GREMLIN Database
YWRC - Uncharacterized HTH-type transcriptional regulator YwrC
UniProt: O05217 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 158 (139)
Sequences: 13671 (8788)
Seq/√Len: 745.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
22_I37_R2.9521.00
53_I61_F2.8691.00
109_P142_D2.5621.00
81_E140_S2.5531.00
102_S115_H2.5511.00
31_Y49_I2.2921.00
119_T123_E2.2851.00
68_A122_Q2.1001.00
16_D48_R2.0931.00
22_I29_I2.0531.00
59_E66_N1.9901.00
51_Q55_A1.9841.00
83_E139_V1.9051.00
75_S115_H1.8131.00
59_E64_V1.8081.00
97_E131_R1.8051.00
77_F104_Y1.7971.00
101_T117_I1.7521.00
15_T40_L1.7231.00
97_E127_F1.7091.00
22_I25_E1.7011.00
50_N54_E1.7011.00
40_L44_A1.6531.00
32_T36_K1.5961.00
79_N144_Q1.5641.00
29_I37_R1.5551.00
93_K96_E1.5451.00
120_N123_E1.5421.00
123_E126_E1.5321.00
33_D36_K1.5051.00
32_T42_R1.5001.00
99_A123_E1.4771.00
93_K135_L1.4731.00
40_L45_V1.4561.00
31_Y46_Q1.4371.00
41_S44_A1.4301.00
90_V94_L1.4261.00
19_I34_L1.4061.00
80_V114_M1.4021.00
91_A95_E1.3851.00
28_R61_F1.3811.00
88_E92_L1.3581.00
86_F89_E1.3461.00
38_V45_V1.3411.00
81_E109_P1.3371.00
126_E130_K1.2981.00
78_F116_G1.2681.00
81_E139_V1.2661.00
14_E18_Q1.2581.00
79_N110_S1.2471.00
125_E148_K1.2401.00
72_I119_T1.2361.00
29_I34_L1.2351.00
33_D37_R1.2331.00
23_L49_I1.2311.00
74_V121_D1.2261.00
82_V90_V1.2201.00
25_E37_R1.2151.00
91_A148_K1.2121.00
15_T18_Q1.1971.00
50_N53_I1.1871.00
30_S33_D1.1691.00
13_D48_R1.1661.00
99_A131_R1.1381.00
26_E37_R1.1071.00
15_T38_V1.0871.00
75_S117_I1.0811.00
22_I34_L1.0811.00
79_N142_D1.0791.00
31_Y35_G1.0681.00
60_K64_V1.0571.00
18_Q21_T1.0481.00
100_V116_G1.0231.00
18_Q22_I1.0181.00
103_L114_M1.0071.00
118_F123_E0.9921.00
89_E93_K0.9901.00
66_N69_K0.9881.00
91_A112_L0.9841.00
29_I33_D0.9811.00
35_G45_V0.9721.00
21_T25_E0.9711.00
27_G61_F0.9691.00
77_F113_H0.9671.00
28_R53_I0.9561.00
92_L95_E0.9501.00
118_F124_M0.9341.00
106_M113_H0.9331.00
42_R46_Q0.9321.00
46_Q50_N0.9281.00
92_L96_E0.9121.00
31_Y42_R0.9051.00
118_F127_F0.9041.00
116_G127_F0.9011.00
104_Y115_H0.9001.00
73_H120_N0.8991.00
18_Q38_V0.8861.00
77_F115_H0.8861.00
35_G40_L0.8751.00
32_T46_Q0.8731.00
12_L17_K0.8681.00
67_P117_I0.8421.00
27_G33_D0.8361.00
83_E86_F0.8261.00
100_V114_M0.8251.00
52_L57_V0.8241.00
77_F146_L0.8211.00
100_V103_L0.8101.00
109_P140_S0.7981.00
17_K21_T0.7941.00
104_Y146_L0.7911.00
16_D51_Q0.7881.00
34_L45_V0.7841.00
94_L103_L0.7711.00
88_E91_A0.7671.00
128_L143_C0.7621.00
104_Y149_R0.7621.00
110_S142_D0.7581.00
19_I48_R0.7571.00
79_N113_H0.7521.00
80_V90_V0.7511.00
126_E131_R0.7491.00
43_V47_A0.7471.00
87_L112_L0.7461.00
93_K97_E0.7451.00
19_I45_V0.7401.00
27_G63_A0.7381.00
34_L49_I0.7251.00
12_L57_V0.7231.00
89_E92_L0.7211.00
13_D16_D0.7201.00
79_N109_P0.7151.00
133_Y141_V0.7121.00
81_E110_S0.7081.00
76_V124_M0.6981.00
22_I26_E0.6941.00
107_T145_M0.6871.00
105_H112_L0.6841.00
57_V69_K0.6761.00
78_F141_V0.6751.00
122_Q125_E0.6741.00
99_A127_F0.6701.00
19_I29_I0.6701.00
26_E29_I0.6641.00
47_A51_Q0.6621.00
14_E17_K0.6621.00
83_E137_G0.6601.00
90_V112_L0.6571.00
75_S146_L0.6551.00
91_A150_Y0.6541.00
72_I117_I0.6521.00
72_I99_A0.6511.00
121_D145_M0.6441.00
76_V145_M0.6361.00
89_E137_G0.6331.00
43_V46_Q0.6311.00
56_G59_E0.6291.00
99_A119_T0.6261.00
47_A50_N0.6231.00
123_E127_F0.6151.00
78_F114_M0.6151.00
35_G42_R0.6151.00
80_V138_V0.6091.00
20_L52_L0.6081.00
31_Y45_V0.6071.00
48_R52_L0.6071.00
106_M110_S0.6071.00
16_D52_L0.6001.00
128_L141_V0.5991.00
122_Q126_E0.5981.00
27_G60_K0.5971.00
19_I22_I0.5971.00
94_L114_M0.5951.00
19_I49_I0.5901.00
97_E135_L0.5861.00
79_N106_M0.5841.00
19_I52_L0.5751.00
76_V143_C0.5731.00
65_I70_I0.5701.00
127_F131_R0.5671.00
15_T44_A0.5621.00
131_R135_L0.5601.00
121_D147_I0.5601.00
127_F132_L0.5601.00
93_K136_R0.5531.00
66_N70_I0.5511.00
24_H62_T0.5501.00
75_S149_R0.5461.00
32_T35_G0.5461.00
106_M146_L0.5431.00
105_H111_K0.5421.00
75_S104_Y0.5401.00
58_I61_F0.5391.00
88_E134_P0.5371.00
124_M145_M0.5361.00
82_V111_K0.5341.00
106_M144_Q0.5281.00
81_E142_D0.5281.00
105_H133_Y0.5241.00
64_V67_P0.5161.00
86_F136_R0.5121.00
93_K137_G0.5121.00
128_L147_I0.5091.00
109_P144_Q0.5091.00
51_Q54_E0.5071.00
105_H125_E0.5051.00
38_V44_A0.5021.00
101_T115_H0.5001.00
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  
4ch7A 1 0.8608 100 0.173 Contact Map
4un1A 1 0.8987 100 0.202 Contact Map
2e1cA 1 0.9304 100 0.211 Contact Map
4un1B 1 0.943 100 0.219 Contact Map
2p5vA 5 0.962 100 0.22 Contact Map
4pcqA 2 0.9367 100 0.221 Contact Map
3i4pA 5 0.9241 100 0.24 Contact Map
2ia0A 2 0.9114 100 0.245 Contact Map
2pn6A 5 0.9241 100 0.252 Contact Map
2cg4A 6 0.9367 100 0.258 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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