GREMLIN Database
YAGU - Inner membrane protein YagU
UniProt: P0AAA1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13560
Length: 204 (159)
Sequences: 178 (101)
Seq/√Len: 8.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
137_A169_I5.4061.00
129_L134_L4.1040.98
81_W153_L4.0550.98
137_A173_L2.6790.81
71_L89_A2.6750.81
140_Q145_M2.5130.76
180_E183_R2.3350.70
185_D189_R2.2200.66
121_A128_K2.1810.65
180_E184_R2.0650.60
143_V147_S1.9500.56
105_T135_A1.9420.55
128_K188_N1.9060.54
126_K129_L1.8460.52
75_Y103_G1.8400.51
135_A176_F1.8380.51
131_Q177_W1.8280.51
148_F174_V1.8280.51
156_P159_D1.8170.50
162_W166_V1.7890.49
125_P128_K1.7030.46
118_C183_R1.6900.45
68_R72_N1.6630.44
118_C131_Q1.6610.44
95_A163_Y1.5990.41
128_K189_R1.5960.41
84_L87_P1.5640.40
164_E172_H1.5590.40
71_L75_Y1.5380.39
180_E187_R1.5140.38
37_V94_F1.5020.38
27_V181_I1.4970.37
185_D188_N1.4940.37
17_A115_V1.4440.35
93_T98_V1.4380.35
141_L146_I1.3930.34
154_T160_L1.3870.33
75_Y107_I1.3840.33
9_P12_R1.3780.33
9_P15_G1.3570.32
39_L90_A1.3420.32
126_K141_L1.3360.31
16_L20_I1.3320.31
75_Y89_A1.3300.31
168_E171_G1.3150.31
167_S171_G1.3150.31
122_E183_R1.3120.31
116_G120_V1.3000.30
107_I153_L1.2890.30
148_F154_T1.2860.30
119_V186_L1.2700.29
23_I138_L1.2330.28
133_L173_L1.2300.28
27_V182_I1.2150.27
128_K185_D1.2040.27
122_E128_K1.2040.27
27_V152_G1.1950.27
71_L103_G1.1920.27
184_R188_N1.1880.26
155_P161_P1.1870.26
84_L115_V1.1850.26
26_V96_G1.1590.26
126_K134_L1.1580.26
27_V110_S1.1530.25
128_K187_R1.1310.25
114_A143_V1.1230.24
143_V176_F1.1180.24
77_F154_T1.1160.24
14_Y123_V1.1120.24
114_A179_I1.1110.24
72_N75_Y1.1080.24
138_L142_F1.0930.24
92_Y110_S1.0700.23
161_P164_E1.0650.23
160_L165_N1.0580.23
121_A187_R1.0500.22
152_G186_L1.0250.22
129_L146_I1.0060.21
116_G135_A0.9990.21
111_I166_V0.9950.21
183_R187_R0.9880.21
118_C121_A0.9880.21
92_Y102_V0.9780.20
137_A170_F0.9670.20
12_R15_G0.9610.20
28_S114_A0.9580.20
137_A179_I0.9570.20
145_M169_I0.9540.20
135_A139_A0.9500.20
33_W103_G0.9470.20
17_A187_R0.9420.19
177_W186_L0.9400.19
140_Q165_N0.9340.19
106_H144_H0.9340.19
134_L139_A0.9320.19
91_V100_N0.9210.19
179_I190_I0.9140.19
42_R109_F0.9120.19
16_L19_F0.9070.18
122_E187_R0.9030.18
44_P86_D0.8950.18
31_V175_W0.8910.18
72_N160_L0.8870.18
73_P144_H0.8750.18
73_P106_H0.8750.18
35_A140_Q0.8750.18
112_V119_V0.8730.18
22_L126_K0.8600.17
32_K42_R0.8470.17
116_G127_I0.8450.17
27_V97_H0.8430.17
120_V138_L0.8420.17
35_A75_Y0.8410.17
113_F172_H0.8380.17
9_P13_R0.8360.17
74_P106_H0.8240.17
74_P144_H0.8240.17
35_A154_T0.8220.16
76_I79_R0.8210.16
148_F151_M0.8100.16
42_R73_P0.8090.16
45_V139_A0.8010.16
89_A103_G0.7990.16
68_R165_N0.7960.16
77_F153_L0.7930.16
89_A107_I0.7900.16
111_I141_L0.7870.16
112_V118_C0.7870.16
137_A142_F0.7720.15
81_W165_N0.7690.15
42_R74_P0.7670.15
71_L88_N0.7630.15
184_R189_R0.7610.15
18_A115_V0.7610.15
33_W38_P0.7600.15
99_F135_A0.7520.15
144_H168_E0.7500.15
144_H167_S0.7500.15
106_H167_S0.7500.15
106_H168_E0.7500.15
39_L124_F0.7480.15
112_V150_L0.7470.15
78_L85_T0.7420.15
27_V178_S0.7360.15
74_P171_G0.7350.15
150_L159_D0.7340.15
69_N97_H0.7230.14
23_I121_A0.7200.14
23_I120_V0.7110.14
91_V163_Y0.7050.14
72_N165_N0.7040.14
145_M157_L0.7020.14
17_A20_I0.6980.14
120_V147_S0.6970.14
73_P167_S0.6880.14
73_P168_E0.6880.14
32_K74_P0.6850.14
22_L115_V0.6850.14
42_R144_H0.6830.14
42_R106_H0.6830.14
112_V179_I0.6800.14
106_H171_G0.6770.13
144_H171_G0.6770.13
28_S31_V0.6750.13
118_C134_L0.6590.13
28_S83_G0.6590.13
72_N104_V0.6550.13
16_L187_R0.6530.13
73_P171_G0.6530.13
35_A160_L0.6510.13
35_A165_N0.6510.13
24_A181_I0.6470.13
116_G139_A0.6410.13
122_E189_R0.6390.13
29_A107_I0.6390.13
71_L160_L0.6370.13
33_W157_L0.6350.13
116_G159_D0.6340.13
122_E141_L0.6330.13
74_P168_E0.6330.13
74_P167_S0.6330.13
134_L181_I0.6310.13
29_A33_W0.6280.13
35_A81_W0.6270.13
140_Q160_L0.6270.13
14_Y18_A0.6260.13
33_W37_V0.6210.12
41_P109_F0.6180.12
121_A188_N0.6170.12
72_N89_A0.6130.12
79_R140_Q0.6130.12
35_A148_F0.6120.12
30_F187_R0.6090.12
23_I111_I0.6080.12
102_V154_T0.6060.12
75_Y79_R0.6020.12
41_P144_H0.5970.12
41_P106_H0.5970.12
33_W107_I0.5960.12
86_D120_V0.5940.12
115_V118_C0.5930.12
122_E185_D0.5930.12
93_T119_V0.5900.12
88_N110_S0.5880.12
131_Q181_I0.5840.12
88_N95_A0.5820.12
86_D146_I0.5810.12
35_A107_I0.5780.12
87_P139_A0.5770.12
43_S68_R0.5760.12
99_F176_F0.5740.12
69_N157_L0.5730.12
71_L79_R0.5710.12
28_S101_W0.5710.12
11_R162_W0.5680.12
32_K41_P0.5660.11
39_L170_F0.5600.11
16_L137_A0.5570.11
159_D166_V0.5530.11
37_V180_E0.5430.11
24_A182_I0.5420.11
44_P100_N0.5370.11
99_F103_G0.5340.11
41_P73_P0.5330.11
30_F84_L0.5300.11
37_V96_G0.5270.11
127_I163_Y0.5250.11
76_I153_L0.5240.11
89_A160_L0.5200.11
29_A38_P0.5150.11
13_R187_R0.5130.11
18_A123_V0.5130.11
33_W97_H0.5090.11
73_P109_F0.5090.11
68_R102_V0.5090.11
43_S95_A0.5090.11
18_A162_W0.5040.10
75_Y160_L0.5000.10
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  
2xq2A 2 0.6422 7.7 0.974 Contact Map
3dh4A 3 0.6471 7.5 0.974 Contact Map
4uzyB 1 0.2451 5 0.976 Contact Map
4i77Z 1 0.2206 4.3 0.977 Contact Map
4r10B 1 0.1961 3.3 0.978 Contact Map
1ytrA 1 0.1275 2.8 0.979 Contact Map
4p6kA 2 0.1176 2.6 0.979 Contact Map
1g9pA 1 0.152 2.3 0.98 Contact Map
3iozB 1 0.0392 2.3 0.98 Contact Map
1kvdA 1 0.25 2.2 0.98 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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