GREMLIN Database
YDBC - Uncharacterized protein YdbC
UniProt: P96598 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 119 (90)
Sequences: 180 (89)
Seq/√Len: 9.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
6_M53_I2.5150.82
4_K66_F2.4670.80
40_G80_Q2.2020.72
44_T79_D2.1710.71
67_M71_H2.0150.65
4_K89_V1.9420.62
41_W66_F1.8540.58
10_V55_S1.8410.58
6_M66_F1.7940.55
40_G84_I1.7890.55
4_K51_A1.7630.54
12_A16_E1.7040.52
40_G71_H1.7030.51
66_F89_V1.7020.51
8_C87_I1.6920.51
51_A66_F1.6760.50
66_F71_H1.6720.50
40_G66_F1.5510.45
72_D80_Q1.5340.44
4_K41_W1.4940.42
6_M51_A1.4940.42
34_F66_F1.4380.40
69_N88_E1.4220.39
16_E61_E1.4180.39
19_A41_W1.4010.38
32_S93_E1.3600.37
21_A75_Y1.3500.36
4_K63_Y1.3070.34
16_E81_K1.2960.34
4_K80_Q1.2890.34
4_K71_H1.2840.34
23_S82_A1.2690.33
7_I55_S1.2620.33
60_R64_D1.2600.33
54_I77_E1.2480.32
63_Y66_F1.2320.32
41_W71_H1.2080.31
66_F80_Q1.1760.29
54_I90_T1.1580.29
51_A72_D1.1540.29
51_A80_Q1.1430.28
74_I89_V1.1400.28
4_K67_M1.1380.28
4_K40_G1.1340.28
68_E73_S1.1210.27
31_I73_S1.0890.26
4_K72_D1.0840.26
78_N92_Y1.0820.26
9_E86_S1.0760.26
4_K34_F1.0730.26
2_L60_R1.0710.26
42_R92_Y1.0650.25
8_C71_H1.0410.25
17_A31_I1.0330.24
40_G67_M1.0110.24
2_L31_I0.9900.23
44_T47_E0.9770.23
71_H80_Q0.9740.23
13_A16_E0.9560.22
29_S82_A0.9530.22
51_A67_M0.9330.21
2_L91_V0.9330.21
8_C58_E0.9180.21
66_F83_V0.9170.21
5_K52_E0.8970.20
41_W51_A0.8880.20
9_E43_K0.8710.20
59_N70_E0.8460.19
41_W67_M0.8390.19
56_V59_N0.8360.19
13_A64_D0.8290.18
4_K84_I0.8280.18
80_Q84_I0.8250.18
6_M41_W0.8190.18
75_Y84_I0.7970.18
34_F40_G0.7920.17
63_Y91_V0.7790.17
80_Q83_V0.7770.17
60_R93_E0.7760.17
30_H35_I0.7740.17
35_I93_E0.7670.17
2_L48_P0.7640.17
73_S93_E0.7630.17
66_F72_D0.7600.17
49_L68_E0.7520.16
51_A71_H0.7390.16
66_F84_I0.7360.16
28_L34_F0.7340.16
51_A55_S0.7280.16
58_E73_S0.7060.15
52_E91_V0.7020.15
2_L28_L0.7010.15
3_I35_I0.6800.15
34_F51_A0.6790.15
40_G72_D0.6700.15
29_S93_E0.6670.14
5_K76_E0.6470.14
33_G39_G0.6450.14
31_I44_T0.6440.14
14_N28_L0.6420.14
3_I74_I0.6310.14
4_K53_I0.6250.14
42_R74_I0.6250.14
23_S76_E0.6240.14
52_E95_D0.6230.14
12_A43_K0.6130.13
36_K67_M0.6090.13
63_Y80_Q0.6080.13
67_M91_V0.6060.13
43_K52_E0.6030.13
51_A63_Y0.5990.13
34_F71_H0.5970.13
3_I7_I0.5960.13
16_E47_E0.5790.13
16_E20_K0.5780.13
4_K83_V0.5730.13
2_L49_L0.5600.12
15_A69_N0.5570.12
70_E79_D0.5560.12
2_L42_R0.5510.12
73_S76_E0.5490.12
67_M72_D0.5370.12
32_S44_T0.5370.12
61_E68_E0.5360.12
43_K86_S0.5320.12
26_E29_S0.5320.12
41_W80_Q0.5290.12
34_F41_W0.5250.12
53_I75_Y0.5160.11
76_E82_A0.5130.11
53_I74_I0.5100.11
48_P77_E0.5070.11
48_P81_K0.5040.11
70_E86_S0.5000.11
40_G51_A0.5000.11
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  
1tz0A 3 0.8487 97.6 0.813 Contact Map
2gffA 2 0.8235 97.6 0.815 Contact Map
1sqeA 2 0.8067 97.6 0.815 Contact Map
2rilA 2 0.7311 97.5 0.816 Contact Map
2zdoA 2 0.8235 97.5 0.817 Contact Map
4zosA 2 0.7899 97.5 0.817 Contact Map
3e8oA 2 0.8403 97.4 0.819 Contact Map
2fb0A 2 0.7563 97.4 0.819 Contact Map
3f44A 1 0.8235 97.4 0.82 Contact Map
3hx9A 2 0.8403 97.4 0.82 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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