GREMLIN Database
YWAE - Uncharacterized HTH-type transcriptional regulator YwaE
UniProt: P25150 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 171 (136)
Sequences: 20432 (14864)
Seq/√Len: 1274.6

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
110_S122_S3.2071.00
153_E163_K3.0021.00
77_A122_S2.9961.00
112_D120_F2.9201.00
79_E118_L2.8291.00
108_R122_S2.6721.00
156_I160_L2.5871.00
150_T153_E2.3691.00
156_I159_G2.2191.00
148_G167_N2.1941.00
73_W131_I1.9731.00
65_A104_K1.9641.00
79_E82_K1.9571.00
77_A120_F1.9401.00
112_D118_L1.9391.00
111_I119_V1.9111.00
153_E156_I1.8781.00
149_M160_L1.8331.00
73_W123_I1.7821.00
126_S130_A1.7371.00
102_E109_K1.7371.00
157_L160_L1.6701.00
130_A133_E1.5921.00
39_N162_R1.5591.00
65_A100_T1.5481.00
59_Y137_E1.5291.00
68_I97_V1.5231.00
71_D86_L1.5201.00
105_S126_S1.5161.00
39_N158_T1.5061.00
62_S65_A1.4991.00
153_E159_G1.4951.00
98_I121_V1.4811.00
126_S129_Q1.4691.00
75_W86_L1.4601.00
77_A110_S1.4531.00
153_E160_L1.4411.00
80_T98_I1.4281.00
39_N165_A1.4251.00
73_W128_K1.3991.00
99_K103_K1.3981.00
160_L163_K1.3941.00
81_R91_T1.2671.00
59_Y133_E1.2321.00
82_K85_E1.2221.00
99_K116_R1.2201.00
129_Q133_E1.2051.00
158_T162_R1.2021.00
109_K119_V1.1801.00
41_Y44_A1.1741.00
68_I94_A1.1731.00
106_F130_A1.1621.00
159_G163_K1.1601.00
42_R165_A1.1351.00
80_T121_V1.1221.00
81_R85_E1.1151.00
80_T119_V1.1071.00
58_T137_E1.1071.00
43_S165_A1.1051.00
90_S93_T1.1011.00
72_L107_C1.0811.00
64_T97_V1.0671.00
89_I93_T1.0531.00
108_R124_T1.0381.00
43_S161_L1.0361.00
92_A95_S1.0321.00
154_Q158_T1.0181.00
152_D156_I1.0081.00
78_L82_K1.0041.00
54_E137_E1.0001.00
106_F126_S0.9891.00
95_S99_K0.9851.00
32_E155_K0.9621.00
98_I107_C0.9601.00
151_K155_K0.9491.00
128_K132_E0.9471.00
80_T91_T0.9441.00
44_A48_R0.9421.00
46_R165_A0.9391.00
110_S120_F0.9381.00
137_E140_K0.9271.00
75_W78_L0.9241.00
59_Y134_L0.9211.00
89_I94_A0.9191.00
104_K130_A0.9141.00
80_T94_A0.9011.00
78_L86_L0.8981.00
82_K86_L0.8861.00
138_F142_E0.8841.00
36_I158_T0.8841.00
73_W135_Y0.8831.00
93_T96_N0.8781.00
52_E57_S0.8701.00
123_I128_K0.8691.00
41_Y45_Q0.8631.00
125_D128_K0.8631.00
156_I163_K0.8621.00
104_K126_S0.8591.00
133_E137_E0.8381.00
136_P140_K0.8251.00
102_E107_C0.8151.00
96_N100_T0.8141.00
141_G144_E0.8091.00
102_E108_R0.8011.00
50_K141_G0.7951.00
68_I83_I0.7931.00
115_D118_L0.7861.00
111_I116_R0.7791.00
67_S87_S0.7791.00
99_K102_E0.7761.00
90_S96_N0.7731.00
125_D129_Q0.7731.00
60_N104_K0.7691.00
76_G128_K0.7691.00
113_T120_F0.7511.00
96_N99_K0.7391.00
54_E141_G0.7351.00
163_K167_N0.7321.00
98_I102_E0.7291.00
140_K144_E0.7231.00
112_D115_D0.7211.00
52_E63_W0.7201.00
84_A91_T0.7171.00
73_W132_E0.7161.00
54_E144_E0.7141.00
152_D155_K0.7141.00
40_L44_A0.7141.00
155_K159_G0.7081.00
100_T103_K0.7081.00
140_K143_T0.7041.00
146_I154_Q0.7031.00
142_E145_L0.6971.00
123_I127_G0.6961.00
136_P139_H0.6911.00
68_I87_S0.6901.00
80_T95_S0.6881.00
39_N42_R0.6871.00
76_G122_S0.6831.00
133_E136_P0.6781.00
71_D75_W0.6761.00
69_L131_I0.6741.00
66_F134_L0.6671.00
40_L161_L0.6601.00
54_E58_T0.6591.00
45_Q49_V0.6581.00
75_W82_K0.6581.00
99_K109_K0.6571.00
64_T93_T0.6551.00
162_R166_D0.6541.00
71_D87_S0.6511.00
94_A98_I0.6501.00
72_L123_I0.6461.00
150_T154_Q0.6441.00
155_K158_T0.6421.00
144_E147_A0.6351.00
149_M164_V0.6261.00
139_H143_T0.6221.00
72_L78_L0.6221.00
71_D83_I0.6211.00
138_F141_G0.6071.00
105_S108_R0.6051.00
100_T104_K0.6051.00
50_K54_E0.5961.00
35_S158_T0.5961.00
66_F138_F0.5931.00
42_R46_R0.5931.00
40_L43_S0.5921.00
109_K121_V0.5901.00
83_I121_V0.5861.00
51_M138_F0.5801.00
43_S164_V0.5801.00
81_R84_A0.5791.00
84_A94_A0.5771.00
101_L106_F0.5761.00
65_A97_V0.5761.00
67_S71_D0.5681.00
50_K53_T0.5641.00
128_K131_I0.5631.00
129_Q132_E0.5531.00
54_E140_K0.5531.00
79_E120_F0.5451.00
70_Y135_Y0.5431.00
39_N161_L0.5371.00
81_R118_L0.5331.00
110_S113_T0.5301.00
71_D78_L0.5291.00
70_Y74_V0.5291.00
32_E35_S0.5281.00
45_Q48_R0.5281.00
148_G163_K0.5261.00
130_A134_L0.5251.00
83_I94_A0.5221.00
43_S48_R0.5201.00
132_E136_P0.5181.00
91_T95_S0.5181.00
135_Y139_H0.5181.00
149_M154_Q0.5161.00
61_L130_A0.5151.00
48_R52_E0.5121.00
84_A87_S0.5061.00
131_I135_Y0.5031.00
50_K144_E0.5011.00
46_R50_K0.5011.00
160_L167_N0.5001.00
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  
2fbkA 2 0.8713 99.9 0.306 Contact Map
3cjnA 2 0.8421 99.9 0.314 Contact Map
4rguA 4 0.8246 99.9 0.315 Contact Map
3u2rA 4 0.7778 99.9 0.316 Contact Map
3boqA 2 0.8012 99.9 0.321 Contact Map
3e6mA 2 0.883 99.9 0.325 Contact Map
3cdhA 4 0.7895 99.9 0.331 Contact Map
3deuA 2 0.7661 99.9 0.331 Contact Map
3s2wA 3 0.8655 99.9 0.332 Contact Map
2nyxA 2 0.848 99.9 0.333 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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