GREMLIN Database
YKZQ - Uncharacterized protein YkzQ
UniProt: C0H403 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 75 (61)
Sequences: 4620 (4057)
Seq/√Len: 519.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
32_H69_I2.6771.00
52_Q56_L2.4041.00
40_W44_K2.2151.00
43_A50_V2.1961.00
38_T41_T2.1291.00
53_L70_I2.0651.00
31_Y46_F2.0521.00
30_V69_I1.9551.00
31_Y37_D1.8181.00
54_M62_D1.7601.00
65_Y68_Q1.7391.00
31_Y42_I1.7081.00
48_I56_L1.6591.00
33_V70_I1.6441.00
49_P52_Q1.6101.00
50_V54_M1.5681.00
54_M61_S1.4941.00
48_I52_Q1.4861.00
39_L61_S1.4221.00
52_Q55_N1.4071.00
51_Q55_N1.3711.00
34_E37_D1.3191.00
28_Y71_K1.2341.00
23_E30_V1.2171.00
41_T45_S1.2151.00
32_H67_G1.1761.00
19_P23_E1.1631.00
27_T71_K1.1171.00
31_Y34_E1.0721.00
46_F72_I1.0591.00
53_L59_L1.0531.00
48_I53_L1.0511.00
56_L72_I1.0381.00
30_V71_K1.0301.00
33_V37_D1.0161.00
58_K71_K0.9351.00
37_D41_T0.9281.00
37_D45_S0.9271.00
39_L59_L0.9261.00
51_Q54_M0.9051.00
43_A48_I0.8861.00
39_L54_M0.8761.00
39_L50_V0.8751.00
12_A15_V0.8721.00
20_R23_E0.8551.00
56_L71_K0.8191.00
54_M59_L0.8041.00
39_L53_L0.7881.00
40_W43_A0.7741.00
42_I70_I0.7241.00
29_E46_F0.7171.00
18_T22_M0.7111.00
54_M60_S0.6981.00
38_T44_K0.6951.00
31_Y45_S0.6911.00
32_H68_Q0.6881.00
12_A20_R0.6851.00
37_D66_P0.6801.00
33_V42_I0.6741.00
42_I64_I0.6691.00
59_L70_I0.6581.00
39_L64_I0.6311.00
39_L71_K0.6281.00
43_A46_F0.6231.00
33_V68_Q0.6221.00
34_E45_S0.6131.00
41_T44_K0.6081.00
38_T43_A0.5990.99
18_T69_I0.5950.99
40_W50_V0.5920.99
14_K17_R0.5840.99
42_I46_F0.5730.99
26_V29_E0.5710.99
17_R22_M0.5650.99
15_V23_E0.5640.99
36_G66_P0.5580.99
61_S71_K0.5510.99
54_M58_K0.5460.99
15_V18_T0.5440.99
15_V19_P0.5430.99
37_D64_I0.5390.99
35_S67_G0.5390.99
60_S63_R0.5390.99
14_K18_T0.5320.99
38_T64_I0.5290.99
37_D42_I0.5280.99
34_E67_G0.5270.99
59_L62_D0.5250.99
28_Y56_L0.5230.99
13_N17_R0.5050.98
59_L64_I0.5010.98
35_S66_P0.5000.98
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  
4xcmA 2 0.6267 99.2 0.358 Contact Map
4b8vA 2 0.7067 99.2 0.371 Contact Map
2mkxA 1 0.6667 99.1 0.376 Contact Map
2djpA 1 0.8267 99.1 0.382 Contact Map
4pxvA 1 0.6267 99.1 0.388 Contact Map
2l9yA 1 1 99 0.414 Contact Map
4uz3A 1 0.64 99 0.415 Contact Map
2mpwA 1 0.9467 99 0.416 Contact Map
1e0gA 1 0.64 98.9 0.427 Contact Map
4ebyA 1 0.7067 98.8 0.442 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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