GREMLIN Database
YiaAB - yiaA/B two helix domain
PFAM: PF05360 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 53 (53)
Sequences: 5048 (2148)
Seq/√Len: 295.1
META: 0.842

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
45_F48_Q3.5371.00
37_L40_L3.0601.00
3_G7_A2.3331.00
25_L29_E2.0241.00
1_F5_S1.9811.00
26_D29_E1.9101.00
16_L37_L1.8661.00
10_A14_L1.8231.00
39_F42_F1.6761.00
2_Y6_W1.5991.00
3_G6_W1.5841.00
7_A11_L1.5811.00
35_M39_F1.5531.00
2_Y5_S1.5141.00
14_L18_I1.4661.00
18_I22_N1.3901.00
47_L50_T1.3451.00
4_Q8_S1.3421.00
8_S42_F1.3381.00
8_S39_F1.2311.00
14_L21_W1.2311.00
20_L37_L1.2281.00
1_F50_T1.1991.00
1_F4_Q1.0521.00
28_W32_F1.0141.00
48_Q51_V0.9981.00
47_L51_V0.9971.00
21_W27_L0.9971.00
17_A34_A0.9931.00
16_L36_G0.9581.00
18_I27_L0.9441.00
49_K53_D0.9361.00
1_F6_W0.9131.00
42_F46_T0.9081.00
45_F51_V0.8921.00
46_T50_T0.8871.00
39_F43_S0.8631.00
11_L38_L0.8101.00
17_A38_L0.8081.00
12_A16_L0.7880.99
17_A21_W0.7670.99
9_F13_L0.7640.99
13_L37_L0.7630.99
7_A10_A0.7390.99
23_A29_E0.7240.99
19_G32_F0.7150.99
15_L22_N0.6990.99
27_L30_K0.6830.98
13_L40_L0.6790.98
38_L43_S0.6750.98
15_L35_M0.6570.98
33_Y44_A0.6550.98
44_A48_Q0.6510.98
25_L28_W0.6440.98
16_L19_G0.6300.97
11_L14_L0.6290.97
26_D35_M0.6260.97
15_L36_G0.6140.97
14_L27_L0.6130.97
13_L41_L0.5870.96
49_K52_R0.5860.96
17_A27_L0.5810.96
41_L44_A0.5800.96
9_F12_A0.5780.96
12_A15_L0.5760.96
6_W10_A0.5700.95
27_L31_G0.5690.95
24_P28_W0.5650.95
8_S12_A0.5520.94
20_L29_E0.5480.94
21_W24_P0.5360.94
21_W30_K0.5360.94
14_L24_P0.5340.93
12_A37_L0.5290.93
6_W14_L0.5270.93
8_S44_A0.5250.93
10_A21_W0.5110.92
4_Q46_T0.5100.92
33_Y46_T0.5050.91
1_F48_Q0.5000.91
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  
4lwlA 1 0.5094 5.8 0.845 Contact Map
3bqhA 1 0.5094 2.7 0.869 Contact Map
4hyjA 2 0.9434 2.5 0.871 Contact Map
4od4A 1 1 2.4 0.872 Contact Map
2i68A 2 0.6981 2.3 0.873 Contact Map
3e0mA 4 0.5094 2.2 0.874 Contact Map
4ev6A 3 0.9811 1.9 0.878 Contact Map
5a63B 1 0.3774 1.9 0.878 Contact Map
4gwbA 2 0.4906 1.9 0.878 Contact Map
3b5dA 2 0.9057 1.8 0.881 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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