GREMLIN Database
YHZD - Uncharacterized protein YhzD
UniProt: C0H3Y1 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 61 (60)
Sequences: 108 (90)
Seq/√Len: 11.7

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
8_V42_L5.1741.00
21_F49_L2.6790.91
36_L40_K2.6710.91
24_E28_A2.0260.74
10_D45_H2.0130.74
34_E38_K1.9410.71
23_A37_L1.7530.63
31_T34_E1.6840.60
26_E52_A1.6290.57
10_D16_L1.6270.57
15_T18_N1.5780.55
6_L23_A1.5250.52
6_L49_L1.4730.49
21_F37_L1.3970.46
8_V45_H1.3540.44
22_E25_H1.3530.43
38_K43_H1.3280.42
6_L37_L1.2900.40
11_P27_E1.2700.39
32_H35_A1.2170.37
34_E43_H1.1640.35
8_V16_L1.1540.34
3_D22_E1.1210.33
22_E34_E1.0810.31
11_P20_Q1.0740.31
15_T50_V1.0500.30
49_L57_I1.0420.29
5_F18_N1.0410.29
36_L51_N1.0180.28
44_S60_H1.0050.28
11_P39_E0.9810.27
26_E60_H0.9770.27
40_K54_G0.9560.26
32_H36_L0.9430.25
2_A26_E0.9400.25
2_A54_G0.9010.24
14_N30_K0.8890.23
32_H42_L0.8840.23
26_E41_E0.8460.22
26_E57_I0.8430.22
19_E36_L0.8410.22
51_N57_I0.8350.22
41_E53_A0.8310.21
24_E31_T0.8230.21
6_L21_F0.8010.20
9_F49_L0.7980.20
6_L58_L0.7940.20
17_V28_A0.7870.20
15_T49_L0.7860.20
5_F36_L0.7790.20
36_L42_L0.7710.20
4_Y18_N0.7690.19
9_F47_H0.7650.19
15_T51_N0.7650.19
50_V53_A0.7460.19
10_D18_N0.7390.19
29_A58_L0.7370.19
25_H50_V0.7110.18
17_V49_L0.7070.18
2_A53_A0.7040.18
18_N56_L0.6950.17
51_N55_K0.6950.17
5_F40_K0.6890.17
20_Q45_H0.6850.17
2_A22_E0.6820.17
41_E44_S0.6780.17
12_S43_H0.6740.17
16_L36_L0.6690.17
45_H54_G0.6450.16
52_A60_H0.6420.16
26_E45_H0.6330.16
10_D40_K0.6170.15
9_F15_T0.6060.15
23_A51_N0.6000.15
14_N45_H0.5700.14
5_F52_A0.5560.14
42_L55_K0.5420.13
41_E60_H0.5400.13
22_E27_E0.5400.13
51_N56_L0.5320.13
3_D16_L0.5310.13
29_A47_H0.5260.13
2_A27_E0.5160.13
31_T45_H0.5160.13
31_T35_A0.5140.13
11_P18_N0.5140.13
18_N26_E0.5060.13
14_N38_K0.5060.13
26_E43_H0.5050.13
20_Q25_H0.5000.12
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  
2oycA 2 1 28.4 0.893 Contact Map
2j3tC 1 0.9672 27.3 0.894 Contact Map
2zosA 1 0.9016 22.7 0.897 Contact Map
1qksA 2 0.9836 15.8 0.904 Contact Map
3cueC 1 0.9508 13.7 0.908 Contact Map
1nirA 2 0.918 13.6 0.908 Contact Map
2dhoA 1 0.7377 11.4 0.911 Contact Map
4nkpA 5 0.7377 10.8 0.911 Contact Map
4hvtA 1 1 9.1 0.915 Contact Map
2x4dA 2 1 9 0.915 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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