GREMLIN Database
Complex1_LYR_1 - Complex1_LYR-like
PFAM: PF13232 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 61 (59)
Sequences: 3904 (2971)
Seq/√Len: 386.8
META: 0.39

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
35_R38_R2.7071.00
40_V45_K2.5781.00
10_L30_I2.4941.00
40_V49_L2.3181.00
31_R35_R2.0591.00
6_L53_G1.9181.00
33_E36_K1.7751.00
5_S9_R1.5691.00
52_K56_E1.5581.00
29_R33_E1.5061.00
3_V50_L1.4091.00
2_E54_E1.3661.00
14_A26_F1.3651.00
27_R31_R1.3411.00
11_L30_I1.3001.00
9_R54_E1.2921.00
25_Y29_R1.2891.00
19_D22_R1.2461.00
37_N40_V1.2271.00
8_R12_R1.2211.00
18_P21_N1.1971.00
7_Y31_R1.1781.00
13_A16_K1.1581.00
50_L54_E1.1561.00
45_K48_E1.1541.00
43_P47_E1.1401.00
49_L53_G1.1381.00
17_F21_N1.1141.00
51_R55_K1.0871.00
19_D23_R1.0511.00
13_A57_L1.0331.00
48_E52_K1.0281.00
48_E51_R1.0201.00
33_E52_K1.0161.00
40_V43_P1.0121.00
37_N49_L1.0011.00
51_R54_E0.9931.00
45_K49_L0.9671.00
14_A30_I0.9651.00
20_Y23_R0.9651.00
42_D45_K0.9561.00
55_K59_E0.9421.00
47_E51_R0.9281.00
42_D46_I0.9241.00
25_Y28_R0.8781.00
32_D36_K0.8761.00
3_V34_F0.8471.00
30_I56_E0.8461.00
17_F26_F0.8411.00
49_L52_K0.8161.00
26_F29_R0.8091.00
13_A60_L0.7981.00
29_R32_D0.7921.00
46_I50_L0.7901.00
18_P22_R0.7841.00
53_G57_L0.7561.00
28_R32_D0.7391.00
2_E5_S0.7311.00
33_E56_E0.7181.00
10_L60_L0.7121.00
53_G56_E0.7061.00
11_L14_A0.7031.00
14_A27_R0.7011.00
18_P23_R0.6800.99
11_L27_R0.6690.99
15_R27_R0.6650.99
13_A17_F0.6440.99
10_L14_A0.6390.99
11_L32_D0.6370.99
6_L10_L0.6360.99
32_D35_R0.6340.99
22_R26_F0.6190.99
50_L53_G0.6080.99
6_L34_F0.6070.99
56_E59_E0.6050.99
54_E58_E0.5610.98
4_L12_R0.5530.97
44_E47_E0.5390.97
8_R15_R0.5370.97
52_K55_K0.5340.97
4_L8_R0.5320.97
28_R35_R0.5260.97
17_F60_L0.5260.97
42_D47_E0.5250.97
16_K23_R0.5140.96
44_E48_E0.5040.96
7_Y30_I0.5030.96
15_R19_D0.5000.96
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  
2hz8A 1 1 14.6 0.803 Contact Map
2ld7A 1 0.9508 10.6 0.815 Contact Map
2ke4A 1 1 9 0.82 Contact Map
1s94A 1 0.5574 6.5 0.831 Contact Map
1rm1C 1 0.7705 4.4 0.845 Contact Map
3j96M 1 0.9836 4 0.848 Contact Map
1rypG 1 0.9508 3.9 0.849 Contact Map
1nh2B 1 0.7377 3.7 0.85 Contact Map
2bidA 1 0.5738 3.5 0.852 Contact Map
1ddbA 1 0.5738 3.5 0.852 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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