GREMLIN Database
YWBI - Uncharacterized HTH-type transcriptional regulator YwbI
UniProt: P39592 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 301 (286)
Sequences: 79750 (57810)
Seq/√Len: 3418.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
70_E74_S3.6301.00
15_L24_S3.3991.00
158_F289_K2.7001.00
96_G141_L2.5061.00
67_Q81_E2.4611.00
11_E24_S2.3501.00
231_V238_G2.2571.00
159_T162_K2.2271.00
162_K266_H2.2211.00
92_H123_Q2.2151.00
173_H189_E2.2051.00
159_T266_H2.1821.00
164_T242_E2.1351.00
45_I60_A2.1021.00
92_H121_T2.0881.00
8_Y35_M2.0831.00
20_K23_Q2.0631.00
10_L69_Q2.0191.00
162_K264_P2.0171.00
112_D287_H2.0131.00
182_Q185_E2.0111.00
67_Q74_S1.9971.00
232_S252_K1.9951.00
14_R69_Q1.9841.00
10_L14_R1.9721.00
228_S247_G1.9621.00
94_R123_Q1.9511.00
10_L65_Y1.9511.00
166_M242_E1.9281.00
11_E14_R1.9271.00
11_E15_L1.9211.00
13_A57_L1.8881.00
192_I236_G1.8871.00
8_Y32_I1.8861.00
169_V256_I1.8661.00
71_I75_F1.8601.00
65_Y69_Q1.8251.00
18_F36_I1.7331.00
232_S247_G1.7321.00
166_M255_V1.7311.00
190_P218_I1.7291.00
49_Y56_E1.7171.00
135_G140_S1.7131.00
64_M78_L1.7111.00
157_S268_A1.6921.00
63_S81_E1.6791.00
13_A65_Y1.6491.00
132_V144_G1.6331.00
15_L20_K1.6051.00
113_F284_W1.5721.00
14_R24_S1.5641.00
156_H273_K1.5641.00
10_L68_A1.5561.00
134_E138_D1.5261.00
178_E185_E1.5231.00
9_F65_Y1.5191.00
5_H35_M1.5101.00
67_Q70_E1.5021.00
8_Y27_V1.4991.00
5_H42_E1.4861.00
17_S20_K1.4821.00
158_F271_W1.4801.00
88_V119_N1.4761.00
5_H38_N1.4711.00
28_S31_T1.4681.00
19_T29_Q1.4571.00
113_F120_V1.4541.00
46_E49_Y1.4451.00
127_D131_K1.4381.00
11_E25_L1.4251.00
59_D62_H1.4231.00
285_L289_K1.4221.00
146_V270_I1.4091.00
103_S225_D1.4031.00
156_H271_W1.3971.00
271_W285_L1.3931.00
201_H205_M1.3901.00
148_L268_A1.3881.00
67_Q77_N1.3871.00
10_L72_I1.3791.00
71_I78_L1.3701.00
277_L281_A1.3701.00
90_K119_N1.3391.00
94_R125_V1.3371.00
51_N56_E1.3351.00
283_A286_E1.3321.00
74_S77_N1.3151.00
163_E243_R1.3141.00
171_P252_K1.3131.00
135_G141_L1.3121.00
116_N287_H1.3091.00
64_M79_T1.3061.00
269_I285_L1.2951.00
143_I269_I1.2861.00
137_G154_I1.2851.00
112_D116_N1.2811.00
3_I75_F1.2701.00
227_I238_G1.2671.00
143_I281_A1.2671.00
66_V70_E1.2611.00
169_V237_I1.2551.00
189_E237_I1.2431.00
42_E79_T1.2391.00
242_E255_V1.2371.00
114_R218_I1.2361.00
67_Q78_L1.2301.00
171_P254_K1.2121.00
229_E232_S1.2101.00
159_T268_A1.2091.00
114_R190_P1.2011.00
63_S66_V1.1911.00
9_F48_F1.1901.00
27_V31_T1.1861.00
111_G115_E1.1821.00
157_S270_I1.1631.00
34_K38_N1.1631.00
247_G252_K1.1631.00
242_E246_R1.1601.00
111_G233_A1.1581.00
62_H66_V1.1561.00
9_F13_A1.1501.00
37_K41_E1.1361.00
179_K254_K1.1291.00
34_K37_K1.1271.00
174_R189_E1.1211.00
180_E259_V1.1181.00
123_Q220_E1.1141.00
63_S67_Q1.0951.00
9_F47_L1.0911.00
190_P216_H1.0891.00
117_Y283_A1.0871.00
70_E77_N1.0851.00
255_V258_L1.0851.00
208_C213_F1.0831.00
112_D115_E1.0781.00
168_V255_V1.0771.00
102_G126_E1.0761.00
6_L68_A1.0751.00
108_R233_A1.0721.00
286_E289_K1.0711.00
18_F55_V1.0701.00
136_V144_G1.0681.00
113_F287_H1.0671.00
33_S37_K1.0631.00
11_E21_A1.0621.00
93_V284_W1.0621.00
192_I227_I1.0611.00
158_F285_L1.0531.00
71_I74_S1.0501.00
272_R275_R1.0461.00
246_R249_D1.0431.00
12_V21_A1.0421.00
221_T227_I1.0411.00
35_M38_N1.0331.00
109_V288_T1.0301.00
181_C185_E1.0291.00
229_E233_A1.0251.00
127_D135_G1.0241.00
228_S232_S1.0221.00
282_R286_E1.0191.00
137_G152_E1.0171.00
7_T76_Q1.0131.00
79_T83_N1.0121.00
170_H234_N1.0111.00
57_L61_G1.0061.00
183_L260_D1.0051.00
4_R7_T1.0031.00
164_T264_P0.9881.00
168_V245_C0.9871.00
13_A48_F0.9691.00
64_M68_A0.9661.00
73_K77_N0.9651.00
27_V32_I0.9641.00
167_L237_I0.9631.00
202_N205_M0.9611.00
8_Y25_L0.9591.00
287_H290_S0.9571.00
193_F217_I0.9551.00
113_F117_Y0.9541.00
12_V18_F0.9531.00
125_V135_G0.9521.00
76_Q79_T0.9481.00
135_G138_D0.9401.00
169_V173_H0.9351.00
76_Q80_S0.9341.00
9_F57_L0.9311.00
21_A32_I0.9301.00
221_T230_M0.9291.00
173_H176_A0.9261.00
38_N41_E0.9211.00
96_G146_V0.9171.00
9_F39_L0.9111.00
109_V287_H0.9081.00
278_S281_A0.9081.00
20_K24_S0.9031.00
116_N290_S0.8991.00
63_S85_I0.8981.00
48_F55_V0.8891.00
70_E73_K0.8751.00
131_K134_E0.8731.00
99_P223_Q0.8731.00
45_I82_L0.8661.00
202_N206_T0.8651.00
148_L266_H0.8631.00
16_K56_E0.8621.00
13_A61_G0.8571.00
66_V69_Q0.8561.00
121_T216_H0.8521.00
141_L144_G0.8471.00
19_T23_Q0.8441.00
190_P217_I0.8371.00
177_D190_P0.8361.00
120_V280_A0.8361.00
25_L32_I0.8281.00
156_H159_T0.8281.00
60_A85_I0.8241.00
51_N54_Q0.8231.00
204_I208_C0.8201.00
96_G144_G0.8171.00
111_G235_L0.8151.00
95_I143_I0.8141.00
173_H190_P0.8131.00
91_G280_A0.8111.00
168_V238_G0.8111.00
155_F270_I0.8111.00
75_F79_T0.8081.00
169_V174_R0.8081.00
125_V141_L0.8081.00
174_R179_K0.8071.00
173_H177_D0.8041.00
154_I273_K0.8011.00
185_E188_D0.8011.00
60_A82_L0.8001.00
9_F64_M0.7991.00
75_F78_L0.7991.00
16_K62_H0.7941.00
29_Q33_S0.7921.00
286_E290_S0.7921.00
13_A16_K0.7921.00
133_Q137_G0.7901.00
207_E211_A0.7881.00
248_L251_E0.7871.00
60_A63_S0.7861.00
74_S78_L0.7851.00
4_R35_M0.7841.00
175_L189_E0.7831.00
14_R65_Y0.7831.00
77_N81_E0.7821.00
277_L282_R0.7811.00
3_I72_I0.7741.00
37_K46_E0.7741.00
279_F283_A0.7691.00
12_V48_F0.7681.00
15_L21_A0.7671.00
184_R187_K0.7671.00
114_R235_L0.7671.00
164_T262_V0.7651.00
170_H235_L0.7621.00
16_K54_Q0.7611.00
182_Q259_V0.7591.00
12_V36_I0.7561.00
96_G132_V0.7521.00
91_G120_V0.7501.00
5_H8_Y0.7481.00
143_I284_W0.7451.00
164_T257_P0.7421.00
230_M235_L0.7391.00
232_S250_P0.7371.00
172_S176_A0.7361.00
7_T11_E0.7361.00
78_L82_L0.7341.00
12_V32_I0.7311.00
18_F32_I0.7271.00
168_V240_L0.7261.00
247_G250_P0.7251.00
113_F283_A0.7231.00
116_N283_A0.7231.00
176_A254_K0.7211.00
68_A71_I0.7191.00
131_K135_G0.7191.00
89_K117_Y0.7181.00
97_L102_G0.7171.00
49_Y58_T0.7171.00
83_N86_M0.7141.00
137_G155_F0.7121.00
69_Q73_K0.7111.00
170_H173_H0.7101.00
49_Y54_Q0.7071.00
62_H65_Y0.7061.00
139_G272_R0.7031.00
223_Q226_F0.6991.00
203_R207_E0.6971.00
206_T210_K0.6951.00
60_A64_M0.6941.00
169_V254_K0.6921.00
207_E210_K0.6891.00
31_T35_M0.6881.00
241_P244_I0.6871.00
94_R141_L0.6841.00
57_L62_H0.6841.00
56_E62_H0.6841.00
187_K213_F0.6831.00
195_R220_E0.6821.00
275_R278_S0.6791.00
169_V175_L0.6781.00
283_A287_H0.6781.00
94_R142_D0.6751.00
205_M209_I0.6751.00
184_R211_A0.6741.00
142_D281_A0.6711.00
201_H220_E0.6701.00
191_F215_P0.6691.00
194_F227_I0.6691.00
180_E257_P0.6681.00
59_D63_S0.6681.00
204_I207_E0.6671.00
7_T10_L0.6621.00
172_S234_N0.6521.00
40_E45_I0.6501.00
64_M82_L0.6501.00
127_D132_V0.6481.00
112_D290_S0.6471.00
103_S229_E0.6461.00
172_S175_L0.6441.00
40_E50_R0.6441.00
168_V248_L0.6431.00
191_F237_I0.6421.00
219_Y230_M0.6381.00
206_T209_I0.6371.00
73_K76_Q0.6351.00
67_Q71_I0.6351.00
202_N207_E0.6341.00
77_N80_S0.6321.00
121_T220_E0.6311.00
36_I40_E0.6311.00
23_Q26_Y0.6221.00
97_L106_F0.6211.00
126_E222_S0.6211.00
182_Q260_D0.6201.00
68_A72_I0.6191.00
167_L239_L0.6161.00
93_V280_A0.6151.00
248_L255_V0.6111.00
279_F282_R0.6101.00
167_L186_L0.6091.00
203_R206_T0.6091.00
134_E140_S0.6081.00
171_P251_E0.6051.00
134_E137_G0.6041.00
12_V17_S0.6041.00
4_R38_N0.6021.00
188_D216_H0.6011.00
18_F54_Q0.5991.00
195_R222_S0.5991.00
143_I285_L0.5981.00
172_S254_K0.5971.00
137_G140_S0.5951.00
108_R111_G0.5941.00
145_V288_T0.5931.00
99_P128_G0.5931.00
21_A25_L0.5901.00
205_M208_C0.5891.00
7_T72_I0.5891.00
147_V265_W0.5841.00
175_L178_E0.5831.00
93_V143_I0.5801.00
106_F109_V0.5791.00
63_S82_L0.5781.00
43_L64_M0.5771.00
90_K121_T0.5771.00
80_S84_D0.5761.00
126_E223_Q0.5731.00
245_C248_L0.5721.00
221_T226_F0.5691.00
9_F61_G0.5661.00
161_V267_L0.5641.00
43_L82_L0.5631.00
30_P34_K0.5631.00
4_R8_Y0.5601.00
284_W288_T0.5591.00
208_C215_P0.5591.00
167_L191_F0.5581.00
31_T34_K0.5571.00
28_S34_K0.5561.00
45_I49_Y0.5551.00
227_I231_V0.5541.00
163_E265_W0.5521.00
175_L181_C0.5521.00
165_L239_L0.5501.00
48_F57_L0.5491.00
117_Y120_V0.5491.00
57_L65_Y0.5491.00
72_I76_Q0.5481.00
108_R112_D0.5481.00
196_E220_E0.5431.00
101_I105_F0.5421.00
174_R178_E0.5411.00
200_L204_I0.5411.00
230_M236_G0.5401.00
271_W282_R0.5361.00
156_H274_D0.5331.00
173_H237_I0.5311.00
136_V155_F0.5311.00
96_G125_V0.5251.00
160_I269_I0.5241.00
43_L46_E0.5231.00
13_A62_H0.5231.00
148_L157_S0.5221.00
103_S223_Q0.5201.00
110_L122_F0.5191.00
240_L245_C0.5181.00
224_W241_P0.5181.00
8_Y36_I0.5171.00
18_F29_Q0.5151.00
139_G275_R0.5111.00
96_G127_D0.5101.00
84_D89_K0.5091.00
66_V81_E0.5091.00
80_S83_N0.5081.00
91_G119_N0.5071.00
8_Y21_A0.5071.00
27_V35_M0.5071.00
72_I75_F0.5041.00
16_K55_V0.5041.00
46_E60_A0.5041.00
115_E176_A0.5011.00
108_R229_E0.5001.00
281_A285_L0.5001.00
168_V253_V0.5001.00
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  
1al3A 1 0.7176 100 0.088 Contact Map
1ixcA 4 0.9701 100 0.089 Contact Map
4x6gA 4 1 100 0.091 Contact Map
2esnA 3 0.9701 100 0.096 Contact Map
1uthA 2 0.7508 100 0.096 Contact Map
2h9bA 2 0.6977 100 0.098 Contact Map
2h98A 2 0.6977 100 0.099 Contact Map
3fxqA 3 0.9668 100 0.099 Contact Map
3fzvA 4 0.9502 100 0.1 Contact Map
3szpA 3 0.9601 100 0.121 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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