GREMLIN Database
CTD - Spt5 C-terminal nonapeptide repeat binding Spt4
PFAM: PF12815 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 71 (65)
Sequences: 601 (499)
Seq/√Len: 61.9
META: 0.469

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
29_G48_G1.8131.00
13_S33_S1.6860.99
37_A56_A1.6610.99
28_Y47_Y1.5940.99
19_G48_G1.5270.98
52_S64_S1.5210.98
32_G51_G1.5130.98
23_S42_S1.4770.98
8_G29_G1.4750.98
9_A20_A1.4610.98
34_R53_R1.4460.98
23_S33_S1.4370.98
33_S52_S1.4270.98
9_A30_G1.3950.97
13_S52_S1.3900.97
38_W57_Y1.3880.97
14_R34_R1.3650.97
33_S42_S1.3500.97
19_G29_G1.3280.96
13_S42_S1.3270.96
18_W38_W1.3250.96
8_G19_G1.2990.96
12_G41_G1.2970.96
13_S23_S1.2730.95
20_A30_G1.2600.95
41_G51_G1.2300.94
21_D31_G1.2250.94
42_S52_S1.2200.94
22_G41_G1.2180.94
8_G48_G1.1970.93
24_R43_R1.1820.93
12_G51_G1.1470.92
48_G58_S1.1430.92
34_R43_R1.1430.92
12_G32_G1.1370.92
27_A46_A1.1330.91
17_A37_A1.1170.91
37_A46_A1.1060.90
18_W28_Y1.0940.90
42_S64_S1.0670.89
18_W47_Y1.0640.89
22_G32_G1.0380.87
7_Y18_W1.0340.87
12_G22_G1.0270.87
14_R43_R1.0160.86
43_R65_R0.9920.85
6_A17_A0.9910.85
28_Y38_W0.9870.85
24_R53_R0.9840.84
28_Y57_Y0.9830.84
7_Y38_W0.9610.83
53_R65_R0.9580.83
11_S50_A0.9560.83
38_W47_Y0.9330.81
46_A56_A0.9190.80
23_S52_S0.9010.79
20_A59_G0.8840.77
29_G58_S0.8690.76
18_W57_Y0.8650.76
24_R34_R0.8580.75
14_R53_R0.8550.75
35_T54_T0.8480.74
7_Y28_Y0.8430.74
43_R53_R0.8250.72
17_A46_A0.8180.72
40_A50_A0.8150.72
27_A37_A0.8010.70
22_G51_G0.7940.70
17_A27_A0.7900.69
47_Y57_Y0.7890.69
32_G41_G0.7800.68
3_R24_R0.7650.67
21_D40_A0.7500.65
6_A27_A0.7110.61
19_G58_S0.7050.60
15_T44_T0.6850.58
31_G50_A0.6770.57
30_G59_G0.6580.55
3_R34_R0.6430.53
25_T44_T0.6410.53
31_G40_A0.6270.52
21_D50_A0.6240.51
7_Y47_Y0.6060.49
30_G49_A0.6020.49
30_G39_N0.5960.48
13_S64_S0.5870.47
15_T54_T0.5860.47
14_R24_R0.5800.46
51_G63_G0.5690.45
39_N49_A0.5670.45
33_S64_S0.5630.44
6_A56_A0.5610.44
17_A56_A0.5540.43
4_T15_T0.5320.41
56_A68_A0.5200.40
11_S21_D0.5200.40
40_A60_A0.5020.38
25_T54_T0.5000.37
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  
1mjtA 2 0.338 1.8 0.889 Contact Map
4j7oA 1 0.6056 1 0.905 Contact Map
4fvyA 2 0.4789 0.8 0.909 Contact Map
2whxA 1 0.9296 0.7 0.912 Contact Map
2k3uB 1 0.0986 0.7 0.913 Contact Map
4e84A 2 0.0845 0.7 0.915 Contact Map
3ig5A 1 0.9155 0.7 0.915 Contact Map
1d0cA 2 0.3803 0.5 0.921 Contact Map
2brqC 2 0.1831 0.5 0.921 Contact Map
2vutI 1 0.2254 0.5 0.923 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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