2_Y119_V0.6570.23
49_S83_E0.6540.23
108_S119_V0.6520.23
41_E45_R0.6510.23
29_N33_C0.6450.23
138_C141_G0.6450.23
75_R135_G0.6420.23
27_A112_G0.6410.23
96_A118_H0.6390.22
112_G140_S0.6390.22
14_A30_Y0.6360.22
25_E47_I0.6350.22
66_Y86_L0.6320.22
124_G129_D0.6270.22
71_R123_T0.6250.22
27_A93_F0.6210.22
82_R85_D0.6120.21
67_H120_K0.6100.21
21_I27_A0.6090.21
67_H122_P0.6080.21
106_E140_S0.6000.21
104_L122_P0.6000.21
24_S78_R0.6000.21
53_I56_Q0.5990.21
84_L145_G0.5980.21
9_R36_R0.5970.21
35_K39_E0.5970.21
15_Q90_V0.5890.20
122_P145_G0.5860.20
60_V78_R0.5840.20
20_M111_I0.5830.20
7_S112_G0.5820.20
37_L42_E0.5800.20
141_G146_C0.5780.20
121_V126_P0.5760.20
65_K125_N0.5740.20
83_E100_L0.5740.20
52_K55_E0.5730.20
11_Q62_R0.5730.20
20_M62_R0.5690.19
15_Q98_N0.5660.19
39_E89_K0.5650.19
6_E118_H0.5640.19
38_Q113_T0.5580.19
77_M99_E0.5540.19
20_M60_V0.5510.19
28_E112_G0.5500.19
2_Y19_E0.5490.19
16_Q110_E0.5480.19
103_I107_V0.5470.19
60_V67_H0.5470.19
30_Y124_G0.5460.19
55_E109_V0.5450.18
34_Y121_V0.5420.18
39_E140_S0.5410.18
63_F97_E0.5400.18
71_R87_N0.5340.18
30_Y119_V0.5330.18
63_F137_G0.5290.18
87_N135_G0.5280.18
108_S139_G0.5270.18
54_K120_K0.5270.18
23_Q88_D0.5210.18
12_S36_R0.5170.17
127_Y130_G0.5170.17
42_E91_A0.5140.17
23_Q109_V0.5130.17
59_D62_R0.5050.17
35_K117_E0.5050.17
104_L121_V0.5040.17
7_S145_G0.5030.17
5_M14_A0.5000.17
92_D111_I0.5000.17
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  
2pihA 2 0.8255 100 0.49 Contact Map
2oeqA 4 0.7919 99.9 0.607 Contact Map
2oeeA 2 0.6242 99.9 0.617 Contact Map
2iazA 4 0.7584 99.9 0.649 Contact Map
1t2yA 1 0.1074 45.9 0.944 Contact Map
4rwuA 1 0.5436 37.7 0.947 Contact Map
4mxpA 1 0.8121 34.3 0.948 Contact Map
2mj3A 1 0.3087 32.9 0.948 Contact Map
1m0jA 1 0.1074 29.7 0.949 Contact Map
1qjlA 1 0.1812 26.2 0.951 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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