GREMLIN Database
YRAN - Uncharacterized HTH-type transcriptional regulator YraN
UniProt: O07906 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 289 (276)
Sequences: 78917 (57090)
Seq/√Len: 3436.4

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_R74_E3.7341.00
15_E24_R3.4351.00
157_E282_K2.6351.00
67_Y81_H2.5691.00
11_I24_R2.5611.00
96_G141_V2.4751.00
158_R259_D2.3341.00
92_H123_S2.2561.00
45_I60_E2.2341.00
158_R161_R2.2291.00
161_R259_D2.2271.00
223_V230_S2.2011.00
8_L35_R2.1751.00
10_K69_R2.1711.00
10_K14_E2.1141.00
92_H121_Q2.0921.00
67_Y74_E2.0891.00
165_H234_E2.0731.00
163_K234_E2.0481.00
161_R257_M2.0371.00
11_I15_E2.0341.00
112_E280_F2.0291.00
224_K245_T1.9921.00
94_R123_S1.9851.00
20_K23_E1.9681.00
11_I14_E1.9591.00
168_S249_Y1.9381.00
13_H57_F1.9301.00
10_K65_V1.9121.00
220_K240_S1.9091.00
8_L32_I1.8891.00
71_M75_L1.8861.00
14_E69_R1.8811.00
224_K240_S1.8731.00
65_V69_R1.8631.00
173_T176_Q1.8591.00
183_I228_G1.8441.00
165_H248_L1.8161.00
13_H65_V1.7631.00
181_P210_A1.7591.00
63_H81_H1.7211.00
49_T56_T1.7011.00
64_L78_T1.6831.00
15_E20_K1.6751.00
67_Y70_R1.6371.00
134_K138_A1.6301.00
18_V36_L1.5901.00
10_K68_A1.5731.00
17_S20_K1.5671.00
157_E264_Y1.5601.00
156_E266_Q1.5571.00
5_D35_R1.5441.00
5_D42_I1.5401.00
14_E24_R1.5341.00
5_D38_K1.5321.00
132_V144_G1.5201.00
103_Q217_E1.5011.00
264_Y278_I1.4861.00
28_S31_S1.4761.00
146_L263_M1.4701.00
113_F277_F1.4681.00
67_Y77_D1.4671.00
127_G131_D1.4631.00
51_R56_T1.4561.00
11_I25_L1.4491.00
156_E264_Y1.4461.00
46_E49_T1.4441.00
9_L65_V1.4401.00
278_I282_K1.4391.00
74_E77_D1.4341.00
8_L27_T1.4241.00
192_K196_E1.4211.00
180_L229_Y1.4051.00
19_T29_Q1.4041.00
88_E119_N1.4031.00
116_M280_F1.4031.00
148_G261_W1.3991.00
113_F120_V1.3991.00
71_M78_T1.3981.00
94_R125_Q1.3931.00
136_L144_G1.3651.00
64_L79_K1.3541.00
59_A62_E1.3511.00
66_A70_R1.3441.00
276_A279_D1.3421.00
10_K72_L1.3331.00
158_R261_W1.3331.00
219_C230_S1.3311.00
90_Q119_N1.3301.00
270_G274_V1.3301.00
162_E235_I1.3241.00
262_L278_I1.3051.00
240_S245_T1.3051.00
143_V262_L1.3021.00
221_E224_K1.2991.00
67_Y78_T1.2961.00
27_T31_S1.2761.00
112_E116_M1.2711.00
170_K245_T1.2571.00
170_K247_E1.2491.00
137_D154_G1.2471.00
34_Y38_K1.2451.00
63_H66_A1.2431.00
143_V274_V1.2421.00
114_S210_A1.2311.00
9_L48_F1.2291.00
234_E248_L1.2261.00
3_E75_L1.2221.00
111_R225_H1.2151.00
9_L13_H1.1961.00
63_H67_Y1.1911.00
42_I79_K1.1861.00
111_R115_T1.1801.00
114_S181_P1.1711.00
234_E238_Q1.1611.00
108_K225_H1.1431.00
172_I176_Q1.1431.00
34_Y37_K1.1411.00
70_R77_D1.1251.00
62_E66_A1.1251.00
248_L251_A1.1211.00
117_Y276_A1.1191.00
238_Q242_H1.1161.00
168_S229_Y1.1111.00
6_W68_A1.1091.00
157_E278_I1.1031.00
11_I21_T1.1021.00
123_S212_E1.0991.00
220_K224_K1.0981.00
193_T196_E1.0981.00
102_A126_T1.0891.00
167_I248_L1.0751.00
37_K41_E1.0741.00
18_V55_I1.0711.00
221_E225_H1.0671.00
239_E243_L1.0601.00
71_M74_E1.0561.00
181_P208_I1.0531.00
33_T37_K1.0511.00
35_R38_K1.0491.00
169_K226_G1.0491.00
275_K279_D1.0431.00
279_D282_K1.0401.00
79_K83_S1.0391.00
9_L47_L1.0351.00
113_F280_F1.0251.00
163_K257_M1.0241.00
73_Q77_D1.0171.00
265_D268_S1.0151.00
12_L21_T1.0091.00
137_D152_W1.0091.00
93_L277_F1.0041.00
109_L281_L0.9971.00
184_K209_I0.9961.00
64_L68_A0.9961.00
112_E115_T0.9951.00
12_L18_V0.9951.00
4_K7_I0.9921.00
213_V219_C0.9851.00
57_F61_G0.9791.00
113_F117_Y0.9791.00
280_F283_G0.9761.00
38_K41_E0.9741.00
199_M205_Q0.9711.00
183_I219_C0.9601.00
21_T32_I0.9561.00
8_L25_L0.9511.00
13_H48_F0.9461.00
27_T32_I0.9441.00
7_I76_Q0.9441.00
70_R73_Q0.9431.00
76_Q79_K0.9431.00
167_I237_L0.9401.00
20_K24_R0.9371.00
75_L79_K0.9351.00
96_G146_L0.9331.00
63_H85_L0.9301.00
9_L39_I0.9281.00
213_V222_M0.9261.00
9_L57_F0.9231.00
193_T197_D0.9201.00
174_I253_G0.9111.00
109_L280_F0.9031.00
271_I274_V0.8941.00
99_S215_R0.8941.00
166_I229_Y0.8931.00
76_Q80_D0.8931.00
60_E63_H0.8901.00
171_P252_K0.8901.00
16_Q56_T0.8881.00
181_P209_I0.8861.00
141_V144_G0.8821.00
116_M283_G0.8801.00
66_A69_R0.8721.00
45_I82_I0.8691.00
148_G259_D0.8671.00
19_T23_E0.8671.00
111_R227_L0.8651.00
91_G273_L0.8621.00
48_F55_I0.8621.00
168_S247_E0.8551.00
77_D81_H0.8511.00
51_R54_G0.8501.00
75_L78_T0.8481.00
25_L32_I0.8461.00
125_Q141_V0.8391.00
29_Q33_T0.8381.00
60_E85_L0.8331.00
74_E78_T0.8311.00
14_E65_V0.8271.00
240_S243_L0.8251.00
15_E21_T0.8231.00
272_K276_A0.8221.00
131_D134_K0.8221.00
114_S227_L0.8211.00
13_H16_Q0.8211.00
9_L64_L0.8201.00
7_I11_I0.8191.00
60_E82_I0.8181.00
169_K227_L0.8171.00
16_Q54_G0.8151.00
195_I199_M0.8151.00
270_G275_K0.8061.00
175_E178_P0.8061.00
95_L143_V0.8051.00
96_G144_G0.8011.00
4_K35_R0.7991.00
13_H61_G0.7981.00
120_V273_L0.7971.00
12_L48_F0.7921.00
16_Q62_E0.7871.00
222_M227_L0.7831.00
155_V263_M0.7831.00
62_E65_V0.7831.00
69_R73_Q0.7811.00
121_Q208_I0.7711.00
12_L32_I0.7711.00
5_D8_L0.7701.00
78_T82_I0.7691.00
37_K46_E0.7681.00
163_K250_N0.7661.00
194_I198_W0.7661.00
68_A71_M0.7641.00
178_P205_Q0.7631.00
167_I230_S0.7621.00
113_F276_A0.7581.00
49_T58_T0.7581.00
18_V32_I0.7581.00
237_L240_S0.7561.00
3_E72_L0.7551.00
139_G265_D0.7551.00
97_V102_A0.7511.00
215_R218_T0.7491.00
7_I10_K0.7491.00
83_S86_S0.7481.00
182_F207_P0.7481.00
197_D201_T0.7481.00
279_D283_G0.7471.00
276_A280_F0.7451.00
196_E200_H0.7441.00
173_T253_G0.7441.00
163_K255_P0.7411.00
12_L36_L0.7411.00
167_I232_A0.7351.00
91_G120_V0.7271.00
198_W201_T0.7271.00
59_A63_H0.7221.00
268_S271_I0.7211.00
194_I197_D0.7201.00
143_V277_F0.7191.00
241_D244_Y0.7161.00
137_D155_V0.7151.00
142_Q274_V0.7141.00
60_E64_L0.7131.00
195_I198_W0.7111.00
186_K212_E0.7071.00
116_M276_A0.7051.00
103_Q221_E0.7031.00
31_S35_R0.7021.00
67_Y71_M0.6971.00
94_R142_Q0.6921.00
233_P236_C0.6911.00
133_M137_D0.6801.00
192_K198_W0.6791.00
89_V117_Y0.6741.00
64_L82_I0.6731.00
108_K111_R0.6691.00
167_I241_D0.6681.00
171_P250_N0.6671.00
49_T54_G0.6671.00
57_F62_E0.6661.00
94_R141_V0.6651.00
126_T214_D0.6641.00
7_I72_L0.6631.00
191_L195_I0.6631.00
176_Q179_F0.6611.00
56_T62_E0.6601.00
154_G266_Q0.6591.00
9_L61_G0.6571.00
121_Q212_E0.6571.00
40_E50_K0.6561.00
96_G132_V0.6551.00
127_G132_V0.6551.00
23_E26_F0.6541.00
166_I231_I0.6521.00
237_L241_D0.6491.00
185_Y219_C0.6461.00
77_D80_D0.6391.00
241_D248_L0.6371.00
272_K275_K0.6361.00
182_F229_Y0.6351.00
4_K38_K0.6281.00
211_M222_M0.6241.00
73_Q76_Q0.6191.00
147_R258_R0.6171.00
166_I177_L0.6161.00
224_K243_L0.6161.00
72_L76_Q0.6141.00
190_S193_T0.6121.00
197_D200_H0.6111.00
40_E45_I0.6101.00
36_L40_E0.6091.00
143_V278_I0.6071.00
106_L109_L0.6061.00
13_H62_E0.6061.00
12_L17_S0.6011.00
43_F64_L0.5991.00
186_K214_D0.5971.00
239_E242_H0.5971.00
112_E283_G0.5911.00
213_V218_T0.5911.00
97_V106_L0.5901.00
68_A72_L0.5871.00
173_T252_K0.5841.00
191_L194_I0.5831.00
170_K244_Y0.5831.00
21_T25_L0.5811.00
80_D84_N0.5811.00
4_K8_L0.5791.00
171_P176_Q0.5791.00
108_K112_E0.5781.00
193_T198_W0.5771.00
45_I49_T0.5741.00
117_Y120_V0.5731.00
93_L143_V0.5731.00
134_K137_D0.5721.00
90_Q121_Q0.5721.00
105_K109_L0.5721.00
93_L273_L0.5701.00
277_F281_L0.5691.00
196_E199_M0.5671.00
63_H82_I0.5631.00
96_G125_Q0.5631.00
18_V29_Q0.5591.00
179_F208_I0.5581.00
192_K212_E0.5561.00
48_F57_F0.5561.00
30_P34_Y0.5561.00
43_F82_I0.5551.00
28_S34_Y0.5541.00
136_L155_V0.5531.00
126_T215_R0.5501.00
219_C223_V0.5491.00
162_E258_R0.5481.00
43_F46_E0.5471.00
91_G119_N0.5441.00
31_S34_Y0.5431.00
264_Y275_K0.5421.00
81_H84_N0.5401.00
107_P111_R0.5401.00
166_I182_F0.5381.00
177_L180_L0.5371.00
164_L231_I0.5371.00
199_M207_P0.5371.00
84_N89_V0.5371.00
16_Q55_I0.5361.00
111_R114_S0.5351.00
27_T35_R0.5331.00
216_Q233_P0.5321.00
46_E60_E0.5311.00
136_L263_M0.5311.00
232_A237_L0.5291.00
222_M228_G0.5271.00
159_L262_L0.5261.00
101_F105_K0.5261.00
80_D83_S0.5261.00
57_F65_V0.5241.00
97_V124_V0.5241.00
273_L276_A0.5241.00
192_K195_I0.5241.00
96_G127_G0.5231.00
8_L36_L0.5221.00
137_D140_I0.5211.00
103_Q215_R0.5211.00
178_P206_A0.5201.00
108_K221_E0.5191.00
38_K42_I0.5151.00
217_E221_E0.5121.00
18_V50_K0.5111.00
18_V54_G0.5091.00
274_V278_I0.5081.00
8_L21_T0.5081.00
156_E267_K0.5081.00
245_T248_L0.5061.00
187_T212_E0.5051.00
121_Q210_A0.5051.00
71_M79_K0.5041.00
6_W64_L0.5031.00
160_T260_T0.5031.00
275_K278_I0.5011.00
85_L89_V0.5001.00
30_P33_T0.5001.00
43_F79_K0.5001.00
175_E205_Q0.5001.00
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  
2esnA 3 0.9862 100 0.092 Contact Map
3fxqA 3 0.9862 100 0.097 Contact Map
1uthA 2 0.7509 100 0.103 Contact Map
3fzvA 4 0.9619 100 0.107 Contact Map
1al3A 1 0.699 100 0.107 Contact Map
1ixcA 4 0.9792 100 0.107 Contact Map
4x6gA 4 1 100 0.11 Contact Map
2h98A 2 0.6782 100 0.113 Contact Map
2h9bA 2 0.6782 100 0.12 Contact Map
3szpA 3 0.9723 100 0.125 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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