GREMLIN Database
BAMD - Outer membrane protein assembly factor BamD
UniProt: P0AC02 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14222
Length: 245 (186)
Sequences: 14078 (12518)
Seq/√Len: 917.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
84_D87_L3.5961.00
227_M230_Q3.5861.00
139_H142_A3.3891.00
47_N50_Q3.2911.00
190_A193_A2.9921.00
76_I92_I2.8941.00
35_I54_Q2.7561.00
39_A55_L2.7531.00
219_E235_A2.5751.00
55_L74_D2.4481.00
72_Q91_A2.4111.00
56_E75_L2.3031.00
38_T54_Q2.2121.00
79_Y91_A2.2071.00
215_L234_V2.1591.00
42_K50_Q2.1141.00
75_L91_A2.0911.00
198_V217_L2.0571.00
178_E197_R2.0291.00
93_D112_R2.0231.00
199_E218_M1.9691.00
182_A198_V1.9671.00
42_K54_Q1.9151.00
79_Y87_L1.9031.00
92_I111_M1.8441.00
89_Q93_D1.7361.00
79_Y84_D1.6661.00
195_V222_Y1.6491.00
218_M222_Y1.6431.00
52_I79_Y1.5821.00
195_V199_E1.5641.00
52_I56_E1.5321.00
195_V225_M1.4911.00
38_T42_K1.4881.00
112_R116_N1.4861.00
232_E236_K1.4861.00
35_I57_A1.4611.00
42_K47_N1.4601.00
144_F148_S1.4581.00
222_Y230_Q1.4541.00
218_M234_V1.4341.00
181_V197_R1.4171.00
201_M214_A1.3531.00
222_Y234_V1.3501.00
195_V218_M1.3431.00
95_F108_V1.3371.00
215_L237_I1.3351.00
75_L79_Y1.3341.00
185_Y193_A1.3321.00
58_L71_V1.3311.00
185_Y197_R1.3291.00
89_Q116_N1.3271.00
96_I109_M1.3081.00
52_I82_N1.3061.00
32_P58_L1.3051.00
41_Q45_D1.3041.00
183_E217_L1.2991.00
59_D71_V1.2871.00
36_Y40_Q1.2131.00
222_Y227_M1.1951.00
73_L77_Y1.1901.00
219_E231_A1.1871.00
52_I78_A1.1801.00
89_Q112_R1.1751.00
40_Q74_D1.1741.00
52_I75_L1.1611.00
186_T217_L1.1471.00
230_Q233_K1.1391.00
50_Q53_T1.1241.00
147_F163_A1.1241.00
142_A145_S1.1191.00
74_D77_Y1.1151.00
202_L215_L1.0981.00
146_D149_K1.0891.00
219_E238_I1.0891.00
54_Q57_A1.0851.00
76_I95_F1.0841.00
181_V185_Y1.0811.00
164_T168_V1.0771.00
195_V221_A1.0651.00
49_R82_N1.0611.00
223_R231_A1.0571.00
178_E200_G1.0541.00
72_Q94_R1.0541.00
110_Y114_L1.0481.00
59_D72_Q1.0481.00
39_A58_L1.0451.00
215_L238_I1.0151.00
221_A225_M1.0081.00
217_L220_N1.0041.00
182_A194_V1.0041.00
36_Y74_D0.9961.00
69_Q95_F0.9941.00
192_V225_M0.9931.00
186_T221_A0.9891.00
109_M146_D0.9851.00
78_A82_N0.9841.00
150_L160_T0.9781.00
80_Y111_M0.9661.00
193_A197_R0.9591.00
205_Y208_T0.9541.00
72_Q95_F0.9501.00
87_L90_A0.9491.00
179_Y217_L0.9471.00
182_A201_M0.9371.00
91_A94_R0.9351.00
76_I88_A0.9291.00
35_I58_L0.9241.00
202_L218_M0.9231.00
223_R228_N0.9231.00
216_P220_N0.9181.00
197_R200_G0.9161.00
48_W78_A0.9101.00
94_R98_L0.9061.00
43_L78_A0.9001.00
77_Y111_M0.8981.00
113_G147_F0.8911.00
157_S160_T0.8901.00
202_L214_A0.8881.00
43_L74_D0.8871.00
116_N146_D0.8861.00
148_S164_T0.8711.00
180_S183_E0.8671.00
112_R146_D0.8651.00
73_L108_V0.8641.00
96_I108_V0.8641.00
99_N102_H0.8621.00
142_A146_D0.8621.00
199_E230_Q0.8571.00
185_Y190_A0.8531.00
36_Y71_V0.8501.00
77_Y92_I0.8491.00
40_Q55_L0.8451.00
150_L153_G0.8371.00
183_E186_T0.8361.00
165_K169_F0.8331.00
80_Y92_I0.8291.00
149_K153_G0.8271.00
149_K152_R0.8261.00
40_Q44_Q0.8211.00
43_L55_L0.8201.00
37_A40_Q0.8181.00
111_M114_L0.8091.00
51_A55_L0.8091.00
162_D165_K0.8041.00
114_L118_A0.7981.00
40_Q43_L0.7951.00
89_Q115_T0.7921.00
80_Y118_A0.7871.00
184_Y188_R0.7851.00
179_Y183_E0.7821.00
53_T57_A0.7771.00
39_A51_A0.7741.00
59_D75_L0.7701.00
58_L61_R0.7691.00
43_L48_W0.7671.00
102_H108_V0.7671.00
200_G204_D0.7661.00
193_A196_N0.7661.00
80_Y115_T0.7581.00
35_I61_R0.7571.00
191_W221_A0.7551.00
36_Y58_L0.7491.00
154_Y157_S0.7481.00
223_R235_A0.7471.00
165_K168_V0.7461.00
191_W225_M0.7371.00
28_P31_P0.7321.00
48_W82_N0.7321.00
148_S152_R0.7301.00
92_I115_T0.7291.00
57_A60_N0.7251.00
110_Y113_G0.7221.00
173_R176_K0.7201.00
200_G203_R0.7141.00
183_E187_E0.7141.00
94_R97_R0.7111.00
191_W224_Q0.7111.00
146_D150_L0.7101.00
186_T224_Q0.7061.00
80_Y85_L0.7001.00
195_V227_M0.7001.00
73_L111_M0.6991.00
150_L154_Y0.6981.00
62_Y65_G0.6951.00
234_V237_I0.6941.00
56_E87_L0.6931.00
174_L177_Y0.6911.00
34_E38_T0.6891.00
48_W81_K0.6891.00
144_F168_V0.6791.00
220_N224_Q0.6791.00
228_N232_E0.6771.00
194_V221_A0.6771.00
80_Y88_A0.6691.00
163_A166_R0.6681.00
201_M204_D0.6671.00
85_L115_T0.6641.00
191_W195_V0.6641.00
178_E204_D0.6641.00
55_L58_L0.6621.00
114_L117_M0.6621.00
89_Q137_P0.6591.00
168_V173_R0.6521.00
54_Q58_L0.6511.00
55_L78_A0.6501.00
53_T56_E0.6501.00
93_D97_R0.6461.00
38_T41_Q0.6431.00
77_Y81_K0.6411.00
145_S148_S0.6411.00
48_W52_I0.6321.00
212_R238_I0.6321.00
43_L51_A0.6311.00
57_A61_R0.6301.00
186_T191_W0.6301.00
198_V218_M0.6291.00
102_H107_Y0.6281.00
55_L75_L0.6281.00
70_Q74_D0.6271.00
198_V221_A0.6271.00
185_Y188_R0.6261.00
212_R216_P0.6251.00
87_L91_A0.6251.00
236_K239_A0.6211.00
79_Y82_N0.6171.00
31_P34_E0.6171.00
50_Q54_Q0.6141.00
196_N199_E0.6111.00
77_Y80_Y0.6091.00
233_K237_I0.6051.00
199_E222_Y0.6041.00
73_L95_F0.5981.00
236_K240_A0.5981.00
72_Q98_L0.5951.00
186_T194_V0.5951.00
85_L118_A0.5921.00
229_A233_K0.5871.00
91_A95_F0.5861.00
192_V195_V0.5851.00
86_P90_A0.5841.00
235_A239_A0.5801.00
145_S149_K0.5771.00
52_I84_D0.5741.00
144_F171_K0.5731.00
116_N142_A0.5701.00
222_Y225_M0.5681.00
182_A186_T0.5661.00
168_V171_K0.5651.00
56_E59_D0.5601.00
201_M208_T0.5601.00
85_L89_Q0.5581.00
179_Y182_A0.5581.00
162_D166_R0.5501.00
192_V196_N0.5411.00
178_E201_M0.5391.00
143_A147_F0.5341.00
212_R219_E0.5291.00
35_I38_T0.5291.00
88_A92_I0.5271.00
165_K172_D0.5271.00
34_E41_Q0.5261.00
140_A144_F0.5261.00
49_R52_I0.5231.00
69_Q99_N0.5211.00
96_I112_R0.5171.00
43_L81_K0.5161.00
234_V238_I0.5151.00
147_F151_V0.5141.00
219_E234_V0.5121.00
141_R145_S0.5111.00
92_I112_R0.5091.00
32_P65_G0.5071.00
216_P238_I0.5051.00
229_A232_E0.5041.00
237_I240_A0.5031.00
168_V172_D0.5031.00
148_S151_V0.5021.00
231_A235_A0.5001.00
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  
3qkyA 1 0.849 99.9 0.31 Contact Map
1w3bA 2 0.9633 99.9 0.34 Contact Map
2yhcA 1 0.8204 99.9 0.345 Contact Map
3q7aA 1 0.9306 99.9 0.356 Contact Map
3dssA 1 0.9388 99.9 0.363 Contact Map
4ui9J 2 0.8898 99.9 0.363 Contact Map
1dceA 1 0.8776 99.9 0.368 Contact Map
4ui9C 2 0.8898 99.9 0.369 Contact Map
4gywA 2 0.7061 99.9 0.369 Contact Map
4l9pA 1 0.9347 99.9 0.37 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.

Page generated in 0.0091 seconds.