GREMLIN Database
YCIU - UPF0263 protein YciU
UniProt: P0A8L7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG14256
Length: 109 (101)
Sequences: 104 (42)
Seq/√Len: 4.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
19_Y23_L4.0100.85
8_R95_C2.9360.61
38_F89_F2.8300.58
16_E78_A2.5520.50
47_G108_R2.2670.41
35_V39_N2.2250.40
19_Y49_E2.1880.39
52_D75_I2.1500.38
21_I88_V1.9340.32
12_D80_S1.8720.31
33_A41_Q1.6710.26
13_E85_I1.5870.24
53_P67_P1.5570.23
23_L49_E1.5520.23
42_F47_G1.4970.22
64_D103_C1.4470.21
66_N86_N1.4370.21
54_A91_R1.4290.21
27_A84_E1.4160.20
13_E25_L1.3930.20
9_L98_K1.3440.19
28_D96_R1.3150.19
42_F54_A1.2930.18
15_L31_D1.2720.18
91_R98_K1.2530.18
37_L45_R1.2530.18
20_D82_D1.2480.17
12_D72_E1.2360.17
62_D66_N1.2240.17
19_Y38_F1.2210.17
14_T86_N1.2190.17
94_L101_K1.2130.17
45_R55_E1.2060.17
25_L88_V1.2050.17
32_P41_Q1.1910.16
41_Q87_D1.1850.16
25_L66_N1.1750.16
20_D46_G1.1720.16
39_N89_F1.1500.16
59_E65_L1.1440.16
60_H106_I1.1390.16
25_L69_F1.1300.16
62_D65_L1.1280.15
19_Y89_F1.1110.15
16_E70_F1.0960.15
24_E90_A1.0910.15
33_A89_F1.0860.15
7_N68_D1.0800.15
54_A68_D1.0780.15
18_A22_F1.0760.15
23_L38_F1.0560.14
15_L61_V1.0390.14
90_A93_L1.0360.14
96_R101_K1.0080.14
77_L98_K1.0040.14
7_N100_H0.9940.14
52_D94_L0.9910.13
13_E98_K0.9910.13
72_E91_R0.9900.13
73_V84_E0.9880.13
10_T29_N0.9880.13
45_R87_D0.9850.13
25_L53_P0.9800.13
16_E40_L0.9770.13
43_E74_V0.9710.13
69_F98_K0.9560.13
9_L14_T0.9560.13
80_S86_N0.9550.13
49_E73_V0.9540.13
74_V92_I0.9500.13
47_G87_D0.9440.13
23_L73_V0.9420.13
70_F108_R0.9400.13
36_L88_V0.9370.13
38_F105_I0.9370.13
52_D61_V0.9320.13
87_D108_R0.9310.13
33_A37_L0.9150.12
33_A87_D0.8970.12
23_L89_F0.8910.12
34_D49_E0.8860.12
61_V75_I0.8790.12
11_E74_V0.8510.12
72_E77_L0.8490.12
36_L103_C0.8420.12
79_D86_N0.8390.12
16_E69_F0.8290.11
21_I103_C0.8260.11
92_I96_R0.8180.11
10_T55_E0.7980.11
80_S84_E0.7970.11
59_E63_F0.7950.11
28_D106_I0.7900.11
9_L17_Q0.7830.11
94_L108_R0.7830.11
8_R102_L0.7730.11
36_L99_D0.7590.11
11_E71_A0.7550.11
61_V102_L0.7510.10
11_E35_V0.7460.10
39_N67_P0.7440.10
40_L43_E0.7350.10
42_F72_E0.7340.10
89_F96_R0.7250.10
23_L105_I0.7240.10
16_E36_L0.7170.10
34_D93_L0.7110.10
19_Y33_A0.7090.10
20_D32_P0.6980.10
78_A99_D0.6920.10
58_Q99_D0.6860.10
59_E73_V0.6840.10
25_L103_C0.6800.10
69_F100_H0.6660.10
58_Q73_V0.6660.10
36_L44_E0.6600.10
60_H63_F0.6530.09
44_E70_F0.6510.09
99_D103_C0.6270.09
63_F75_I0.6230.09
27_A44_E0.6220.09
75_I92_I0.6120.09
93_L96_R0.6120.09
47_G100_H0.6080.09
16_E88_V0.6060.09
65_L69_F0.5950.09
8_R13_E0.5850.09
8_R14_T0.5810.09
21_I29_N0.5740.09
54_A72_E0.5660.09
43_E55_E0.5660.09
84_E97_E0.5640.09
19_Y105_I0.5610.09
58_Q89_F0.5570.09
59_E64_D0.5360.08
34_D43_E0.5350.08
69_F77_L0.5300.08
20_D87_D0.5260.08
56_D65_L0.5260.08
20_D45_R0.5210.08
64_D94_L0.5200.08
63_F92_I0.5180.08
34_D88_V0.5180.08
54_A79_D0.5170.08
51_F62_D0.5170.08
28_D101_K0.5160.08
9_L31_D0.5160.08
59_E106_I0.5150.08
71_A81_E0.5130.08
27_A102_L0.5100.08
32_P87_D0.5050.08
37_L88_V0.5000.08
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  
1nnvA 1 0.9817 100 0.04 Contact Map
3kkcA 2 0.9358 9.3 0.947 Contact Map
1regX 2 0.3303 4.5 0.954 Contact Map
3eupA 2 1 3.9 0.956 Contact Map
3kvwA 1 0.1927 3.5 0.956 Contact Map
2ac3A 1 0.1927 3.1 0.958 Contact Map
2i10A 2 0.8991 2.7 0.959 Contact Map
3neaA 1 0.3394 2.6 0.959 Contact Map
4c2vA 1 0.3119 2.5 0.96 Contact Map
2iaiA 2 0.9174 2.4 0.96 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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