GREMLIN Database
Ytca - Uncharacterised protein family
PFAM: PF17090 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 62 (62)
Sequences: 3128 (1624)
Seq/√Len: 206.2
META: 0.946

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
24_L53_F5.4491.00
28_A53_F3.0111.00
51_A55_F2.9351.00
40_G43_P2.2691.00
43_P47_P2.2371.00
29_R33_V2.1711.00
20_I57_L1.9021.00
7_L10_F1.8481.00
3_S7_L1.7391.00
18_L40_G1.6171.00
5_D13_A1.5261.00
40_G45_V1.5031.00
47_P50_A1.4411.00
41_P45_V1.4191.00
33_V36_G1.3521.00
16_L20_I1.3491.00
25_T50_A1.2851.00
15_L42_P1.2771.00
6_I11_F1.2771.00
31_L35_L1.2181.00
4_F16_L1.2011.00
21_G57_L1.1811.00
52_L56_A1.1511.00
46_Y50_A1.0991.00
42_P45_V1.0501.00
13_A55_F1.0241.00
9_S54_T1.0081.00
56_A60_L0.9851.00
18_L50_A0.9821.00
4_F62_F0.9741.00
23_V27_V0.9711.00
26_V29_R0.9270.99
22_I50_A0.9030.99
39_L43_P0.8870.99
6_I16_L0.8870.99
36_G62_F0.8850.99
1_A4_F0.8840.99
37_L45_V0.8830.99
30_W34_R0.8800.99
17_C55_F0.8540.99
5_D21_G0.8510.99
15_L19_V0.8440.99
9_S15_L0.8400.99
39_L42_P0.8300.99
52_L55_F0.8290.99
26_V30_W0.8220.98
32_L35_L0.8200.98
21_G25_T0.8180.98
27_V31_L0.8090.98
20_I24_L0.8030.98
1_A32_L0.7890.98
21_G50_A0.7450.97
49_L53_F0.7430.97
28_A49_L0.7430.97
47_P51_A0.7270.97
55_F59_L0.7200.96
7_L11_F0.7190.96
57_L60_L0.7100.96
53_F61_F0.7010.96
19_V23_V0.6720.95
29_R46_Y0.6700.95
23_V30_W0.6690.95
32_L49_L0.6660.95
17_C61_F0.6590.94
38_E43_P0.6390.93
41_P44_L0.6190.92
7_L15_L0.6110.92
15_L51_A0.6050.91
10_F16_L0.5970.91
23_V58_W0.5920.90
15_L40_G0.5920.90
34_R51_A0.5900.90
25_T49_L0.5860.90
1_A10_F0.5850.90
5_D55_F0.5780.89
1_A17_C0.5770.89
22_I58_W0.5750.89
18_L57_L0.5680.88
3_S10_F0.5650.88
46_Y49_L0.5600.88
28_A46_Y0.5590.88
27_V30_W0.5540.87
13_A16_L0.5500.87
19_V57_L0.5480.87
57_L61_F0.5470.86
7_L22_I0.5440.86
55_F62_F0.5360.85
48_S51_A0.5340.85
5_D9_S0.5190.84
44_L59_L0.5120.83
15_L47_P0.5120.83
13_A57_L0.5040.82
19_V38_E0.5000.81
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  
4qinA 2 1 3.7 0.891 Contact Map
4jkvA 2 1 3.5 0.892 Contact Map
3ixzB 1 0.4516 2.8 0.897 Contact Map
3wguB 1 0.7742 2.8 0.898 Contact Map
4ezcA 3 0.8548 2.5 0.9 Contact Map
4nv5A 1 0.9677 2.2 0.902 Contact Map
3dh4A 3 1 2 0.905 Contact Map
3hd6A 3 0.9677 1.7 0.909 Contact Map
3o7qA 1 0.5484 1.7 0.909 Contact Map
4hfiA 3 1 1.5 0.911 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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