GREMLIN Database
RDD - RDD family
PFAM: PF06271 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 139 (129)
Sequences: 82235 (64360)
Seq/√Len: 5666.6
META: 0.899

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_D95_R3.5421.00
127_D136_L3.2211.00
91_L96_A3.0031.00
131_Q136_L2.6311.00
63_F67_E2.5621.00
68_S93_F2.2491.00
61_L66_F2.2451.00
65_L69_L2.1571.00
2_A81_L2.1181.00
72_Q77_R2.0181.00
110_Y113_S1.9691.00
92_S95_R1.9651.00
3_G6_R1.9571.00
61_L67_E1.8841.00
85_D89_G1.8481.00
67_E76_K1.8311.00
10_A81_L1.7391.00
124_A132_R1.7381.00
70_R77_R1.7001.00
6_R79_L1.6801.00
123_W127_D1.6231.00
127_D131_Q1.6081.00
86_D131_Q1.5931.00
9_L79_L1.5781.00
11_F63_F1.5741.00
13_I79_L1.5731.00
71_G82_R1.5451.00
123_W133_L1.5211.00
120_G132_R1.4901.00
68_S96_A1.4881.00
122_L126_F1.4851.00
62_Y66_F1.4761.00
4_F124_A1.4731.00
66_F74_P1.4731.00
116_L120_G1.4201.00
13_I78_L1.4071.00
27_L31_L1.3961.00
60_L97_L1.3781.00
14_D75_G1.3731.00
111_L114_L1.3701.00
24_L28_L1.3511.00
94_G98_L1.3501.00
67_E100_N1.3301.00
135_D138_A1.2991.00
113_S116_L1.2971.00
62_Y67_E1.2541.00
21_V24_L1.2541.00
61_L65_L1.2531.00
120_G134_H1.2151.00
102_L137_L1.2001.00
109_G112_L1.1561.00
95_R98_L1.1511.00
63_F66_F1.1501.00
6_R9_L1.1451.00
96_A100_N1.1441.00
74_P77_R1.1411.00
60_L64_V1.1231.00
114_L118_G1.1171.00
129_R136_L1.1171.00
5_G9_L1.1121.00
117_L120_G1.0861.00
98_L137_L1.0781.00
64_V97_L1.0581.00
61_L64_V1.0411.00
85_D92_S1.0251.00
109_G113_S1.0201.00
10_A79_L1.0161.00
59_W63_F1.0021.00
64_V100_N0.9971.00
23_L27_L0.9921.00
86_D139_G0.9851.00
123_W136_L0.9811.00
58_V61_L0.9651.00
63_F100_N0.9531.00
111_L115_L0.9511.00
66_F77_R0.9431.00
76_K83_V0.9391.00
21_V58_V0.9231.00
123_W126_F0.9071.00
120_G124_A0.9051.00
76_K81_L0.9001.00
113_S117_L0.8961.00
8_L11_F0.8831.00
97_L100_N0.8791.00
20_A24_L0.8711.00
4_F8_L0.8661.00
2_A6_R0.8641.00
11_F15_L0.8541.00
93_F97_L0.8521.00
85_D91_L0.8521.00
109_G137_L0.8491.00
93_F96_A0.8381.00
99_R135_D0.8291.00
49_L53_L0.8271.00
112_L115_L0.8251.00
10_A75_G0.8221.00
67_E83_V0.8211.00
110_Y114_L0.8171.00
114_L117_L0.8121.00
55_L58_V0.8071.00
122_L125_L0.8011.00
64_V93_F0.7991.00
133_L136_L0.7991.00
72_Q76_K0.7961.00
71_G90_P0.7741.00
111_L116_L0.7721.00
74_P78_L0.7661.00
83_V99_R0.7641.00
17_I74_P0.7621.00
24_L27_L0.7461.00
5_G8_L0.7391.00
18_L22_L0.7371.00
95_R138_A0.7341.00
133_L137_L0.7331.00
48_A52_L0.7321.00
64_V68_S0.7311.00
16_L20_A0.7291.00
98_L138_A0.7271.00
64_V67_E0.7201.00
92_S96_A0.7151.00
21_V25_L0.7091.00
58_V62_Y0.7081.00
75_G78_L0.7051.00
98_L101_L0.7011.00
83_V91_L0.7001.00
19_L23_L0.7001.00
20_A23_L0.6991.00
115_L119_L0.6991.00
109_G116_L0.6921.00
120_G123_W0.6911.00
97_L101_L0.6901.00
114_L121_F0.6841.00
64_V96_A0.6731.00
53_L57_L0.6671.00
12_L16_L0.6601.00
71_G84_V0.6581.00
112_L116_L0.6571.00
117_L121_F0.6491.00
120_G133_L0.6431.00
113_S120_G0.6381.00
83_V96_A0.6321.00
28_L31_L0.6251.00
85_D88_G0.6171.00
111_L120_G0.6151.00
45_G48_A0.6121.00
91_L95_R0.6121.00
66_F69_L0.6051.00
21_V28_L0.6041.00
113_S118_G0.6031.00
22_L26_A0.6021.00
9_L12_L0.6021.00
26_A30_G0.6001.00
69_L93_F0.5991.00
125_L132_R0.5971.00
60_L63_F0.5921.00
75_G79_L0.5901.00
25_L29_L0.5861.00
119_L123_W0.5851.00
118_G121_F0.5851.00
115_L118_G0.5841.00
84_V88_G0.5831.00
4_F125_L0.5811.00
90_P94_G0.5801.00
100_N110_Y0.5761.00
46_L50_L0.5711.00
45_G49_L0.5711.00
86_D129_R0.5671.00
15_L18_L0.5661.00
41_L44_A0.5641.00
50_L53_L0.5631.00
100_N103_R0.5621.00
8_L12_L0.5591.00
38_L41_L0.5581.00
119_L122_L0.5571.00
22_L25_L0.5561.00
58_V66_F0.5541.00
65_L74_P0.5491.00
65_L68_S0.5481.00
43_L47_L0.5401.00
17_I21_V0.5381.00
62_Y65_L0.5361.00
48_A51_L0.5321.00
6_R81_L0.5321.00
16_L19_L0.5311.00
42_A45_G0.5291.00
11_F103_R0.5231.00
126_F129_R0.5141.00
124_A130_R0.5111.00
36_L39_G0.5101.00
72_Q82_R0.5031.00
62_Y74_P0.5021.00
110_Y116_L0.5021.00
49_L52_L0.5011.00
25_L28_L0.5001.00
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  
3j8eG 3 0.8849 1.8 0.922 Contact Map
3ixzB 1 0.2806 1.7 0.923 Contact Map
2zxeB 1 0.295 1.6 0.925 Contact Map
4u15A 2 0.3237 1.4 0.927 Contact Map
2lx0A 1 0.0791 1.4 0.928 Contact Map
1v54I 1 0.3813 1.3 0.929 Contact Map
1ji6A 1 0.3525 1.2 0.929 Contact Map
2mofA 1 0.3022 1.1 0.931 Contact Map
2p5qA 3 0.4173 1 0.933 Contact Map
4c7rA 3 0.8273 1 0.933 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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