GREMLIN Database
YGHB - Inner membrane protein YghB
UniProt: P0AA60 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG11824
Length: 219 (190)
Sequences: 6591 (4685)
Seq/√Len: 339.9

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_W150_N3.3821.00
67_D70_P3.0771.00
76_T162_L2.8171.00
204_L208_L2.7981.00
121_H124_L2.5141.00
80_S158_W2.4841.00
72_I166_S2.4711.00
202_A206_G2.4331.00
61_I173_Y2.4301.00
123_L152_R2.3961.00
127_L159_L2.3621.00
199_L203_G2.3401.00
37_F85_L2.3311.00
84_W154_Q2.2961.00
205_L209_F2.2771.00
149_P152_R2.1791.00
107_P110_Y2.1231.00
75_L165_V2.0241.00
74_I78_A2.0091.00
68_F170_S1.9431.00
24_I28_V1.9021.00
115_T119_D1.8951.00
190_T194_I1.8691.00
123_L156_F1.8321.00
72_I169_T1.8051.00
91_R147_G1.7911.00
29_Y67_D1.7241.00
54_L169_T1.6941.00
33_F78_A1.6901.00
36_L78_A1.6761.00
95_N115_T1.6671.00
170_S174_A1.6261.00
57_A71_T1.6221.00
68_F72_I1.6171.00
203_G207_T1.6001.00
150_N154_Q1.5901.00
68_F169_T1.5831.00
37_F81_L1.5641.00
29_Y70_P1.5551.00
88_I92_W1.5461.00
108_A112_Q1.5391.00
32_M75_L1.5201.00
99_V108_A1.4911.00
33_F74_I1.4751.00
124_L128_A1.4631.00
71_T169_T1.4601.00
33_F77_A1.4461.00
61_I68_F1.4331.00
112_Q116_C1.4321.00
131_F163_L1.4291.00
201_T205_L1.4061.00
90_G145_I1.4041.00
208_L211_V1.3831.00
184_H187_Q1.3681.00
88_I150_N1.3601.00
151_R155_F1.3551.00
83_C130_R1.3531.00
27_V31_V1.3431.00
109_K113_R1.3281.00
129_G139_L1.3221.00
182_K186_D1.3051.00
70_P74_I1.2971.00
198_A202_A1.2861.00
80_S161_G1.2851.00
185_E188_V1.2701.00
29_Y74_I1.2571.00
39_E50_G1.2571.00
187_Q191_F1.2491.00
203_G206_G1.2461.00
22_P25_V1.2461.00
126_L148_L1.2391.00
54_L75_L1.2021.00
101_G104_A1.1941.00
69_L170_S1.1721.00
69_L73_A1.1641.00
66_M71_T1.1541.00
80_S154_Q1.1541.00
115_T146_S1.1531.00
191_F195_L1.1201.00
45_A86_S1.0861.00
73_A77_A1.0831.00
189_M193_M1.0821.00
186_D190_T1.0641.00
27_V30_F1.0641.00
206_G210_V1.0511.00
118_F143_A1.0401.00
193_M197_I1.0361.00
98_T111_H1.0311.00
92_W96_T1.0301.00
32_M71_T1.0301.00
84_W88_I1.0201.00
76_T80_S1.0201.00
62_A173_Y1.0201.00
54_L58_G1.0191.00
72_I170_S1.0161.00
28_V31_V1.0131.00
51_D136_R1.0061.00
199_L202_A0.9961.00
155_F159_L0.9921.00
86_S141_T0.9901.00
24_I31_V0.9881.00
127_L163_L0.9861.00
207_T210_V0.9831.00
22_P26_S0.9801.00
200_L204_L0.9801.00
88_I91_R0.9721.00
140_P157_N0.9631.00
205_L208_L0.9581.00
70_P73_A0.9491.00
95_N99_V0.9451.00
58_G169_T0.9401.00
112_Q115_T0.9391.00
163_L166_S0.9381.00
200_L203_G0.9361.00
116_C120_R0.9361.00
157_N161_G0.9301.00
58_G172_G0.9301.00
76_T165_V0.9291.00
72_I76_T0.9281.00
79_A161_G0.9231.00
29_Y66_M0.9221.00
94_G98_T0.9211.00
77_A81_L0.9091.00
101_G106_L0.9081.00
93_L96_T0.9071.00
136_R164_W0.9051.00
103_L106_L0.9021.00
58_G71_T0.8971.00
177_M180_F0.8961.00
114_A146_S0.8951.00
33_F81_L0.8821.00
151_R154_Q0.8781.00
23_H28_V0.8711.00
122_G148_L0.8701.00
102_W108_A0.8701.00
73_A76_T0.8631.00
184_H188_V0.8631.00
26_S30_F0.8491.00
98_T106_L0.8441.00
96_T100_K0.8381.00
110_Y113_R0.8331.00
196_P199_L0.8311.00
83_C157_N0.8311.00
89_Q93_L0.8301.00
32_M57_A0.8271.00
167_V170_S0.8261.00
192_L196_P0.8221.00
69_L72_I0.8211.00
19_L23_H0.8141.00
117_M125_A0.8141.00
206_G209_F0.8141.00
75_L169_T0.8131.00
188_V191_F0.8081.00
79_A130_R0.8021.00
171_F174_A0.7921.00
202_A205_L0.7911.00
193_M196_P0.7911.00
166_S170_S0.7891.00
84_W157_N0.7861.00
38_L46_S0.7841.00
125_A128_A0.7751.00
36_L165_V0.7741.00
154_Q158_W0.7641.00
195_L199_L0.7591.00
80_S157_N0.7581.00
125_A139_L0.7561.00
24_I27_V0.7531.00
101_G108_A0.7531.00
155_F158_W0.7501.00
59_A62_A0.7491.00
40_N130_R0.7461.00
179_P183_R0.7430.99
130_R136_R0.7390.99
40_N44_P0.7370.99
203_G208_L0.7370.99
175_L178_I0.7310.99
93_L97_K0.7290.99
132_L135_V0.7280.99
207_T211_V0.7280.99
83_C150_N0.7280.99
25_V28_V0.7260.99
19_L22_P0.7190.99
57_A66_M0.7150.99
181_V184_H0.7100.99
61_I71_T0.7020.99
191_F194_I0.7020.99
183_R187_Q0.7000.99
47_F134_F0.7000.99
94_G97_K0.6980.99
56_L60_L0.6970.99
86_S137_T0.6920.99
124_L156_F0.6880.99
35_T53_L0.6860.99
56_L59_A0.6850.99
182_K185_E0.6740.99
113_R116_C0.6640.99
87_Y150_N0.6610.99
61_I169_T0.6610.99
59_A178_I0.6570.99
162_L166_S0.6480.99
116_C119_D0.6450.99
54_L165_V0.6430.99
48_L137_T0.6430.99
158_W162_L0.6370.98
28_V66_M0.6310.98
40_N157_N0.6270.98
136_R161_G0.6260.98
133_A137_T0.6220.98
198_A205_L0.6180.98
174_A177_M0.6160.98
51_D160_S0.6160.98
167_V171_F0.6150.98
51_D168_V0.6140.98
38_L45_A0.6100.98
23_H27_V0.6070.98
179_P182_K0.6050.98
143_A148_L0.6030.98
40_N83_C0.6030.98
194_I197_I0.6020.98
144_G147_G0.5940.98
98_T145_I0.5940.98
56_L185_E0.5920.98
36_L75_L0.5920.98
96_T99_V0.5890.97
99_V109_K0.5880.97
85_L88_I0.5840.97
194_I198_A0.5820.97
196_P200_L0.5760.97
50_G133_A0.5730.97
50_G157_N0.5720.97
152_R156_F0.5710.97
163_L167_V0.5680.97
186_D189_M0.5680.97
87_Y144_G0.5670.97
141_T145_I0.5670.97
62_A65_V0.5670.97
130_R157_N0.5640.97
50_G53_L0.5610.97
39_E130_R0.5600.97
201_T204_L0.5570.96
197_I201_T0.5560.96
81_L85_L0.5520.96
21_D60_L0.5520.96
127_L131_F0.5510.96
51_D130_R0.5510.96
101_G107_P0.5500.96
95_N98_T0.5500.96
46_S86_S0.5480.96
180_F183_R0.5480.96
204_L207_T0.5480.96
180_F184_H0.5460.96
165_V169_T0.5410.96
115_T147_G0.5400.96
86_S134_F0.5380.96
117_M121_H0.5380.96
55_I59_A0.5370.96
39_E137_T0.5360.96
39_E157_N0.5360.96
55_I168_V0.5330.95
200_L207_T0.5310.95
20_A28_V0.5280.95
110_Y114_A0.5270.95
100_K103_L0.5260.95
85_L89_Q0.5240.95
97_K100_K0.5200.95
137_T168_V0.5180.95
54_L79_A0.5180.95
102_W105_Q0.5180.95
183_R186_D0.5160.95
32_M74_I0.5150.95
36_L137_T0.5140.94
202_A209_F0.5120.94
195_L198_A0.5110.94
95_N147_G0.5110.94
203_G210_V0.5100.94
68_F166_S0.5080.94
62_A176_S0.5060.94
189_M196_P0.5060.94
129_G143_A0.5050.94
202_A208_L0.5030.94
35_T48_L0.5010.94
93_L100_K0.5010.94
57_A61_I0.5010.94
118_F125_A0.5000.94
40_N140_P0.5000.94
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  
2kluA 1 0.2009 47 0.927 Contact Map
2m20A 2 0.1826 45.8 0.928 Contact Map
2l2tA 2 0.1872 44.2 0.928 Contact Map
2rddB 1 0.1553 30.9 0.934 Contact Map
4dx5A 3 0.8356 30.8 0.934 Contact Map
2ks1B 1 0.2009 23.2 0.938 Contact Map
2jwaA 2 0.2009 20.8 0.939 Contact Map
3w9iA 3 0.7945 18.5 0.941 Contact Map
2kv5A 1 0.1507 17.7 0.941 Contact Map
4q4hB 1 0.8584 17.6 0.941 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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