GREMLIN Database
W_rich_C - Tryptophan-rich Synechocystis species C-terminal domain
PFAM: PF07483 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 105 (98)
Sequences: 5813 (4299)
Seq/√Len: 434.3
META: 0.965

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
66_N77_L2.7031.00
14_P17_G2.2751.00
10_Y13_L2.2101.00
73_Y76_N2.1801.00
51_E93_S2.1741.00
25_Y35_F2.1371.00
24_K72_N2.1301.00
90_L93_S2.0231.00
31_V34_Q1.9891.00
51_E66_N1.9841.00
22_E29_P1.9471.00
42_G96_Q1.9411.00
13_L18_G1.8941.00
52_V67_T1.8901.00
64_V90_L1.8871.00
56_N60_D1.8841.00
68_D72_N1.8551.00
30_V35_F1.7381.00
44_E95_H1.6371.00
63_T76_N1.5881.00
85_S88_L1.5631.00
10_Y14_P1.5431.00
56_N59_A1.5391.00
89_S92_T1.4211.00
61_Q80_V1.4151.00
37_G56_N1.4141.00
83_G87_A1.4141.00
86_A89_S1.4001.00
50_Y71_G1.3671.00
24_K29_P1.3641.00
40_P54_W1.3281.00
10_Y29_P1.3261.00
54_W73_Y1.3101.00
81_V85_S1.3071.00
10_Y15_D1.3041.00
38_W56_N1.2831.00
81_V88_L1.2741.00
55_K59_A1.2561.00
78_G81_V1.2431.00
23_L67_T1.2251.00
53_A98_L1.1841.00
8_N13_L1.1571.00
51_E77_L1.1361.00
23_L52_V1.1001.00
14_P18_G1.1001.00
92_T95_H1.0861.00
15_D18_G1.0611.00
40_P43_A1.0581.00
45_Q49_G1.0561.00
82_S85_S1.0521.00
44_E93_S1.0381.00
39_T57_A1.0281.00
95_H103_V1.0261.00
10_Y22_E1.0181.00
15_D19_S1.0101.00
83_G88_L1.0071.00
66_N75_S0.9991.00
45_Q69_S0.9871.00
63_T73_Y0.9771.00
9_N22_E0.9611.00
77_L80_V0.9271.00
46_T51_E0.9211.00
63_T78_G0.9171.00
56_N61_Q0.9151.00
12_L15_D0.9051.00
25_Y28_A0.8831.00
66_N74_V0.8731.00
8_N11_Y0.8711.00
51_E90_L0.8681.00
40_P52_V0.8561.00
81_V87_A0.8531.00
11_Y14_P0.8371.00
64_V94_F0.8341.00
73_Y77_L0.8311.00
53_A64_V0.8241.00
12_L22_E0.8211.00
11_Y22_E0.8081.00
46_T49_G0.7971.00
44_E96_Q0.7951.00
11_Y15_D0.7851.00
60_D84_S0.7851.00
57_A60_D0.7811.00
31_V35_F0.7571.00
10_Y16_G0.7551.00
43_A52_V0.7521.00
13_L19_S0.7471.00
27_G72_N0.7381.00
64_V78_G0.7281.00
55_K100_G0.7231.00
14_P20_G0.7181.00
9_N14_P0.7051.00
30_V54_W0.6981.00
8_N14_P0.6981.00
49_G71_G0.6961.00
79_G82_S0.6811.00
25_Y34_Q0.6701.00
13_L17_G0.6661.00
8_N12_L0.6651.00
97_D104_I0.6550.99
78_G90_L0.6520.99
12_L23_L0.6520.99
9_N29_P0.6520.99
45_Q50_Y0.6500.99
91_E97_D0.6440.99
12_L17_G0.6440.99
14_P19_S0.6400.99
67_T71_G0.6370.99
28_A34_Q0.6360.99
46_T93_S0.6290.99
38_W76_N0.6270.99
24_K70_N0.6270.99
90_L94_F0.6250.99
35_F63_T0.6220.99
53_A90_L0.6130.99
101_D105_G0.6130.99
89_S93_S0.6030.99
59_A62_Y0.6010.99
38_W65_W0.5960.99
87_A90_L0.5960.99
100_G103_V0.5950.99
82_S88_L0.5840.99
8_N15_D0.5830.99
64_V77_L0.5760.99
41_I55_K0.5760.99
55_K62_Y0.5720.99
13_L21_P0.5710.99
82_S86_A0.5660.99
9_N13_L0.5570.98
44_E51_E0.5550.98
62_Y98_L0.5540.98
97_D101_D0.5530.98
53_A96_Q0.5520.98
45_Q48_G0.5520.98
12_L16_G0.5510.98
91_E94_F0.5510.98
94_F98_L0.5430.98
35_F54_W0.5400.98
46_T66_N0.5310.98
51_E64_V0.5310.98
27_G31_V0.5300.98
30_V67_T0.5190.97
37_G57_A0.5140.97
25_Y73_Y0.5140.97
39_T55_K0.5130.97
63_T77_L0.5070.97
34_Q40_P0.5060.97
12_L21_P0.5000.97
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  
4irzA 1 0.9714 25.7 0.882 Contact Map
3ijeA 1 0.9619 25.2 0.883 Contact Map
4nehA 1 0.9619 24.7 0.883 Contact Map
4tqjA 2 0.8857 15.5 0.894 Contact Map
4o9xA 1 0.981 15.2 0.894 Contact Map
4iglA 1 0.981 15 0.895 Contact Map
3vi3A 1 0.9714 13.6 0.896 Contact Map
4um9A 1 0.981 12.9 0.897 Contact Map
4wk0A 1 0.981 11.5 0.899 Contact Map
3fcsA 2 0.981 9.5 0.903 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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