GREMLIN Database
RPT - A repeated domain in UCH-protein
PFAM: PF13446 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 59 (56)
Sequences: 896 (713)
Seq/√Len: 95.2
META: 0.358

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
2_L6_Y4.2651.00
46_A54_L4.2341.00
17_D51_S4.0131.00
17_D49_R3.1991.00
24_Y39_R2.5651.00
8_Y41_A2.1231.00
8_Y38_L2.0361.00
47_E55_R1.6631.00
18_D53_R1.3870.99
3_E7_R1.3620.99
2_L48_A1.3390.99
26_A30_D1.2990.99
23_A26_A1.2980.99
34_Q37_E1.2970.99
43_R47_E1.2180.98
27_R38_L1.2160.98
23_A27_R1.1870.98
24_Y42_L1.1680.98
25_Q43_R1.1240.97
9_L41_A1.1130.97
10_G27_R1.1000.97
31_D38_L1.0380.96
12_D28_V1.0380.96
34_Q38_L1.0030.95
13_P29_E0.9860.94
19_L23_A0.9540.93
28_V43_R0.9360.93
6_Y45_I0.9040.91
44_V48_A0.8750.90
24_Y32_P0.8700.90
15_V19_L0.8400.88
4_Q7_R0.8210.87
52_E55_R0.8070.86
21_I29_E0.8070.86
41_A54_L0.8020.86
7_R40_E0.7980.85
5_A11_I0.7820.84
20_I45_I0.7800.84
18_D57_F0.7760.84
22_T26_A0.7740.83
13_P48_A0.7590.82
50_N55_R0.7500.81
43_R48_A0.7460.81
11_I15_V0.7450.81
10_G25_Q0.7430.81
16_D19_L0.7380.80
52_E56_N0.7230.79
26_A29_E0.7200.79
12_D22_T0.7160.78
42_L46_A0.6920.76
46_A55_R0.6810.75
7_R15_V0.6810.75
31_D34_Q0.6630.73
6_Y29_E0.6630.73
21_I39_R0.6620.73
20_I39_R0.6610.73
11_I20_I0.6580.72
24_Y38_L0.6570.72
18_D22_T0.6450.71
40_E43_R0.6410.70
43_R56_N0.6310.69
17_D20_I0.6270.69
14_D49_R0.6260.69
32_P35_K0.6150.67
42_L57_F0.6020.66
16_D30_D0.5970.65
40_E48_A0.5840.63
40_E47_E0.5760.62
28_V38_L0.5610.60
16_D52_E0.5600.60
6_Y13_P0.5370.57
16_D27_R0.5330.56
7_R37_E0.5300.56
19_L26_A0.5290.56
11_I56_N0.5270.55
27_R51_S0.5250.55
19_L24_Y0.5210.55
33_S41_A0.5210.55
22_T29_E0.5160.54
30_D35_K0.5150.54
14_D48_A0.5150.54
21_I57_F0.5060.53
19_L22_T0.5040.52
9_L47_E0.5000.52
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  
2guzB 1 0.9492 90.5 0.651 Contact Map
3apqA 1 0.9831 84 0.687 Contact Map
3lz8A 2 0 82.4 0.692 Contact Map
2ctqA 1 1 77.2 0.707 Contact Map
4rwuA 1 1 76.5 0.709 Contact Map
2guzA 2 0.8814 75.4 0.712 Contact Map
2yuaA 1 1 74.1 0.714 Contact Map
2ctpA 1 1 74 0.715 Contact Map
1gh6A 1 1 72.8 0.718 Contact Map
4j80A 2 1 72.5 0.718 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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