GREMLIN Database
YNDM - Uncharacterized membrane protein YndM
UniProt: O31816 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 179 (144)
Sequences: 119 (94)
Seq/√Len: 7.8

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
75_Y168_E3.1480.89
48_L103_L2.4580.73
33_H88_N2.4290.72
73_V160_Q2.3950.71
48_L66_I2.3300.69
71_G87_N2.3230.69
104_W125_A2.3020.68
33_H75_Y2.0840.60
73_V86_T1.9790.56
163_T166_A1.9590.55
166_A169_L1.9460.55
55_V104_W1.8140.49
52_L70_L1.7920.48
53_D106_F1.7680.47
47_L58_A1.7310.46
123_L139_L1.7250.46
46_A71_G1.7040.45
96_F117_P1.7030.45
101_V130_V1.6220.41
88_N134_F1.5830.40
131_F171_P1.5780.40
100_F107_V1.5740.40
128_L143_V1.5680.39
52_L86_T1.5350.38
31_M48_L1.5330.38
94_A97_G1.5020.37
121_A125_A1.4820.36
84_P138_Y1.4770.36
71_G131_F1.4450.35
53_D56_Y1.4410.35
54_R66_I1.4310.34
58_A130_V1.4150.34
33_H86_T1.4130.34
69_F113_N1.4070.33
88_N94_A1.3700.32
101_V126_A1.3510.31
88_N91_A1.3410.31
44_T49_Y1.3350.31
58_A106_F1.3340.31
112_R127_C1.3330.31
47_L71_G1.3300.31
63_V110_Q1.3240.30
71_G127_C1.3150.30
77_S128_L1.3140.30
33_H82_V1.3010.30
66_I114_D1.2820.29
111_T116_S1.2800.29
39_S42_A1.2490.28
49_Y161_Y1.2460.28
31_M84_P1.2250.27
102_I171_P1.2210.27
72_F93_L1.2130.27
80_M143_V1.2100.27
51_I63_V1.1930.26
70_L102_I1.1930.26
65_F100_F1.1880.26
84_P104_W1.1740.26
77_S82_V1.1680.25
103_L117_P1.1590.25
91_A163_T1.1540.25
78_G92_S1.1530.25
52_L56_Y1.1530.25
167_D170_F1.1480.25
54_R72_F1.1470.25
36_A55_V1.1430.25
39_S72_F1.1350.24
65_F116_S1.1220.24
48_L135_F1.1190.24
106_F109_T1.1050.23
90_T124_S1.1030.23
65_F111_T1.1020.23
86_T99_S1.0970.23
58_A118_F1.0890.23
82_V90_T1.0830.23
123_L153_S1.0770.23
82_V131_F1.0770.23
67_A112_R1.0610.22
41_I49_Y1.0570.22
66_I103_L1.0480.22
46_A165_A1.0460.22
66_I135_F1.0260.21
47_L159_L1.0140.21
69_F163_T1.0060.21
42_A170_F0.9950.20
57_H99_S0.9920.20
75_Y167_D0.9920.20
156_D160_Q0.9850.20
34_I155_R0.9800.20
78_G88_N0.9800.20
74_S119_G0.9800.20
54_R100_F0.9750.20
138_Y143_V0.9710.20
55_V98_L0.9690.20
72_F144_L0.9670.20
51_I118_F0.9650.20
124_S166_A0.9560.19
114_D119_G0.9530.19
64_M143_V0.9520.19
127_C157_N0.9490.19
87_N108_L0.9480.19
51_I114_D0.9350.19
77_S126_A0.9310.19
77_S167_D0.9240.19
111_T118_F0.9220.19
62_S149_R0.9210.19
57_H148_F0.9140.18
133_Y165_A0.9070.18
65_F121_A0.9050.18
42_A145_D0.9040.18
74_S99_S0.9010.18
46_A102_I0.8980.18
93_L141_K0.8970.18
50_V123_L0.8930.18
38_A143_V0.8920.18
36_A143_V0.8910.18
141_K175_E0.8900.18
37_L170_F0.8900.18
99_S129_T0.8890.18
60_F70_L0.8830.18
51_I123_L0.8810.18
51_I117_P0.8790.18
78_G82_V0.8750.17
45_L49_Y0.8750.17
124_S167_D0.8720.17
72_F137_R0.8550.17
58_A113_N0.8530.17
69_F93_L0.8330.16
70_L165_A0.8240.16
149_R173_T0.8150.16
46_A70_L0.8130.16
75_Y85_R0.8040.16
131_F165_A0.7950.16
74_S137_R0.7910.16
65_F157_N0.7890.15
67_A127_C0.7880.15
97_G162_Q0.7810.15
61_L115_F0.7540.15
97_G125_A0.7470.15
166_A171_P0.7370.14
87_N169_L0.7330.14
40_K132_E0.7320.14
41_I56_Y0.7260.14
120_A135_F0.7170.14
70_L162_Q0.7160.14
130_V157_N0.7160.14
53_D58_A0.7140.14
43_F131_F0.7040.14
117_P129_T0.7030.14
53_D66_I0.6980.14
84_P143_V0.6950.14
65_F105_V0.6920.14
87_N160_Q0.6780.13
106_F116_S0.6780.13
33_H115_F0.6770.13
47_L87_N0.6740.13
55_V67_A0.6680.13
46_A56_Y0.6660.13
36_A144_L0.6580.13
78_G95_D0.6580.13
94_A131_F0.6530.13
74_S106_F0.6470.13
69_F110_Q0.6400.13
36_A139_L0.6390.13
83_L134_F0.6370.13
81_L107_V0.6360.13
97_G104_W0.6360.13
62_S107_V0.6290.12
101_V147_N0.6260.12
70_L131_F0.6260.12
114_D118_F0.6190.12
95_D174_K0.6150.12
54_R106_F0.6140.12
67_A71_G0.6130.12
100_F119_G0.6110.12
152_L167_D0.6090.12
156_D167_D0.6090.12
122_L129_T0.6040.12
56_Y137_R0.6040.12
65_F107_V0.6000.12
36_A126_A0.5960.12
67_A141_K0.5960.12
33_H90_T0.5870.12
126_A134_F0.5810.12
57_H173_T0.5800.12
92_S150_N0.5750.11
44_T67_A0.5750.11
76_L163_T0.5740.11
66_I100_F0.5730.11
34_I125_A0.5700.11
39_S109_T0.5680.11
125_A162_Q0.5590.11
99_S103_L0.5570.11
38_A108_L0.5500.11
112_R154_A0.5480.11
81_L89_I0.5470.11
117_P121_A0.5440.11
96_F121_A0.5420.11
138_Y156_D0.5420.11
57_H77_S0.5410.11
126_A129_T0.5390.11
104_W108_L0.5290.11
45_L131_F0.5280.11
49_Y86_T0.5270.11
64_M158_T0.5240.11
32_K99_S0.5160.11
89_I130_V0.5140.11
64_M163_T0.5140.11
77_S80_M0.5130.10
132_E136_H0.5130.10
40_K136_H0.5130.10
94_A174_K0.5120.10
79_D132_E0.5060.10
40_K79_D0.5060.10
103_L124_S0.5030.10
102_I131_F0.5000.10
58_A120_A0.5000.10
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  
1ciiA 1 0.486 36.6 0.952 Contact Map
3effK 4 0.7095 33.6 0.953 Contact Map
3pjsK 4 0.7095 30.4 0.954 Contact Map
4h33A 3 0.4693 19.6 0.958 Contact Map
1lnqA 6 0.581 18.3 0.959 Contact Map
4gx0A 3 0.743 7.5 0.965 Contact Map
4bgnA 3 0.6816 6.9 0.966 Contact Map
2qksA 4 0.8492 5.9 0.967 Contact Map
2i88A 1 0.4916 5.7 0.967 Contact Map
4ev6A 3 0.486 5.1 0.968 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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