GREMLIN Database
CYMR - HTH-type transcriptional regulator CymR
UniProt: O34527 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 138 (127)
Sequences: 5611 (3767)
Seq/√Len: 334.2

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
92_V98_P3.8541.00
77_G116_D3.8431.00
72_D121_E2.9801.00
10_G83_L2.8821.00
16_E34_T2.8181.00
56_K66_V2.7881.00
121_E125_S2.6711.00
14_M54_L2.6121.00
106_R114_V2.3971.00
81_R116_D2.3671.00
52_A82_V2.3541.00
14_M120_L2.3131.00
69_S78_D2.2741.00
13_I46_V2.0891.00
77_G81_R2.0821.00
18_A124_A2.0291.00
25_P66_V1.9541.00
17_L55_V1.9081.00
29_K39_E1.8311.00
110_A114_V1.7951.00
110_A113_E1.6471.00
70_E73_A1.5941.00
106_R118_T1.5851.00
58_I66_V1.5771.00
29_K33_Q1.5681.00
16_E26_T1.5601.00
50_R57_S1.5581.00
69_S73_A1.5371.00
7_G80_I1.5111.00
13_I42_L1.4381.00
75_T119_T1.4331.00
107_I111_V1.4201.00
47_S51_N1.3931.00
75_T78_D1.3631.00
37_L42_L1.3411.00
28_L46_V1.2281.00
114_V117_S1.2071.00
112_K116_D1.2031.00
103_L118_T1.2001.00
108_R112_K1.1911.00
21_H71_P1.1561.00
16_E20_K1.1471.00
16_E35_N1.1461.00
13_I31_I1.1391.00
69_S74_I1.1281.00
56_K68_G1.1131.00
7_G84_E1.1051.00
106_R126_Y1.0861.00
20_K24_G1.0841.00
25_P58_I1.0811.00
109_D113_E1.0791.00
81_R112_K1.0731.00
113_E117_S1.0511.00
47_S50_R1.0471.00
20_K26_T1.0461.00
9_Y37_L1.0261.00
33_Q39_E1.0221.00
8_R12_T1.0191.00
80_I115_L1.0091.00
78_D116_D1.0061.00
6_K44_Q1.0041.00
14_M79_I0.9971.00
107_I115_L0.9961.00
27_S30_S0.9951.00
24_G30_S0.9941.00
54_L74_I0.9811.00
105_I109_D0.9771.00
54_L82_V0.9731.00
89_P108_R0.9471.00
102_E126_Y0.9421.00
11_L76_A0.9421.00
46_V65_Y0.9321.00
5_T41_Y0.9241.00
40_H43_E0.9181.00
15_I124_A0.9071.00
46_V55_V0.9041.00
19_K124_A0.9001.00
30_S34_T0.8951.00
6_K48_P0.8871.00
28_L43_E0.8841.00
30_S33_Q0.8581.00
76_A103_L0.8501.00
21_H24_G0.8301.00
78_D81_R0.8291.00
14_M49_L0.8291.00
87_I112_K0.8191.00
92_V101_R0.8181.00
122_D125_S0.8161.00
3_I104_W0.8121.00
21_H70_E0.8051.00
107_I110_A0.8041.00
43_E65_Y0.7941.00
17_L26_T0.7901.00
68_G74_I0.7821.00
114_V118_T0.7811.00
106_R110_A0.7791.00
41_Y45_L0.7781.00
47_S57_S0.7771.00
43_E50_R0.7751.00
6_K10_G0.7631.00
47_S65_Y0.7621.00
28_L39_E0.7561.00
50_R55_V0.7521.00
105_I108_R0.7521.00
104_W111_V0.7500.99
98_P101_R0.7430.99
76_A123_L0.7420.99
54_L78_D0.7340.99
48_P52_A0.7320.99
39_E43_E0.7310.99
6_K41_Y0.7280.99
101_R105_I0.7240.99
32_A37_L0.7230.99
57_S65_Y0.7210.99
10_G45_L0.7180.99
54_L69_S0.7150.99
79_I120_L0.7140.99
119_T122_D0.7110.99
67_L71_P0.7110.99
77_G112_K0.7090.99
70_E121_E0.7040.99
16_E31_I0.6990.99
106_R117_S0.6970.99
9_Y45_L0.6950.99
74_I79_I0.6950.99
71_P124_A0.6930.99
4_S7_G0.6900.99
27_S62_Y0.6900.99
8_R100_K0.6890.99
78_D82_V0.6720.99
81_R86_P0.6560.99
7_G83_L0.6440.98
16_E30_S0.6410.98
75_T117_S0.6300.98
106_R109_D0.6270.98
75_T116_D0.6240.98
15_I123_L0.6160.98
5_T91_E0.6120.98
91_E94_E0.6090.98
3_I80_I0.6010.98
3_I7_G0.6000.98
89_P98_P0.5990.98
4_S41_Y0.5960.97
20_K34_T0.5950.97
40_H44_Q0.5940.97
31_I46_V0.5900.97
12_T98_P0.5870.97
17_L46_V0.5830.97
72_D122_D0.5740.97
100_K104_W0.5740.97
27_S59_R0.5710.97
72_D125_S0.5710.97
48_P51_N0.5680.97
88_S94_E0.5670.97
44_Q47_S0.5660.97
68_G71_P0.5560.96
88_S93_L0.5560.96
38_S41_Y0.5560.96
59_R104_W0.5550.96
19_K34_T0.5550.96
53_G68_G0.5540.96
107_I114_V0.5510.96
9_Y41_Y0.5490.96
4_S84_E0.5420.96
80_I84_E0.5420.96
57_S85_G0.5420.96
19_K127_T0.5410.96
50_R65_Y0.5400.96
12_T35_N0.5390.96
14_M18_A0.5330.95
110_A115_L0.5330.95
79_I82_V0.5320.95
69_S72_D0.5310.95
19_K99_A0.5300.95
103_L106_R0.5240.95
74_I120_L0.5220.95
121_E124_A0.5180.94
31_I35_N0.5170.94
33_Q36_N0.5150.94
5_T36_N0.5140.94
71_P74_I0.5140.94
71_P120_L0.5100.94
3_I13_I0.5100.94
83_L101_R0.5090.94
8_R89_P0.5080.94
89_P92_V0.5050.94
12_T92_V0.5040.94
13_I84_E0.5040.94
92_V100_K0.5000.93
5_T43_E0.5000.93
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  
3lwfA 5 0.9928 100 0.254 Contact Map
4hf1A 2 0.9855 100 0.26 Contact Map
4cicA 2 0.9348 100 0.28 Contact Map
3t8rA 2 0.8696 100 0.294 Contact Map
1xd7A 2 0.7826 100 0.298 Contact Map
4hf0A 3 0.8623 100 0.307 Contact Map
1ylfA 5 0.8478 100 0.338 Contact Map
3k69A 2 0.971 100 0.348 Contact Map
2y75A 5 0.9203 99.9 0.385 Contact Map
2jscA 2 0.6159 98.2 0.774 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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