GREMLIN Database
YVDS - Uncharacterized membrane protein YvdS
UniProt: O32262 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 111 (99)
Sequences: 4311 (2976)
Seq/√Len: 299.1

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
85_F95_G3.0401.00
12_L38_V2.6761.00
45_R48_Q2.6431.00
72_I78_F2.4411.00
5_L45_R2.4011.00
19_S31_I2.3651.00
2_N49_K2.2931.00
15_V35_L2.1171.00
10_G62_I2.0741.00
68_Y86_L2.0711.00
47_Y55_A1.8211.00
88_L92_G1.8151.00
50_I55_A1.7401.00
16_W35_L1.6451.00
33_F37_A1.5921.00
23_A26_L1.5901.00
87_A91_A1.5471.00
15_V31_I1.5021.00
88_L91_A1.4961.00
41_I45_R1.4671.00
80_A84_F1.4651.00
18_S22_H1.4551.00
36_I40_F1.4171.00
16_W36_I1.4071.00
47_Y52_M1.4021.00
18_S70_T1.3631.00
20_L32_I1.3621.00
89_L92_G1.3461.00
83_M87_A1.3431.00
85_F92_G1.3311.00
24_D28_D1.3191.00
85_F99_F1.2901.00
5_L42_L1.2881.00
64_T68_Y1.2811.00
22_H74_L1.2741.00
14_V66_G1.2691.00
12_L35_L1.2431.00
94_L98_L1.2281.00
43_L55_A1.2061.00
46_S55_A1.2001.00
85_F89_L1.1931.00
3_W58_V1.1651.00
79_S82_Q1.1551.00
81_A99_F1.1401.00
86_L96_M1.1401.00
15_V19_S1.1381.00
71_G76_E1.0601.00
78_F83_M1.0351.00
77_S82_Q1.0301.00
78_F82_Q1.0241.00
23_A28_D1.0231.00
53_A57_T1.0181.00
37_A41_I1.0141.00
57_T60_V0.9961.00
70_T74_L0.9761.00
81_A84_F0.9761.00
89_L93_I0.9721.00
7_F62_I0.9621.00
4_V8_I0.9571.00
91_A95_G0.9381.00
82_Q96_M0.9111.00
7_F10_G0.8981.00
69_L73_V0.8921.00
30_I34_I0.8871.00
54_A82_Q0.8841.00
21_K25_S0.8801.00
85_F88_L0.8761.00
52_M67_T0.8761.00
19_S22_H0.8721.00
65_V86_L0.8661.00
19_S32_I0.8611.00
80_A83_M0.8591.00
76_E82_Q0.8541.00
90_L94_L0.8391.00
65_V90_L0.8291.00
64_T90_L0.8241.00
9_A42_L0.8231.00
8_I42_L0.8221.00
2_N50_I0.8191.00
14_V70_T0.8161.00
10_G39_S0.8071.00
77_S80_A0.8051.00
61_G93_I0.7971.00
17_A67_T0.7870.99
81_A85_F0.7710.99
19_S35_L0.7630.99
71_G74_L0.7560.99
18_S74_L0.7530.99
58_V62_I0.7530.99
16_W32_I0.7500.99
27_L48_Q0.7410.99
25_S28_D0.7240.99
51_P54_A0.7150.99
54_A57_T0.7110.99
88_L95_G0.7100.99
52_M74_L0.7070.99
84_F88_L0.6980.99
24_D27_L0.6960.99
20_L59_F0.6910.99
11_L66_G0.6860.99
6_V55_A0.6840.99
60_V71_G0.6770.98
30_I33_F0.6720.98
45_R49_K0.6670.98
72_I83_M0.6660.98
62_I66_G0.6610.98
34_I38_V0.6530.98
2_N5_L0.6510.98
31_I35_L0.6490.98
71_G82_Q0.6460.98
19_S23_A0.6450.98
36_I60_V0.6390.98
13_E39_S0.6370.98
95_G99_F0.6360.98
23_A27_L0.6340.98
61_G64_T0.6300.97
21_K24_D0.6110.97
57_T96_M0.6100.97
18_S71_G0.6090.97
9_A43_L0.6090.97
40_F47_Y0.5900.96
25_S44_I0.5900.96
72_I77_S0.5890.96
20_L39_S0.5850.96
34_I37_A0.5840.96
5_L46_S0.5840.96
6_V46_S0.5830.96
19_S33_F0.5750.96
11_L15_V0.5740.96
60_V97_K0.5690.95
6_V50_I0.5620.95
36_I52_M0.5590.95
66_G70_T0.5570.95
4_V45_R0.5550.95
40_F44_I0.5530.95
10_G93_I0.5480.94
57_T86_L0.5320.94
16_W64_T0.5320.94
12_L32_I0.5310.93
97_K100_T0.5290.93
68_Y96_M0.5290.93
84_F87_A0.5240.93
85_F91_A0.5130.92
76_E79_S0.5120.92
32_I35_L0.5030.92
23_A32_I0.5020.91
18_S52_M0.5020.91
72_I76_E0.5000.91
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  
3b5dA 2 0.8829 99.9 0.418 Contact Map
2i68A 2 0.6937 99.8 0.446 Contact Map
4dx5A 3 0.982 18.8 0.921 Contact Map
1pw4A 1 0.991 18.4 0.921 Contact Map
3w9iA 3 0.964 10.7 0.929 Contact Map
4k0jA 3 0.9279 8.1 0.933 Contact Map
4o9uB 2 0.7387 6.8 0.935 Contact Map
1l1yA 1 0.0991 6.7 0.935 Contact Map
3effK 4 0.7928 6.3 0.936 Contact Map
4w6vA 1 0.9189 6.1 0.937 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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