GREMLIN Database
YKKD - Multidrug resistance protein YkkD
UniProt: P49857 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 105 (101)
Sequences: 4210 (2891)
Seq/√Len: 287.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
90_F100_G3.0491.00
13_L42_A2.7171.00
49_Y52_E2.6261.00
76_I83_K2.3961.00
6_S49_Y2.3771.00
20_L35_L2.3021.00
16_A39_G2.1931.00
3_H53_T2.1461.00
74_I78_F1.9971.00
72_A91_I1.9961.00
11_G66_I1.9791.00
93_L97_S1.8301.00
51_M59_A1.8231.00
54_T59_A1.7881.00
31_K35_L1.7511.00
17_G39_G1.5701.00
92_A96_C1.5581.00
93_L96_C1.5441.00
16_A35_L1.5231.00
37_I41_A1.5201.00
40_F44_F1.4891.00
24_Y33_V1.4561.00
85_A89_F1.4431.00
45_S49_Y1.4331.00
19_A23_Q1.4211.00
27_E33_V1.3921.00
51_M56_M1.3531.00
17_G40_F1.3421.00
94_I97_S1.3241.00
24_Y27_E1.3221.00
15_M70_G1.3011.00
90_F97_S1.3011.00
84_D87_R1.3011.00
13_L39_G1.2871.00
6_S46_L1.2821.00
19_A74_I1.2681.00
21_M36_I1.2681.00
23_Q79_Y1.2671.00
99_V103_I1.2641.00
50_A59_A1.2281.00
30_V33_V1.2271.00
88_I92_A1.1971.00
29_S32_W1.1861.00
90_F94_I1.1751.00
82_Q87_R1.1721.00
91_I101_L1.1521.00
68_T72_A1.1391.00
87_R101_L1.1091.00
4_W62_V1.1071.00
31_K34_L1.1031.00
16_A20_L1.0901.00
47_L59_A1.0771.00
83_K88_I1.0651.00
8_L66_I1.0551.00
30_V34_L1.0401.00
86_K89_F0.9921.00
83_K87_R0.9661.00
5_I9_C0.9661.00
41_A45_S0.9501.00
94_I98_A0.9481.00
58_T87_R0.9401.00
96_C100_G0.9401.00
22_N26_K0.9321.00
25_A29_S0.9211.00
73_L77_L0.9131.00
90_F93_L0.9121.00
9_C46_L0.9061.00
69_A91_I0.9061.00
3_H54_T0.8981.00
82_Q85_A0.8961.00
62_V66_I0.8801.00
85_A88_I0.8731.00
56_M71_G0.8671.00
81_E87_R0.8581.00
69_A95_L0.8571.00
18_V71_G0.8481.00
57_G61_A0.8301.00
8_L11_G0.8141.00
20_L23_Q0.8111.00
95_L99_V0.8040.99
28_K33_V0.7970.99
11_G43_S0.7920.99
75_G79_Y0.7750.99
61_A64_T0.7730.99
25_A28_K0.7700.99
74_I79_Y0.7640.99
34_L38_V0.7580.99
75_G81_E0.7530.99
15_M74_I0.7460.99
19_A79_Y0.7460.99
65_G98_A0.7440.99
93_L100_G0.7420.99
28_K52_E0.7410.99
68_T95_L0.7350.99
64_T75_G0.7210.99
89_F93_L0.7200.99
3_H6_S0.7180.99
86_K90_F0.7100.99
72_A101_L0.6930.98
34_L37_I0.6860.98
20_L39_G0.6760.98
20_L36_I0.6740.98
56_M79_Y0.6720.98
17_G36_I0.6660.98
14_E43_S0.6640.98
55_P58_T0.6490.98
61_A91_I0.6410.97
28_K32_W0.6350.97
77_L80_K0.6340.97
76_I82_Q0.6330.97
19_A56_M0.6320.97
76_I88_I0.6290.97
20_L24_Y0.6260.97
38_V42_A0.6230.97
66_I70_G0.6210.97
49_Y53_T0.6120.97
44_F51_M0.6100.97
12_C70_G0.6100.97
33_V36_I0.6090.97
24_Y28_K0.6080.96
10_A46_L0.5990.96
11_G98_A0.5980.96
58_T61_A0.5980.96
22_N25_A0.5960.96
75_G87_R0.5910.96
40_F64_T0.5880.96
40_F56_M0.5820.95
10_A47_L0.5810.95
27_E32_W0.5760.95
26_K32_W0.5730.95
19_A75_G0.5720.95
35_L39_G0.5700.95
24_Y29_S0.5690.95
12_C16_A0.5680.95
81_E84_D0.5580.94
7_L59_A0.5550.94
21_M43_S0.5540.94
89_F92_A0.5500.94
76_I81_E0.5470.94
64_T102_K0.5440.94
44_F48_S0.5420.93
63_W94_I0.5310.93
20_L37_I0.5210.92
6_S50_A0.5180.92
39_G43_S0.5160.92
17_G64_T0.5150.92
21_M63_W0.5080.91
18_V40_F0.5080.91
13_L36_I0.5070.91
36_I48_S0.5060.91
90_F96_C0.5000.90
61_A103_I0.5000.90
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  
3b5dA 2 0.9714 99.9 0.3 Contact Map
2i68A 2 0.7429 99.9 0.34 Contact Map
4pypA 1 1 4.3 0.936 Contact Map
4tphA 2 0.9905 3.2 0.94 Contact Map
4zw9A 1 0.9905 2.7 0.942 Contact Map
4xnjA 1 0.9905 2.7 0.943 Contact Map
2ls4A 1 0.2286 2.6 0.943 Contact Map
1pw4A 1 1 2.5 0.943 Contact Map
4o9uB 2 0.6857 2.4 0.944 Contact Map
4nv5A 1 0.9238 2.3 0.944 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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