GREMLIN Database
YBCJ - Uncharacterized protein YbcJ
UniProt: P0AAS7 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12879
Length: 70 (65)
Sequences: 342 (233)
Seq/√Len: 28.9

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
13_E16_D3.6211.00
42_D57_Q2.9261.00
60_S65_S2.8261.00
10_P54_V2.3550.99
12_V20_L2.1890.98
35_A49_K2.1480.98
33_A61_F2.1130.98
6_L55_A2.1050.98
3_T67_Q2.0600.97
41_V59_V2.0170.97
53_I68_V1.9820.97
13_E50_R1.8500.95
25_E29_Q1.7240.93
58_T65_S1.5170.87
41_V57_Q1.4710.85
35_A50_R1.4410.84
41_V51_C1.4170.83
22_G25_E1.3600.80
30_A34_I1.3580.80
58_T67_Q1.2970.77
24_S33_A1.2760.75
24_S29_Q1.1130.65
51_C57_Q1.1020.64
29_Q51_C1.0980.64
23_W64_H1.0650.61
30_A50_R1.0500.60
4_F21_E1.0080.57
23_W62_A0.9980.56
11_H36_E0.9910.56
23_W61_F0.9730.54
40_K60_S0.9730.54
28_A50_R0.9570.53
40_K45_V0.9550.53
40_K44_A0.9530.53
60_S63_G0.9470.52
21_E50_R0.9230.50
16_D24_S0.9180.50
23_W30_A0.9160.50
12_V22_G0.8900.48
31_K53_I0.8710.46
10_P47_T0.8420.44
48_R51_C0.8360.44
6_L68_V0.8320.43
8_K12_V0.8280.43
33_A36_E0.8260.43
5_S10_P0.8220.43
12_V54_V0.8180.42
61_F64_H0.8180.42
42_D68_V0.8110.42
3_T45_V0.7820.40
24_S61_F0.7590.38
26_S53_I0.7570.38
28_A54_V0.7480.37
15_C34_I0.7450.37
7_G20_L0.7410.37
30_A61_F0.7190.35
30_A45_V0.7150.35
4_F66_V0.7110.34
42_D59_V0.7100.34
24_S65_S0.7090.34
56_G66_V0.7030.34
46_E51_C0.7000.34
10_P32_I0.6930.33
15_C50_R0.6910.33
45_V64_H0.6790.32
13_E49_K0.6740.32
11_H28_A0.6680.31
40_K63_G0.6630.31
6_L17_L0.6570.31
5_S67_Q0.6560.31
36_E47_T0.6440.30
17_L68_V0.6400.30
31_K41_V0.6400.30
16_D21_E0.6390.30
41_V46_E0.6360.29
26_S32_I0.6270.29
26_S46_E0.6200.28
6_L31_K0.6140.28
32_I38_Q0.6130.28
47_T62_A0.6060.27
47_T63_G0.5810.26
23_W50_R0.5700.25
19_K26_S0.5630.25
21_E66_V0.5600.25
6_L11_H0.5520.24
44_A63_G0.5470.24
13_E31_K0.5470.24
43_G62_A0.5380.23
8_K11_H0.5330.23
5_S34_I0.5320.23
29_Q60_S0.5320.23
12_V41_V0.5280.23
4_F34_I0.5270.23
6_L22_G0.5180.22
32_I55_A0.5140.22
14_L46_E0.5060.22
51_C68_V0.5050.22
15_C31_K0.5000.21
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  
1p9kA 1 1 98.6 0.655 Contact Map
4rb5D 1 1 97.9 0.714 Contact Map
3j20D 1 0.9857 97.8 0.721 Contact Map
3zey6 1 0.9857 97.6 0.733 Contact Map
4ujpK 1 0.9857 97.6 0.733 Contact Map
1c05A 1 1 97.5 0.738 Contact Map
3j7aE 1 1 97.5 0.738 Contact Map
1kskA 1 0.8714 97.4 0.739 Contact Map
3bbnD 1 0.9857 97.4 0.739 Contact Map
3j80J 1 0.9857 97.4 0.743 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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