GREMLIN Database
GBS_Bsp-like - GBS Bsp-like repeat
PFAM: PF08481 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 92 (87)
Sequences: 2463 (2014)
Seq/√Len: 215.9
META: 0.693

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
34_S67_E3.3411.00
13_D58_T2.6401.00
30_F47_A2.3931.00
35_E72_N2.1321.00
13_D56_K2.0781.00
16_V30_F1.9101.00
27_S46_T1.8781.00
31_P44_W1.8371.00
79_D83_N1.8281.00
35_E70_T1.8161.00
29_Q46_T1.8101.00
32_V73_V1.8061.00
15_T56_K1.7781.00
34_S40_D1.6991.00
43_K63_N1.5641.00
40_D67_E1.5531.00
50_Q56_K1.5241.00
60_N63_N1.5191.00
86_G89_G1.5001.00
36_A67_E1.4881.00
45_Y63_N1.4861.00
12_F73_V1.4201.00
27_S78_T1.4051.00
77_A87_V1.3891.00
50_Q54_T1.3781.00
26_K80_N1.3741.00
29_Q78_T1.3621.00
39_Q74_H1.3411.00
33_W39_Q1.2991.00
14_V59_V1.2641.00
31_P74_H1.2501.00
45_Y64_H1.2491.00
37_N40_D1.2431.00
39_Q42_L1.2411.00
44_W74_H1.2241.00
32_V59_V1.2241.00
29_Q84_L1.2091.00
39_Q44_W1.2041.00
61_I68_T1.1691.00
31_P42_L1.1681.00
49_K55_Y1.1261.00
34_S41_D1.1221.00
4_N11_T1.0961.00
11_T58_T1.0761.00
35_E38_G1.0721.00
78_T84_L1.0701.00
17_S54_T1.0581.00
30_F57_V1.0411.00
11_T60_N1.0261.00
30_F73_V1.0121.00
30_F75_V1.0081.00
24_G80_N0.9891.00
25_V77_A0.9771.00
50_Q53_G0.9671.00
49_K52_D0.9581.00
61_I66_N0.9551.00
23_S81_N0.9511.00
42_L74_H0.9381.00
79_D85_V0.9170.99
44_W76_Y0.9130.99
31_P39_Q0.9030.99
64_H67_E0.8690.99
4_N10_G0.8680.99
45_Y57_V0.8590.99
6_N9_A0.8540.99
35_E40_D0.8410.99
33_W41_D0.8380.99
4_N13_D0.8260.99
21_S24_G0.8190.99
17_S53_G0.7950.98
40_D65_K0.7910.98
23_S80_N0.7850.98
33_W74_H0.7720.98
4_N7_V0.7580.98
23_S79_D0.7520.98
31_P47_A0.7520.98
10_G61_I0.7300.97
62_S66_N0.7230.97
47_A55_Y0.7210.97
41_D67_E0.7160.97
23_S83_N0.7160.97
14_V73_V0.7140.97
16_V19_V0.7020.96
16_V75_V0.7010.96
64_H69_G0.6990.96
26_K82_G0.6930.96
15_T54_T0.6880.96
26_K78_T0.6870.96
16_V28_V0.6850.96
33_W42_L0.6840.96
12_F59_V0.6800.96
33_W44_W0.6780.96
18_N22_P0.6670.95
31_P76_Y0.6370.94
66_N71_Y0.6260.93
49_K53_G0.6230.93
34_S72_N0.6170.93
39_Q76_Y0.6130.93
65_K71_Y0.6030.92
53_G56_K0.6020.92
21_S25_V0.6010.92
49_K54_T0.5970.92
28_V77_A0.5960.92
40_D64_H0.5850.91
19_V25_V0.5820.91
22_P79_D0.5800.90
28_V47_A0.5800.90
6_N11_T0.5670.89
32_V45_Y0.5660.89
37_N41_D0.5650.89
33_W76_Y0.5610.89
5_T8_T0.5590.89
72_N89_G0.5570.89
41_D64_H0.5570.89
46_T55_Y0.5550.88
7_V10_G0.5470.88
57_V60_N0.5370.87
74_H86_G0.5360.87
5_T68_T0.5320.86
8_T20_S0.5290.86
59_V63_N0.5290.86
79_D82_G0.5260.86
41_D44_W0.5250.86
31_P41_D0.5210.85
43_K64_H0.5190.85
25_V78_T0.5160.85
13_D16_V0.5090.84
4_N8_T0.5080.84
25_V79_D0.5080.84
24_G79_D0.5000.83
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  
4kdwA 1 0.9022 59.2 0.816 Contact Map
4p99A 3 0.9022 57.3 0.818 Contact Map
3pe9A 1 0.837 34.4 0.841 Contact Map
2yn5A 3 0.8913 32.7 0.843 Contact Map
3pddA 1 0.837 26.6 0.85 Contact Map
3vmnA 1 0.9891 17.3 0.863 Contact Map
2k7pA 1 0.6739 16.7 0.864 Contact Map
2k9uA 1 0.6957 15 0.867 Contact Map
2bp3A 1 0.6739 14.7 0.867 Contact Map
2di8A 1 0.6739 14.5 0.867 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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