GREMLIN Database
YqjK - YqjK-like protein
PFAM: PF13997 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 73 (73)
Sequences: 2324 (1780)
Seq/√Len: 208.3
META: 0.896

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
5_A8_Q5.4301.00
62_A65_G4.1261.00
2_L5_A2.3891.00
61_W64_R2.2651.00
19_L22_P2.0471.00
63_R67_G2.0041.00
29_G32_A1.8971.00
68_L71_L1.8421.00
28_R31_A1.8281.00
45_G49_L1.7961.00
11_D15_Q1.7951.00
15_Q18_P1.6571.00
49_L53_L1.6551.00
1_L4_R1.6021.00
7_A10_A1.5641.00
30_L34_R1.5511.00
55_P58_A1.5421.00
32_A35_W1.5171.00
6_A10_A1.4841.00
11_D14_A1.4041.00
68_L72_W1.3131.00
12_L15_Q1.2981.00
53_L61_W1.2541.00
10_A14_A1.2421.00
30_L33_V1.2261.00
13_A29_G1.2131.00
65_G68_L1.1691.00
54_R57_R1.1171.00
26_A29_G1.1141.00
64_R68_L1.1071.00
63_R66_W1.0871.00
5_A16_A1.0661.00
31_A34_R1.0491.00
48_A52_V0.9771.00
44_A48_A0.9731.00
47_V51_A0.9711.00
34_R37_R0.9490.99
17_A21_A0.9430.99
45_G48_A0.9420.99
19_L23_L0.8990.99
64_R67_G0.8980.99
3_A46_A0.8910.99
31_A35_W0.8780.99
12_L58_A0.8710.99
8_Q67_G0.8590.99
42_L45_G0.8560.99
36_L40_P0.8510.99
7_A11_D0.8290.99
18_P21_A0.8220.98
17_A20_R0.8180.98
13_A17_A0.8110.98
22_P25_L0.8100.98
35_W39_H0.7950.98
23_L30_L0.7780.98
43_V46_A0.7750.98
3_A10_A0.7550.97
18_P22_P0.7540.97
69_W72_W0.7460.97
7_A42_L0.7380.97
3_A6_A0.7250.97
35_W53_L0.7250.97
25_L29_G0.7250.97
19_L27_D0.7240.97
62_A66_W0.7230.97
27_D30_L0.7230.97
23_L27_D0.7190.97
39_H42_L0.7160.96
41_L48_A0.7090.96
66_W72_W0.7060.96
65_G73_R0.6950.96
41_L45_G0.6890.96
41_L57_R0.6840.95
46_A49_L0.6830.95
53_L57_R0.6590.94
7_A24_A0.6520.94
63_R70_R0.6430.94
46_A52_V0.6360.93
1_L9_R0.6230.93
21_A25_L0.6210.92
47_V55_P0.6140.92
16_A30_L0.6120.92
22_P35_W0.6040.91
63_R69_W0.6020.91
56_R69_W0.6000.91
50_L54_R0.5970.91
2_L6_A0.5950.91
6_A14_A0.5940.91
32_A36_L0.5940.91
30_L37_R0.5880.90
43_V47_V0.5830.90
41_L44_A0.5830.90
53_L67_G0.5820.90
4_R8_Q0.5660.88
23_L60_R0.5660.88
60_R71_L0.5640.88
50_L53_L0.5610.88
36_L43_V0.5560.88
16_A23_L0.5510.87
8_Q11_D0.5480.87
41_L46_A0.5420.86
25_L28_R0.5340.85
16_A19_L0.5330.85
3_A7_A0.5290.85
38_R66_W0.5260.85
34_R50_L0.5190.84
52_V55_P0.5150.83
8_Q15_Q0.5140.83
33_V71_L0.5110.83
52_V67_G0.5040.82
23_L26_A0.5000.82
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  
3m6cA 1 0.4521 4.3 0.869 Contact Map
2lonA 1 0.8356 3.8 0.871 Contact Map
4rh7A 1 0.8904 3.3 0.875 Contact Map
2mi2A 1 0.5479 2.9 0.879 Contact Map
1r8dA 2 0.4658 2.7 0.882 Contact Map
2vz4A 2 0.411 2.4 0.885 Contact Map
2l16A 1 0.5616 2.4 0.885 Contact Map
3vz6A 1 0.411 2.3 0.885 Contact Map
4fm3A 3 0.3699 1.8 0.892 Contact Map
1t7sA 3 0.2329 1.6 0.895 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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