GREMLIN Database
SdpI - SdpI/YhfL protein family
PFAM: PF13630 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 67 (65)
Sequences: 15581 (13209)
Seq/√Len: 1638.4
META: 0.898

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
4_P19_E3.5451.00
19_E23_Y3.0791.00
20_E24_K2.6011.00
28_L62_V1.9451.00
18_S21_V1.8981.00
2_V8_I1.8691.00
59_A63_P1.7161.00
23_Y27_R1.6601.00
6_Y17_S1.6401.00
10_I29_G1.6081.00
12_T15_T1.5701.00
28_L32_L1.5551.00
14_W21_V1.4971.00
6_Y16_L1.4671.00
12_T64_V1.4651.00
3_K23_Y1.4531.00
20_E23_Y1.4401.00
15_T25_T1.4181.00
50_L54_V1.4041.00
56_L60_A1.3811.00
15_T26_H1.3281.00
22_W26_H1.3281.00
45_L48_A1.2971.00
21_V24_K1.2651.00
40_L44_A1.2531.00
53_L57_L1.2071.00
37_G44_A1.1951.00
51_V55_A1.1771.00
4_P17_S1.1131.00
55_A59_A1.0571.00
52_L56_L1.0491.00
10_I25_T1.0481.00
15_T21_V1.0331.00
28_L31_K1.0261.00
36_A59_A1.0201.00
62_V65_V0.9951.00
27_R31_K0.9911.00
45_L49_F0.9721.00
13_P17_S0.9661.00
14_W25_T0.9551.00
24_K28_L0.9411.00
21_V25_T0.9271.00
17_S21_V0.9081.00
49_F53_L0.8951.00
32_L35_A0.8921.00
41_L44_A0.8921.00
30_G37_G0.8731.00
12_T21_V0.8701.00
4_P16_L0.8651.00
31_K34_V0.8421.00
4_P23_Y0.8371.00
10_I26_H0.8211.00
47_A50_L0.8191.00
4_P8_I0.8021.00
51_V54_V0.7981.00
28_L66_Y0.7721.00
50_L53_L0.7641.00
61_L64_V0.7391.00
60_A64_V0.7321.00
2_V23_Y0.7291.00
48_A51_V0.7201.00
34_V38_L0.7171.00
54_V57_L0.7021.00
36_A40_L0.6961.00
36_A55_A0.6901.00
49_F52_L0.6861.00
11_R15_T0.6861.00
57_L61_L0.6841.00
60_A63_P0.6811.00
29_G33_F0.6801.00
54_V58_L0.6611.00
2_V34_V0.6561.00
46_G49_F0.6411.00
53_L60_A0.6371.00
10_I15_T0.6371.00
32_L59_A0.6281.00
3_K6_Y0.6191.00
27_R35_A0.6031.00
47_A51_V0.5981.00
32_L36_A0.5931.00
11_R16_L0.5911.00
6_Y13_P0.5901.00
29_G63_P0.5701.00
56_L59_A0.5601.00
52_L55_A0.5571.00
38_L42_L0.5431.00
46_G50_L0.5391.00
55_A63_P0.5371.00
12_T17_S0.5221.00
26_H33_F0.5201.00
37_G55_A0.5181.00
29_G32_L0.5171.00
2_V5_N0.5141.00
32_L40_L0.5041.00
49_F56_L0.5021.00
9_G22_W0.5021.00
33_F59_A0.5011.00
3_K19_E0.5001.00
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  
4o6yA 2 1 11.5 0.844 Contact Map
2y69D 1 0.3433 5.2 0.867 Contact Map
1v54D 1 0.3433 4.6 0.87 Contact Map
3htsB 2 0.3881 2.5 0.886 Contact Map
1uhvA 3 0.4627 2.3 0.888 Contact Map
3wguB 1 0.806 2.2 0.89 Contact Map
3terA 2 0.4179 2.1 0.89 Contact Map
1oq1A 1 0.403 1.9 0.893 Contact Map
3wxwA 1 0.9701 1.8 0.894 Contact Map
4us3A 1 0.6567 1.8 0.894 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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