GREMLIN Database
YBZG - Putative ribosome-binding protein YbzG
UniProt: C0H3S8 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 74 (71)
Sequences: 147 (112)
Seq/√Len: 13.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
12_K38_T2.6250.93
41_S67_T2.5880.93
7_W51_T2.4360.90
13_T35_E2.4350.90
14_E38_T2.3250.88
39_F57_S2.3120.88
31_T50_L2.1590.84
2_I64_I2.0810.81
46_N70_V1.9810.78
20_V47_I1.9470.77
20_V52_L1.7600.69
24_L30_L1.7000.66
21_V40_H1.5590.59
13_T50_L1.5480.58
63_S67_T1.5000.56
23_I50_L1.4750.55
62_N65_N1.4580.54
66_E71_T1.4320.52
57_S60_V1.4270.52
29_V54_D1.4260.52
8_V18_L1.4210.52
30_L53_Y1.3350.47
8_V16_I1.2690.44
8_V36_K1.1880.40
31_T54_D1.1360.37
27_I68_G1.1360.37
18_L31_T1.1020.35
18_L69_R1.0980.35
15_F54_D1.0830.34
36_K60_V1.0700.34
59_E63_S1.0550.33
17_L44_K1.0540.33
13_T31_T1.0480.33
32_A71_T1.0440.33
61_Q64_I1.0420.33
60_V71_T1.0280.32
5_K55_C1.0070.31
14_E61_Q0.9930.30
5_K53_Y0.9920.30
4_Q36_K0.9880.30
2_I55_C0.9590.29
8_V41_S0.9460.28
44_K51_T0.9450.28
21_V32_A0.9440.28
38_T47_I0.9080.27
18_L46_N0.8830.26
19_L68_G0.8670.25
19_L44_K0.8580.25
47_I52_L0.8470.24
18_L44_K0.8350.24
40_H69_R0.8230.23
38_T61_Q0.8140.23
58_P62_N0.8120.23
9_N28_N0.8100.23
22_G42_P0.8080.23
61_Q65_N0.8040.23
10_I42_P0.8040.23
2_I65_N0.7900.22
7_W57_S0.7880.22
5_K28_N0.7870.22
51_T69_R0.7840.22
30_L42_P0.7720.21
22_G55_C0.7650.21
63_S71_T0.7360.20
4_Q56_V0.7340.20
4_Q52_L0.7340.20
32_A69_R0.7300.20
24_L62_N0.7230.20
28_N51_T0.7210.20
60_V63_S0.7180.20
29_V50_L0.7110.19
6_A56_V0.7100.19
23_I47_I0.6860.19
22_G30_L0.6810.18
31_T38_T0.6800.18
29_V35_E0.6720.18
35_E65_N0.6650.18
52_L71_T0.6520.17
9_N26_I0.6440.17
63_S68_G0.6400.17
23_I64_I0.6380.17
46_N67_T0.6300.17
24_L47_I0.6230.17
57_S63_S0.6190.16
63_S66_E0.6140.16
23_I51_T0.6010.16
40_H63_S0.5910.16
2_I24_L0.5800.15
20_V25_T0.5770.15
28_N46_N0.5680.15
28_N31_T0.5680.15
10_I20_V0.5630.15
16_I20_V0.5580.15
52_L66_E0.5570.15
26_I67_T0.5570.15
17_L53_Y0.5500.15
18_L42_P0.5390.14
6_A47_I0.5250.14
15_F58_P0.5220.14
31_T69_R0.5210.14
6_A20_V0.5200.14
7_W53_Y0.5110.14
55_C64_I0.5080.14
52_L57_S0.5060.13
12_K64_I0.5030.13
9_N58_P0.5000.13
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  
4w20M 1 0.973 99.4 0.58 Contact Map
3zf7P 1 0.9595 99.3 0.597 Contact Map
4a18F 1 0.9459 99.2 0.608 Contact Map
3j215 1 0.9595 99.2 0.617 Contact Map
3j61M 1 0.9189 99.2 0.623 Contact Map
4ujqO 1 0.9595 99.1 0.625 Contact Map
3j39M 1 0.9595 99.1 0.625 Contact Map
2joyA 1 0.973 99.1 0.63 Contact Map
1vx7N 1 0.9595 99 0.64 Contact Map
1vx71 1 1 98.7 0.678 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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