GREMLIN Database
CopD - Copper resistance protein D
PFAM: PF05425 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 105 (100)
Sequences: 35268 (25242)
Seq/√Len: 2524.2
META: 0.897

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
54_L95_G2.6751.00
23_L48_L2.4431.00
42_R46_A2.3711.00
59_A63_F2.2991.00
45_L49_A2.1931.00
39_P42_R2.1761.00
62_R66_V2.0181.00
31_G34_A1.9121.00
19_V55_L1.8551.00
24_V28_L1.8111.00
21_T25_N1.7961.00
50_L98_V1.7861.00
60_V64_R1.7471.00
9_R13_V1.6911.00
15_V55_L1.6831.00
64_R68_R1.6731.00
33_S37_G1.6461.00
32_L35_L1.6401.00
46_A101_L1.6001.00
98_V102_A1.5851.00
50_L94_L1.5851.00
25_N29_L1.5671.00
26_A30_L1.5301.00
26_A44_L1.4651.00
35_L41_G1.4581.00
60_V65_L1.4561.00
5_R9_R1.4051.00
38_T41_G1.3681.00
32_L36_W1.3551.00
50_L101_L1.3531.00
23_L27_W1.3441.00
42_R45_L1.3101.00
15_V18_L1.2741.00
61_N87_L1.2621.00
57_L87_L1.2481.00
16_A20_A1.2061.00
47_K51_V1.2031.00
77_G81_R1.1921.00
12_L62_R1.1871.00
25_N28_L1.1841.00
19_V51_V1.1711.00
56_A60_V1.1401.00
12_L15_V1.1401.00
10_L14_A1.1311.00
82_R86_R1.1201.00
76_A79_A1.1081.00
45_L48_L1.1081.00
33_S36_W1.0941.00
11_A58_A1.0631.00
10_L13_V1.0511.00
13_V17_V1.0491.00
39_P43_L1.0311.00
43_L101_L1.0271.00
9_R12_L1.0201.00
6_R10_L1.0151.00
76_A80_L1.0131.00
13_V16_A1.0061.00
8_S62_R0.9941.00
44_L48_L0.9821.00
85_R89_A0.9761.00
88_V91_E0.9631.00
60_V87_L0.9581.00
46_A50_L0.9531.00
49_A53_V0.9501.00
57_L90_V0.9501.00
93_A97_A0.9401.00
79_A82_R0.9301.00
81_R86_R0.9091.00
91_E95_G0.9031.00
63_F67_P0.8921.00
78_A82_R0.8851.00
46_A49_A0.8741.00
34_A37_G0.8651.00
78_A81_R0.8591.00
12_L63_F0.8451.00
83_R86_R0.8451.00
92_L96_L0.8411.00
66_V69_L0.8301.00
75_A80_L0.8221.00
89_A92_L0.8221.00
73_R76_A0.8141.00
77_G80_L0.8131.00
36_W45_L0.8131.00
75_A79_A0.8101.00
48_L52_A0.8091.00
54_L94_L0.8071.00
85_R88_V0.7971.00
65_L87_L0.7871.00
8_S12_L0.7691.00
88_V92_L0.7631.00
89_A93_A0.7621.00
102_A105_L0.7561.00
58_A62_R0.7501.00
30_L40_Y0.7461.00
57_L61_N0.7351.00
20_A24_V0.7321.00
83_R87_L0.7301.00
12_L16_A0.7291.00
80_L83_R0.7291.00
18_L21_T0.7251.00
35_L45_L0.7141.00
16_A19_V0.7131.00
17_V21_T0.7101.00
52_A56_A0.6971.00
43_L104_V0.6801.00
51_V55_L0.6741.00
86_R90_V0.6731.00
26_A48_L0.6641.00
76_A81_R0.6591.00
24_V27_W0.6551.00
58_A61_N0.6471.00
74_P78_A0.6471.00
4_L84_L0.6401.00
79_A83_R0.6381.00
60_V83_R0.6381.00
74_P79_A0.6371.00
65_L68_R0.6351.00
92_L95_G0.6301.00
7_F61_N0.6251.00
73_R77_G0.6211.00
96_L100_A0.6191.00
100_A104_V0.6151.00
14_A18_L0.6151.00
57_L94_L0.6131.00
4_L66_V0.6051.00
55_L59_A0.6021.00
86_R89_A0.6001.00
80_L85_R0.5981.00
95_G99_L0.5921.00
99_L102_A0.5831.00
27_W31_G0.5731.00
6_R9_R0.5691.00
74_P77_G0.5551.00
53_V94_L0.5541.00
97_A101_L0.5541.00
47_K58_A0.5501.00
61_N65_L0.5471.00
4_L88_V0.5461.00
65_L83_R0.5441.00
37_G42_R0.5411.00
21_T24_V0.5391.00
50_L97_A0.5371.00
56_A59_A0.5321.00
98_V101_L0.5291.00
35_L38_T0.5281.00
20_A23_L0.5211.00
30_L35_L0.5201.00
43_L105_L0.5111.00
58_A91_E0.5081.00
78_A83_R0.5001.00
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  
4i0uA 4 0.5905 64.8 0.787 Contact Map
4ev6A 3 0.6095 62.1 0.791 Contact Map
2qjyA 2 0.9143 16 0.849 Contact Map
1kqfC 3 1 14.7 0.851 Contact Map
1kf6C 1 0.9714 12.8 0.855 Contact Map
3cx5C 2 0.9143 12.4 0.856 Contact Map
4ogqA 2 0.9143 7.4 0.869 Contact Map
4humA 1 0.981 5.9 0.876 Contact Map
4gd3A 2 0.9143 5.9 0.876 Contact Map
1pp9C 2 0.8952 5.2 0.878 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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