GREMLIN Database
YjfB_motility - Putative motility protein
PFAM: PF14070 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 57 (55)
Sequences: 4397 (3459)
Seq/√Len: 466.4
META: 0.849

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
20_A24_K2.5661.00
33_A39_M2.0671.00
13_V17_V1.9591.00
9_S12_Q1.9181.00
29_Q32_Q1.9091.00
10_Q14_Q1.9051.00
8_M12_Q1.7321.00
6_T9_S1.7121.00
5_S9_S1.6931.00
35_A38_Q1.6721.00
49_G52_G1.6601.00
14_Q18_G1.6031.00
47_P50_L1.5811.00
32_Q35_A1.4351.00
17_V20_A1.4341.00
23_K27_D1.4051.00
12_Q16_Q1.4041.00
50_L53_N1.3141.00
23_K26_L1.3031.00
21_V24_K1.2851.00
19_V23_K1.2241.00
43_E46_V1.2041.00
33_A37_L1.1521.00
12_Q15_Q1.1431.00
4_L8_M1.1181.00
28_T31_Q1.1031.00
6_T10_Q1.0831.00
20_A23_K1.0671.00
15_Q19_V1.0531.00
16_Q20_A1.0091.00
47_P52_G1.0081.00
46_V55_D1.0051.00
38_Q41_P0.9981.00
22_L25_A0.9541.00
45_S48_P0.9491.00
44_A47_P0.9451.00
42_M45_S0.9391.00
31_Q34_A0.9081.00
48_P52_G0.8881.00
24_K28_T0.8871.00
30_E34_A0.8731.00
16_Q19_V0.8631.00
35_A39_M0.8571.00
25_A29_Q0.8341.00
46_V52_G0.8081.00
14_Q17_V0.8021.00
36_L40_L0.8001.00
44_A48_P0.7691.00
4_L7_A0.7401.00
13_V16_Q0.7371.00
10_Q13_V0.7251.00
17_V21_V0.7231.00
11_A14_Q0.7201.00
36_L39_M0.7131.00
46_V49_G0.6961.00
33_A41_P0.6931.00
29_Q33_A0.6891.00
45_S49_G0.6691.00
25_A32_Q0.6691.00
34_A39_M0.6651.00
15_Q26_L0.6621.00
23_K29_Q0.6621.00
42_M46_V0.6461.00
33_A40_L0.6371.00
33_A36_L0.6280.99
34_A38_Q0.6110.99
31_Q35_A0.6030.99
28_T32_Q0.6030.99
2_A5_S0.6020.99
22_L36_L0.5950.99
43_E47_P0.5910.99
25_A28_T0.5890.99
24_K27_D0.5650.99
27_D33_A0.5600.99
37_L41_P0.5570.99
2_A9_S0.5520.99
8_M11_A0.5390.98
11_A15_Q0.5280.98
5_S8_M0.5120.98
47_P55_D0.5080.98
3_A6_T0.5080.98
32_Q39_M0.5000.97
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  
1ucuA 1 0.6491 4.8 0.839 Contact Map
1e3pA 3 1 2.6 0.859 Contact Map
1oryB 2 0.6491 2.4 0.861 Contact Map
4lg3A 1 0.9474 1.7 0.872 Contact Map
4m4dA 1 0.7895 1.4 0.879 Contact Map
1iedA 2 0.3509 1.2 0.883 Contact Map
1at3A 3 0.2456 1.2 0.883 Contact Map
1ewfA 1 0.7895 1 0.888 Contact Map
2yciX 2 0.3509 1 0.889 Contact Map
3zyqA 1 0.4737 1 0.891 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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