GREMLIN Database
YBIH - Uncharacterized HTH-type transcriptional regulator YbiH
UniProt: P0ACU0 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG12406
Length: 223 (181)
Sequences: 34661 (27305)
Seq/√Len: 2029.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
35_R45_I3.9061.00
28_Y36_E3.8871.00
23_A40_Q3.5851.00
53_G57_D2.6771.00
25_F32_A2.4161.00
54_S57_D2.2741.00
149_T166_I2.2571.00
24_Q32_A2.1921.00
20_A40_Q2.1261.00
24_Q40_Q2.1161.00
13_A16_Q2.0901.00
24_Q36_E2.0751.00
24_Q28_Y2.0341.00
15_K65_W2.0171.00
27_E40_Q1.9761.00
38_A48_I1.9701.00
149_T153_A1.8181.00
35_R39_A1.8071.00
90_P93_A1.7921.00
94_A154_A1.7811.00
44_N47_A1.7621.00
153_A165_M1.7601.00
14_K61_A1.7441.00
21_A25_F1.7171.00
22_L65_W1.7051.00
20_A23_A1.6971.00
16_Q20_A1.6951.00
15_K19_A1.6721.00
29_G32_A1.5871.00
34_T49_T1.5781.00
18_I61_A1.5621.00
36_E40_Q1.5321.00
153_A157_G1.5221.00
61_A64_Q1.5051.00
34_T45_I1.5031.00
22_L62_C1.4931.00
36_E39_A1.4621.00
23_A27_E1.4571.00
156_T162_D1.4561.00
32_A37_I1.4341.00
65_W69_F1.4201.00
171_A175_E1.4131.00
22_L66_I1.4111.00
12_Q16_Q1.3831.00
21_A58_L1.3781.00
75_R147_H1.3771.00
60_L64_Q1.3711.00
47_A50_Y1.3621.00
153_A156_T1.3611.00
64_Q136_V1.3491.00
33_T36_E1.3431.00
14_K51_Y1.3411.00
155_W160_A1.3321.00
34_T48_I1.3311.00
52_F61_A1.3021.00
49_T54_S1.2991.00
20_A24_Q1.2821.00
25_F30_M1.2781.00
45_I49_T1.2751.00
19_A65_W1.2621.00
12_Q15_K1.2471.00
93_A97_E1.2431.00
156_T163_T1.2181.00
43_Q47_A1.2161.00
30_M59_Y1.2021.00
57_D61_A1.1921.00
145_H170_H1.1861.00
18_I52_F1.1811.00
164_R167_L1.1771.00
21_A62_C1.1611.00
60_L136_V1.1571.00
145_H149_T1.1561.00
73_Q101_R1.1431.00
154_A158_C1.1411.00
47_A51_Y1.1381.00
96_R100_L1.1291.00
23_A117_N1.1161.00
18_I62_C1.1071.00
56_E60_L1.1051.00
20_A41_A1.1021.00
174_G178_A1.1011.00
122_I125_E1.0951.00
57_D60_L1.0921.00
156_T159_D1.0891.00
22_L26_G1.0821.00
13_A51_Y1.0721.00
10_G50_Y1.0721.00
90_P160_A1.0681.00
48_I58_L1.0441.00
163_T168_H1.0431.00
142_S146_S1.0391.00
151_L155_W1.0381.00
117_N120_K1.0321.00
94_A151_L1.0251.00
46_A50_Y1.0231.00
44_N50_Y1.0161.00
28_Y40_Q1.0121.00
150_R154_A1.0071.00
37_I58_L1.0041.00
65_W68_D1.0031.00
64_Q68_D1.0011.00
13_A43_Q1.0001.00
147_H150_R1.0001.00
89_Q97_E0.9991.00
19_A23_A0.9941.00
92_R96_R0.9821.00
75_R79_E0.9781.00
136_V139_Q0.9771.00
97_E100_L0.9731.00
145_H166_I0.9711.00
56_E130_T0.9611.00
73_Q76_P0.9601.00
139_Q143_P0.9571.00
149_T165_M0.9561.00
61_A65_W0.9301.00
45_I50_Y0.9281.00
199_K202_L0.9171.00
93_A96_R0.9031.00
77_H97_E0.8981.00
149_T169_T0.8851.00
16_Q19_A0.8851.00
156_T165_M0.8801.00
71_G143_P0.8791.00
56_E132_A0.8751.00
11_E15_K0.8731.00
77_H101_R0.8681.00
113_D116_V0.8681.00
161_N164_R0.8651.00
151_L154_A0.8651.00
166_I170_H0.8621.00
183_K186_I0.8611.00
39_A45_I0.8561.00
150_R153_A0.8531.00
68_D72_E0.8461.00
8_I12_Q0.8441.00
146_S149_T0.8431.00
38_A45_I0.8421.00
66_I69_F0.8381.00
88_P94_A0.8371.00
26_G117_N0.8361.00
134_H138_E0.8341.00
120_K124_R0.8291.00
17_L48_I0.8251.00
146_S150_R0.8191.00
91_D155_W0.8131.00
9_K12_Q0.8061.00
135_L139_Q0.8051.00
101_R104_R0.8021.00
24_Q27_E0.8001.00
118_L121_F0.7961.00
99_I172_L0.7941.00
18_I22_L0.7871.00
69_F72_E0.7861.00
100_L104_R0.7821.00
105_N115_T0.7731.00
143_P146_S0.7721.00
28_Y32_A0.7701.00
35_R49_T0.7661.00
8_I11_E0.7641.00
72_E75_R0.7621.00
197_E201_E0.7621.00
198_E202_L0.7571.00
97_E101_R0.7571.00
100_L197_E0.7541.00
72_E76_P0.7501.00
16_Q41_A0.7441.00
138_E142_S0.7421.00
195_F198_E0.7401.00
196_D199_K0.7401.00
154_A157_G0.7371.00
115_T118_L0.7371.00
89_Q93_A0.7351.00
100_L196_D0.7321.00
131_A134_H0.7261.00
10_G13_A0.7211.00
31_N128_S0.7151.00
143_P147_H0.7131.00
64_Q140_V0.7111.00
119_S122_I0.7081.00
71_G75_R0.7061.00
167_L202_L0.7041.00
101_R105_N0.7021.00
167_L171_A0.7011.00
91_D158_C0.6961.00
102_A106_M0.6931.00
64_Q139_Q0.6901.00
164_R168_H0.6901.00
136_V140_V0.6891.00
19_A22_L0.6871.00
71_G147_H0.6861.00
78_A147_H0.6851.00
124_R128_S0.6851.00
41_A44_N0.6841.00
18_I65_W0.6821.00
9_K13_A0.6811.00
120_K123_S0.6801.00
116_V119_S0.6751.00
30_M56_E0.6701.00
38_A43_Q0.6661.00
198_E201_E0.6651.00
152_I172_L0.6641.00
96_R201_E0.6641.00
35_R44_N0.6631.00
171_A174_G0.6611.00
121_F125_E0.6601.00
25_F59_Y0.6581.00
96_R99_I0.6521.00
17_L41_A0.6511.00
99_I102_A0.6431.00
13_A47_A0.6411.00
34_T38_A0.6381.00
13_A44_N0.6371.00
121_F124_R0.6351.00
34_T55_K0.6311.00
156_T161_N0.6291.00
174_G177_L0.6291.00
177_L181_L0.6261.00
27_E36_E0.6241.00
182_G185_T0.6231.00
88_P93_A0.6211.00
30_M55_K0.6201.00
10_G51_Y0.6191.00
117_N121_F0.6131.00
116_V120_K0.6121.00
165_M169_T0.6001.00
182_G186_I0.6001.00
120_K125_E0.5971.00
174_G182_G0.5931.00
131_A135_L0.5921.00
167_L170_H0.5841.00
119_S123_S0.5821.00
17_L51_Y0.5811.00
196_D200_T0.5801.00
91_D94_A0.5791.00
129_P132_A0.5751.00
90_P94_A0.5751.00
94_A155_W0.5741.00
79_E87_Q0.5741.00
152_I165_M0.5731.00
24_Q33_T0.5731.00
76_P101_R0.5631.00
41_A45_I0.5631.00
31_N125_E0.5581.00
135_L138_E0.5571.00
152_I156_T0.5561.00
168_H171_A0.5551.00
69_F73_Q0.5531.00
138_E141_I0.5511.00
170_H182_G0.5461.00
132_A135_L0.5441.00
48_I53_G0.5431.00
22_L69_F0.5411.00
102_A144_L0.5411.00
195_F199_K0.5351.00
147_H151_L0.5331.00
68_D140_V0.5311.00
141_I144_L0.5261.00
184_E187_L0.5251.00
153_A166_I0.5241.00
76_P79_E0.5241.00
87_Q97_E0.5161.00
88_P97_E0.5111.00
183_K187_L0.5111.00
155_W158_C0.5081.00
116_V121_F0.5071.00
194_A198_E0.5061.00
175_E179_F0.5041.00
98_L102_A0.5041.00
16_Q43_Q0.5031.00
69_F115_T0.5011.00
38_A41_A0.5011.00
129_P133_Y0.5001.00
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  
4jykA 2 0.8924 100 0.272 Contact Map
1t33A 2 0.9731 100 0.272 Contact Map
3npiA 2 0.9013 100 0.279 Contact Map
3nrgA 2 0.9238 100 0.284 Contact Map
3f0cA 2 0.8565 100 0.289 Contact Map
2qtqA 2 0.8969 100 0.294 Contact Map
2hyjA 2 0.8341 100 0.296 Contact Map
3on2A 1 0.861 100 0.297 Contact Map
1rktA 2 0.8879 100 0.3 Contact Map
3f1bA 2 0.8161 100 0.301 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.

Page generated in 0.0078 seconds.