GREMLIN Database
YOHD - Inner membrane protein YohD
UniProt: P33366 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12017
Length: 192 (175)
Sequences: 6761 (4795)
Seq/√Len: 362.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
57_Q120_P3.4091.00
40_K43_L3.2651.00
49_A132_F2.7201.00
34_A143_Y2.5331.00
53_M128_I2.4791.00
93_Y122_I2.4781.00
97_I129_L2.4671.00
91_H94_L2.4551.00
57_Q124_L2.4541.00
45_V136_L2.4381.00
175_G179_W2.3501.00
174_V178_W2.3491.00
119_P122_I2.2631.00
176_V180_L2.1781.00
48_V135_A2.1191.00
47_S51_G2.0861.00
41_F140_T2.0021.00
85_Q89_Q1.9411.00
45_V139_T1.9351.00
153_L156_L1.8751.00
68_G85_Q1.8751.00
93_Y126_L1.8501.00
140_T144_A1.8131.00
64_R117_Q1.8091.00
27_T139_T1.7301.00
162_H166_L1.7011.00
30_G44_V1.6791.00
41_F45_V1.6781.00
120_P124_L1.6451.00
173_V177_R1.6221.00
41_F139_T1.6091.00
165_W169_V1.5941.00
94_L98_G1.5851.00
72_R78_Q1.5351.00
61_L65_R1.4851.00
78_Q82_E1.4821.00
82_E86_K1.4731.00
179_W182_R1.4421.00
174_V177_R1.4401.00
159_H162_H1.4391.00
53_M131_A1.4241.00
56_D100_R1.4121.00
43_L47_S1.3861.00
44_V139_T1.3691.00
63_G115_A1.3691.00
10_Y14_A1.3601.00
161_K165_W1.3201.00
34_A41_F1.3201.00
101_F133_A1.3151.00
85_Q116_S1.3131.00
68_G72_R1.2661.00
42_P140_T1.2601.00
61_L120_P1.2441.00
79_D83_R1.2371.00
121_K125_P1.2331.00
99_T109_G1.2271.00
46_L50_L1.2081.00
27_T31_G1.1771.00
42_P46_L1.1741.00
177_R180_L1.1701.00
59_L111_T1.1681.00
170_V174_V1.1681.00
88_I113_I1.1681.00
11_G15_L1.1561.00
177_R181_K1.1511.00
65_R69_K1.1471.00
24_E106_R1.1451.00
71_L81_I1.1371.00
27_T48_V1.1321.00
97_I133_A1.1291.00
178_W181_K1.1041.00
39_L44_V1.1031.00
171_V174_V1.0931.00
178_W182_R1.0741.00
18_G59_L1.0591.00
96_V118_L1.0581.00
45_V140_T1.0571.00
86_K90_R1.0441.00
31_G142_G1.0441.00
49_A53_M1.0421.00
19_S22_E1.0421.00
53_M124_L1.0401.00
127_N131_A1.0341.00
49_A135_A1.0331.00
125_P129_L1.0331.00
9_Q12_Y1.0301.00
9_Q13_A1.0291.00
35_H143_Y1.0211.00
12_Y43_L1.0201.00
45_V49_A1.0161.00
175_G178_W1.0151.00
156_L159_H1.0071.00
48_V139_T1.0071.00
167_I171_V1.0061.00
12_Y16_V1.0061.00
82_E85_Q1.0051.00
180_L183_R1.0001.00
16_V50_L0.9991.00
157_D161_K0.9961.00
7_I11_G0.9881.00
166_L170_V0.9861.00
57_Q61_L0.9851.00
164_V168_L0.9741.00
10_Y13_A0.9711.00
70_L75_S0.9641.00
46_L49_A0.9561.00
31_G139_T0.9541.00
169_V173_V0.9411.00
74_F77_H0.9391.00
16_V54_I0.9331.00
16_V47_S0.9291.00
110_P127_N0.9281.00
56_D127_N0.9271.00
80_K83_R0.9271.00
62_C66_F0.9261.00
121_K124_L0.9091.00
179_W183_R0.9091.00
61_L64_R0.9051.00
52_G131_A0.9041.00
32_V35_H0.8931.00
69_K73_R0.8811.00
157_D160_L0.8801.00
32_V149_I0.8771.00
35_H147_Q0.8701.00
137_I140_T0.8641.00
15_L48_V0.8641.00
43_L46_L0.8621.00
160_L164_V0.8611.00
124_L128_I0.8611.00
163_W166_L0.8361.00
66_F69_K0.8351.00
87_L95_F0.8341.00
8_S12_Y0.8321.00
53_M127_N0.8291.00
133_A136_L0.8281.00
12_Y40_K0.8251.00
106_R134_W0.8171.00
12_Y15_L0.8161.00
176_V179_W0.8151.00
92_P118_L0.8121.00
171_V175_G0.8101.00
100_R106_R0.8071.00
34_A44_V0.8071.00
125_P128_I0.8031.00
94_L126_L0.8021.00
31_G44_V0.7991.00
160_L163_W0.7961.00
163_W167_I0.7951.00
42_P45_V0.7881.00
23_G103_Y0.7881.00
172_L176_V0.7841.00
52_G100_R0.7811.00
50_L54_I0.7811.00
161_K164_V0.7801.00
23_G127_N0.7781.00
29_L33_A0.7701.00
173_V176_V0.7681.00
144_A148_V0.7651.00
34_A139_T0.7651.00
60_Y120_P0.7541.00
86_K89_Q0.7511.00
74_F78_Q0.7451.00
162_H165_W0.7431.00
113_I118_L0.7391.00
141_I144_A0.7371.00
22_E103_Y0.7341.00
21_A107_V0.7291.00
136_L140_T0.7281.00
156_L160_L0.7271.00
102_M105_F0.7271.00
135_A139_T0.7160.99
169_V180_L0.7160.99
8_S13_A0.7120.99
114_G117_Q0.7080.99
145_G148_V0.7030.99
143_Y147_Q0.7030.99
59_L107_V0.7000.99
84_A116_S0.6970.99
132_F136_L0.6910.99
149_I152_W0.6900.99
99_T103_Y0.6900.99
67_G71_L0.6770.99
60_Y114_G0.6760.99
29_L32_V0.6740.99
85_Q117_Q0.6690.99
56_D120_P0.6680.99
168_L171_V0.6680.99
15_L44_V0.6660.99
158_Q161_K0.6660.99
57_Q127_N0.6630.99
80_K84_A0.6630.99
73_R77_H0.6590.99
55_G59_L0.6540.99
95_F98_G0.6540.99
75_S78_Q0.6530.99
28_L32_V0.6520.99
152_W156_L0.6500.99
71_L74_F0.6310.99
30_G39_L0.6310.99
72_R79_D0.6300.99
58_V61_L0.6300.99
52_G134_W0.6240.99
103_Y107_V0.6200.99
70_L76_K0.6160.98
159_H164_V0.6160.98
13_A16_V0.6120.98
16_V51_G0.6110.98
123_F127_N0.6080.98
157_D162_H0.6050.98
54_I58_V0.6050.98
128_I132_F0.5980.98
19_S59_L0.5980.98
95_F109_G0.5970.98
96_V113_I0.5960.98
12_Y39_L0.5890.98
68_G71_L0.5860.98
38_L42_P0.5770.98
177_R183_R0.5760.98
78_Q81_I0.5720.97
71_L115_A0.5680.97
100_R127_N0.5680.97
94_L112_L0.5660.97
103_Y127_N0.5660.97
133_A137_I0.5650.97
24_E130_G0.5650.97
153_L157_D0.5630.97
122_I126_L0.5620.97
23_G123_F0.5620.97
27_T135_A0.5590.97
73_R76_K0.5570.97
150_A153_L0.5570.97
24_E100_R0.5560.97
166_L169_V0.5550.97
8_S11_G0.5540.97
24_E138_F0.5530.97
52_G106_R0.5440.97
66_F70_L0.5430.97
52_G107_V0.5430.97
88_I95_F0.5420.97
31_G138_F0.5380.96
7_I14_A0.5350.96
70_L73_R0.5320.96
6_L10_Y0.5290.96
68_G117_Q0.5250.96
159_H163_W0.5250.96
24_E107_V0.5240.96
52_G55_G0.5230.96
168_L172_L0.5210.96
22_E27_T0.5190.96
107_V138_F0.5160.95
83_R86_K0.5160.95
30_G139_T0.5150.95
129_L132_F0.5140.95
70_L74_F0.5130.95
59_L104_G0.5100.95
111_T115_A0.5070.95
109_G127_N0.5060.95
79_D82_E0.5040.95
60_Y113_I0.5030.95
69_K72_R0.5030.95
35_H38_L0.5000.95
84_A105_F0.5000.95
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  
2l2tA 2 0.224 38.3 0.922 Contact Map
2kluA 1 0.2188 35.1 0.923 Contact Map
2m20A 2 0.1979 29.1 0.927 Contact Map
2micA 2 0.2135 21.7 0.931 Contact Map
2kv5A 1 0.1719 21.5 0.931 Contact Map
3w9iA 3 0.7656 21.2 0.931 Contact Map
2jwaA 2 0.224 19.1 0.933 Contact Map
4dx5A 3 0.8229 18.9 0.933 Contact Map
2ks1B 1 0.224 17 0.934 Contact Map
2gfpA 2 0.9271 15.3 0.936 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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