GREMLIN Database
YGGT - YGGT family
PFAM: PF02325 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 69 (67)
Sequences: 52169 (30811)
Seq/√Len: 3764.1
META: 0.924

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
14_R35_T2.4001.00
36_E40_R2.0451.00
38_L41_P2.0261.00
4_L66_Q1.9461.00
29_R33_R1.9441.00
17_L28_V1.8751.00
41_P45_I1.8261.00
42_I58_A1.7641.00
32_Y36_E1.7491.00
10_L35_T1.7201.00
63_Q66_Q1.7091.00
38_L58_A1.6601.00
5_G9_L1.6191.00
8_I63_Q1.5831.00
7_Y38_L1.5761.00
5_G66_Q1.5521.00
4_L62_L1.4801.00
56_L63_Q1.4131.00
15_A55_P1.4131.00
14_R36_E1.3861.00
36_E43_R1.3831.00
63_Q67_R1.3611.00
11_I55_P1.3611.00
14_R32_Y1.3271.00
22_D25_N1.2851.00
42_I61_L1.2721.00
8_I66_Q1.2361.00
9_L13_A1.2101.00
14_R39_L1.2061.00
26_P29_R1.1941.00
8_I59_I1.1701.00
38_L42_I1.1661.00
20_R23_P1.1541.00
5_G8_I1.1401.00
11_I58_A1.1281.00
30_F34_L1.0851.00
43_R52_D1.0771.00
10_L34_L1.0691.00
49_G53_L1.0391.00
15_A19_W1.0181.00
28_V32_Y1.0041.00
59_I63_Q0.9851.00
21_A24_Y0.9771.00
52_D55_P0.9551.00
22_D26_P0.9551.00
34_L37_P0.9541.00
48_L53_L0.9321.00
13_A31_L0.9061.00
25_N28_V0.9031.00
39_L55_P0.8961.00
39_L58_A0.8941.00
2_T6_L0.8941.00
4_L8_I0.8801.00
25_N29_R0.8521.00
27_I30_F0.7941.00
42_I45_I0.7361.00
12_I59_I0.7351.00
42_I57_V0.7331.00
5_G63_Q0.7141.00
18_S52_D0.7101.00
35_T58_A0.6911.00
60_L64_L0.6891.00
60_L63_Q0.6841.00
24_Y28_V0.6821.00
40_R43_R0.6811.00
64_L67_R0.6741.00
12_I16_I0.6731.00
41_P44_R0.6711.00
2_T5_G0.6651.00
24_Y27_I0.6631.00
21_A26_P0.6531.00
62_L66_Q0.6531.00
28_V31_L0.6491.00
14_R31_L0.6451.00
21_A25_N0.6451.00
40_R44_R0.6381.00
35_T39_L0.6381.00
20_R28_V0.6381.00
30_F33_R0.6261.00
22_D29_R0.6201.00
58_A62_L0.6111.00
7_Y62_L0.6101.00
42_I54_S0.5821.00
12_I15_A0.5731.00
46_L57_V0.5651.00
24_Y29_R0.5631.00
23_P28_V0.5621.00
32_Y35_T0.5611.00
39_L54_S0.5461.00
15_A18_S0.5451.00
57_V61_L0.5331.00
21_A28_V0.5281.00
61_L65_L0.5231.00
42_I46_L0.5171.00
23_P29_R0.5121.00
64_L68_L0.5041.00
15_A56_L0.5031.00
6_L10_L0.5031.00
20_R25_N0.5011.00
11_I39_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  
1ku5A 2 0.5072 2.3 0.867 Contact Map
2nwlA 3 1 1.9 0.871 Contact Map
3duzA 3 0 1.8 0.873 Contact Map
1nmbN 1 0 1.8 0.874 Contact Map
3tiaA 3 0 1.8 0.874 Contact Map
2ls4A 1 0.3043 1.4 0.882 Contact Map
4b7jA 3 0 1.3 0.884 Contact Map
3s79A 1 0 1.2 0.885 Contact Map
3zdqA 2 0.4638 1.1 0.889 Contact Map
4l6vF 1 0.3768 0.8 0.9 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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