GREMLIN Database
Multi_ubiq - Multiubiquitin
PFAM: PF14452 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 69 (65)
Sequences: 8502 (6514)
Seq/√Len: 808.0
META: 0.93

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
12_V17_I2.9391.00
23_V50_D2.8081.00
16_T53_S2.3991.00
49_G52_E2.3371.00
20_A50_D2.3311.00
19_G48_I2.2941.00
2_T11_E2.2321.00
2_T9_P2.1981.00
17_I56_L1.9671.00
16_T55_D1.8621.00
3_I12_V1.8221.00
20_A24_A1.7481.00
14_K21_E1.7041.00
4_I9_P1.6541.00
14_K17_I1.6051.00
46_G52_E1.5951.00
12_V25_L1.5501.00
15_P57_K1.4911.00
18_T53_S1.3881.00
17_I21_E1.3691.00
21_E24_A1.3671.00
19_G51_G1.2841.00
10_Y25_L1.2571.00
5_V26_A1.2501.00
20_A51_G1.2471.00
15_P55_D1.2251.00
6_N66_T1.0961.00
23_V28_P1.0951.00
48_I52_E1.0901.00
48_I54_V1.0871.00
18_T21_E1.0021.00
4_I62_E0.9901.00
24_A29_P0.9881.00
36_L47_T0.9861.00
33_D36_L0.9841.00
6_N33_D0.9731.00
12_V56_L0.9511.00
5_V22_I0.9481.00
16_T57_K0.9421.00
4_I7_G0.9001.00
36_L39_T0.8811.00
3_I25_L0.8741.00
35_L47_T0.8721.00
29_P32_D0.8701.00
56_L61_M0.8651.00
30_P33_D0.7831.00
6_N28_P0.7821.00
6_N26_A0.7461.00
17_I22_I0.7431.00
8_R27_G0.7371.00
19_G23_V0.7331.00
35_L39_T0.6971.00
59_P62_E0.6881.00
55_D59_P0.6851.00
5_V10_Y0.6701.00
38_E54_V0.6691.00
24_A30_P0.6681.00
3_I10_Y0.6661.00
35_L41_T0.6641.00
32_D35_L0.6641.00
2_T59_P0.6601.00
43_G61_M0.6591.00
41_T64_F0.6541.00
35_L40_V0.6481.00
55_D60_G0.6431.00
17_I25_L0.6411.00
10_Y26_A0.6401.00
34_P47_T0.6401.00
4_I63_F0.6341.00
38_E46_G0.6291.00
41_T44_P0.6241.00
45_D65_V0.6201.00
39_T42_Y0.6141.00
20_A30_P0.6131.00
19_G22_I0.6131.00
14_K56_L0.6031.00
37_L47_T0.5951.00
19_G50_D0.5931.00
36_L40_V0.5781.00
10_Y29_P0.5691.00
57_K61_M0.5601.00
21_E53_S0.5591.00
4_I61_M0.5551.00
28_P31_P0.5451.00
40_V44_P0.5431.00
22_I63_F0.5431.00
39_T43_G0.5421.00
37_L45_D0.5411.00
31_P34_P0.5401.00
24_A27_G0.5351.00
37_L41_T0.5341.00
22_I26_A0.5321.00
28_P66_T0.5291.00
24_A28_P0.5271.00
37_L67_A0.5131.00
54_V63_F0.5091.00
43_G55_D0.5091.00
37_L65_V0.5001.00
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  
1tygB 1 0.7971 36.8 0.79 Contact Map
2cu3A 2 0.7971 33.9 0.794 Contact Map
2lekA 1 0.8841 29.4 0.8 Contact Map
1f0zA 1 0.8261 24.6 0.808 Contact Map
2k5pA 1 0.8986 21.3 0.813 Contact Map
1ryjA 1 0.8261 17.6 0.821 Contact Map
4mmhA 1 0.3043 9.8 0.84 Contact Map
2kmmA 1 0.8986 9.4 0.841 Contact Map
1wwtA 1 0.913 8.9 0.843 Contact Map
2zxqA 1 0.913 7.4 0.848 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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