GREMLIN Database
Whib - Transcription factor WhiB
PFAM: PF02467 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 64 (63)
Sequences: 30229 (18143)
Seq/√Len: 2285.7
META: 0.925

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
42_Y46_N2.6881.00
42_Y53_W2.6771.00
6_A32_G2.2971.00
36_R40_L1.9661.00
23_E52_V1.9301.00
10_V29_I1.8711.00
40_L56_L1.8141.00
26_A52_V1.6871.00
40_L44_L1.6421.00
6_A9_G1.6271.00
31_A36_R1.5851.00
44_L56_L1.5821.00
2_R42_Y1.5251.00
56_L60_E1.5151.00
27_K60_E1.4581.00
50_Y58_E1.4201.00
23_E57_T1.4131.00
23_E27_K1.3691.00
42_Y48_E1.3601.00
41_E45_E1.3221.00
35_V38_E1.2871.00
27_K57_T1.2831.00
11_D14_L1.2571.00
27_K52_V1.2541.00
43_A53_W1.2471.00
36_R54_G1.2181.00
30_C33_C1.2171.00
14_L25_A1.2111.00
10_V14_L1.1831.00
5_A35_V1.1671.00
46_N49_P1.1581.00
5_A8_R1.1571.00
43_A54_G1.1571.00
12_P16_F1.0681.00
4_R34_P1.0671.00
17_P20_G1.0641.00
57_T60_E1.0551.00
22_R25_A1.0381.00
58_E62_R1.0021.00
25_A28_A0.9971.00
6_A29_I0.9901.00
17_P23_E0.9511.00
10_V15_F0.9501.00
1_W5_A0.8551.00
37_A41_E0.8481.00
6_A34_P0.8431.00
18_E22_R0.8421.00
24_A27_K0.8341.00
27_K31_A0.8321.00
48_E53_W0.8291.00
36_R56_L0.7971.00
19_G22_R0.7861.00
59_R62_R0.7841.00
16_F53_W0.7701.00
13_E16_F0.7631.00
24_A28_A0.7621.00
14_L26_A0.7341.00
16_F51_G0.7231.00
17_P22_R0.7131.00
16_F50_Y0.7131.00
33_C39_C0.7111.00
10_V13_E0.6711.00
1_W35_V0.6661.00
52_V57_T0.6641.00
31_A55_G0.6631.00
9_G12_P0.6471.00
6_A35_V0.6461.00
4_R35_V0.6391.00
3_D8_R0.6381.00
36_R55_G0.6331.00
32_G36_R0.6221.00
37_A40_L0.6111.00
49_P53_W0.6041.00
25_A29_I0.5991.00
56_L61_R0.5931.00
28_A32_G0.5891.00
29_I32_G0.5861.00
15_F29_I0.5841.00
23_E58_E0.5631.00
40_L54_G0.5591.00
28_A31_A0.5571.00
9_G34_P0.5571.00
21_A25_A0.5501.00
26_A29_I0.5451.00
38_E41_E0.5341.00
30_C39_C0.5321.00
21_A24_A0.5311.00
47_R50_Y0.5161.00
1_W4_R0.5131.00
46_N53_W0.5111.00
38_E42_Y0.5051.00
44_L48_E0.5021.00
20_G59_R0.5011.00
34_P37_A0.5001.00
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  
1pxqA 1 0.4062 14.2 0.84 Contact Map
1keaA 2 0.7031 5.6 0.867 Contact Map
4lixA 1 0.9375 5.2 0.869 Contact Map
2abkA 1 0.7344 3.8 0.877 Contact Map
2wj8A 4 1 3.6 0.879 Contact Map
3sdrA 1 0.8906 3.4 0.88 Contact Map
3fspA 1 1 3.2 0.882 Contact Map
4r5qA 1 0.4844 3.1 0.882 Contact Map
1kg2A 1 0.8594 2.8 0.885 Contact Map
1nqzA 1 0.5312 2.6 0.886 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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