GREMLIN Database
YXJO - Uncharacterized HTH-type transcriptional regulator YxjO
UniProt: P55181 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 291 (276)
Sequences: 79304 (57621)
Seq/√Len: 3468.3

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_V3.6141.00
15_S24_H3.3741.00
158_Q283_H2.5921.00
96_A141_A2.5081.00
67_Y81_K2.4921.00
11_A24_H2.3961.00
173_E185_Y2.3491.00
92_S123_S2.2141.00
225_M232_S2.2121.00
159_H162_E2.1991.00
162_E263_Q2.1601.00
45_M60_E2.1281.00
159_H263_Q2.1211.00
164_T236_T2.0971.00
92_S121_E2.0661.00
8_T35_H2.0651.00
10_I69_K2.0351.00
20_E23_E2.0221.00
67_Y74_V2.0141.00
10_I14_E1.9771.00
178_A181_V1.9741.00
226_K247_K1.9701.00
166_C236_T1.9691.00
112_A281_M1.9581.00
94_T123_S1.9501.00
11_A15_S1.9431.00
162_E261_A1.9411.00
14_E69_K1.9391.00
222_V242_E1.9381.00
10_I65_L1.9221.00
11_A14_E1.9191.00
13_A57_L1.8821.00
226_K242_E1.8751.00
8_T32_V1.8671.00
71_M75_Y1.8551.00
188_L230_G1.8541.00
65_L69_K1.8151.00
169_A251_V1.7981.00
166_C250_A1.7761.00
186_R212_M1.7461.00
49_L56_V1.6971.00
63_L81_K1.6901.00
64_F78_G1.6831.00
18_F36_M1.6771.00
13_A65_L1.6621.00
135_A140_E1.6421.00
157_Y265_F1.6241.00
15_S20_E1.6191.00
10_I68_A1.5501.00
14_E24_H1.5481.00
67_Y70_E1.5301.00
5_W35_H1.5231.00
156_Y270_R1.5181.00
17_S20_E1.5071.00
134_Q138_H1.4851.00
9_F65_L1.4821.00
5_W42_E1.4811.00
5_W38_K1.4671.00
8_T27_L1.4601.00
113_Y120_V1.4511.00
46_R49_L1.4451.00
28_T31_A1.4431.00
88_G119_H1.4391.00
11_A25_L1.4361.00
113_Y278_F1.4301.00
158_Q268_W1.4241.00
19_R29_Q1.4221.00
103_S219_D1.4181.00
174_S181_V1.4091.00
67_Y77_A1.4071.00
197_D201_D1.4001.00
169_A173_E1.3961.00
71_M78_G1.3791.00
51_S56_V1.3791.00
59_D62_R1.3781.00
279_H283_H1.3731.00
156_Y268_W1.3661.00
94_T125_H1.3651.00
136_V144_G1.3551.00
10_I72_I1.3531.00
135_A141_A1.3391.00
90_S119_H1.3391.00
74_V77_A1.3351.00
146_S267_M1.3281.00
64_F79_K1.3201.00
143_I275_I1.3161.00
137_E154_T1.3121.00
171_F247_K1.3001.00
268_W279_H1.2971.00
277_H280_A1.2961.00
163_G237_Y1.2931.00
148_K265_F1.2871.00
116_K281_M1.2801.00
242_E247_K1.2781.00
185_Y231_A1.2771.00
66_P70_E1.2721.00
112_A116_K1.2691.00
198_A201_D1.2601.00
221_A232_S1.2571.00
169_A231_A1.2511.00
67_Y78_G1.2441.00
114_I212_M1.2351.00
3_L75_Y1.2351.00
223_H226_K1.2341.00
171_F249_M1.2301.00
42_E79_K1.2291.00
143_I266_M1.2221.00
27_L31_A1.2221.00
114_I186_R1.2131.00
63_L66_P1.2051.00
266_M279_H1.1951.00
236_T250_A1.1851.00
240_K244_A1.1781.00
111_P115_Q1.1781.00
9_F48_F1.1771.00
159_H265_F1.1761.00
111_P227_A1.1721.00
34_Q38_K1.1681.00
236_T240_K1.1601.00
250_A253_T1.1501.00
9_F13_A1.1491.00
62_R66_P1.1411.00
127_A135_A1.1341.00
37_R41_D1.1311.00
175_R249_M1.1291.00
63_L67_Y1.1291.00
176_P254_P1.1191.00
157_Y267_M1.1091.00
34_Q37_R1.1051.00
123_S214_A1.0891.00
168_A250_A1.0881.00
70_E77_A1.0861.00
177_D181_V1.0841.00
108_R227_A1.0831.00
18_F55_V1.0791.00
102_A126_V1.0771.00
186_R210_L1.0741.00
6_L68_A1.0731.00
112_A115_Q1.0721.00
9_F47_L1.0711.00
33_S37_R1.0711.00
11_A21_A1.0641.00
137_E152_T1.0521.00
223_H227_A1.0511.00
222_V226_K1.0481.00
71_M74_V1.0471.00
204_R207_Y1.0381.00
280_A283_H1.0381.00
117_H277_H1.0371.00
188_L221_A1.0361.00
35_H38_K1.0291.00
12_A21_A1.0271.00
113_Y281_M1.0231.00
215_V221_A1.0231.00
276_Q280_A1.0221.00
170_P228_G1.0151.00
241_Q245_E1.0111.00
79_K83_S1.0061.00
158_Q279_H1.0031.00
4_K7_Q0.9991.00
272_S275_I0.9881.00
125_H135_A0.9861.00
57_L61_G0.9821.00
168_A239_I0.9811.00
64_F68_A0.9781.00
73_H77_A0.9731.00
109_F282_L0.9731.00
7_Q76_Q0.9731.00
113_Y117_H0.9701.00
8_T25_L0.9631.00
12_A18_F0.9611.00
27_L32_V0.9531.00
13_A48_F0.9501.00
76_Q79_K0.9501.00
189_T211_Q0.9501.00
93_L278_F0.9421.00
21_A32_V0.9391.00
164_T261_A0.9381.00
38_K41_D0.9341.00
167_L231_A0.9301.00
281_M284_D0.9251.00
76_Q80_Q0.9241.00
9_F39_L0.9231.00
9_F57_L0.9171.00
215_V224_M0.9171.00
20_E24_H0.9161.00
135_A138_H0.9121.00
179_A255_A0.9071.00
187_L209_Y0.9031.00
96_A144_G0.8981.00
116_K284_D0.8941.00
70_E73_H0.8921.00
48_F55_V0.8911.00
109_F281_M0.8871.00
16_E56_V0.8871.00
99_P217_Q0.8831.00
45_M82_V0.8801.00
242_E245_E0.8761.00
96_A146_S0.8651.00
183_T207_Y0.8631.00
141_A144_G0.8621.00
186_R211_Q0.8621.00
198_A202_N0.8581.00
66_P69_K0.8551.00
133_K137_E0.8501.00
156_Y159_H0.8491.00
75_Y79_K0.8461.00
148_K263_Q0.8441.00
13_A61_G0.8431.00
19_R23_E0.8391.00
25_L32_V0.8371.00
121_E210_L0.8341.00
170_P173_E0.8341.00
95_L143_I0.8331.00
111_P229_M0.8281.00
51_S54_R0.8261.00
173_E186_R0.8241.00
125_H141_A0.8191.00
168_A232_S0.8091.00
29_Q33_S0.8081.00
199_F203_I0.8081.00
13_A16_E0.8071.00
60_E63_L0.8051.00
60_E82_V0.8051.00
77_A81_K0.8041.00
75_Y78_G0.8031.00
63_L85_W0.8031.00
181_V184_R0.8021.00
74_V78_G0.8011.00
9_F64_F0.8011.00
15_S21_A0.8001.00
14_E65_L0.7961.00
16_E54_R0.7891.00
155_L267_M0.7881.00
114_I229_M0.7871.00
201_D205_S0.7861.00
170_P229_M0.7851.00
239_I242_E0.7851.00
164_T252_S0.7841.00
280_A284_D0.7841.00
120_V274_D0.7811.00
180_S183_T0.7801.00
169_A249_M0.7791.00
37_R46_R0.7781.00
16_E62_R0.7731.00
91_R274_D0.7731.00
224_M229_M0.7661.00
178_A254_P0.7661.00
4_K35_H0.7641.00
3_L72_I0.7631.00
273_E277_H0.7631.00
7_Q11_A0.7611.00
12_A48_F0.7581.00
83_S86_K0.7551.00
5_W8_T0.7551.00
12_A36_M0.7521.00
91_R120_V0.7491.00
60_E85_W0.7421.00
49_L58_T0.7411.00
68_A71_M0.7391.00
18_F32_V0.7391.00
12_A32_V0.7371.00
97_V102_A0.7351.00
78_G82_V0.7351.00
69_K73_H0.7311.00
203_I206_H0.7301.00
62_R65_L0.7261.00
201_D204_R0.7251.00
196_G200_L0.7251.00
137_E155_L0.7251.00
200_L203_I0.7231.00
168_A234_L0.7181.00
113_Y277_H0.7171.00
154_T270_R0.7121.00
89_Y117_H0.7111.00
255_A258_E0.7111.00
217_Q220_T0.7011.00
60_E64_F0.7001.00
142_D275_I0.6981.00
235_P238_I0.6941.00
7_Q10_I0.6941.00
116_K277_H0.6911.00
31_A35_H0.6911.00
94_T141_A0.6891.00
59_D63_L0.6861.00
56_V62_R0.6851.00
94_T142_D0.6791.00
57_L62_R0.6751.00
143_I278_F0.6751.00
139_N269_K0.6731.00
191_D214_A0.6711.00
172_Q228_G0.6701.00
277_H281_M0.6671.00
49_L54_R0.6671.00
40_E45_M0.6651.00
64_F82_V0.6561.00
121_E214_A0.6551.00
103_S223_H0.6541.00
67_Y71_M0.6531.00
273_E276_Q0.6521.00
164_T258_E0.6511.00
77_A80_Q0.6461.00
172_Q249_M0.6431.00
190_H221_A0.6421.00
202_N206_H0.6421.00
173_E177_D0.6411.00
23_E26_Y0.6391.00
73_H76_Q0.6381.00
40_E50_H0.6371.00
173_E231_A0.6371.00
108_R111_P0.6351.00
195_Y198_A0.6351.00
187_L231_A0.6341.00
199_F204_R0.6301.00
126_V216_G0.6271.00
178_A255_A0.6221.00
184_R210_L0.6211.00
147_R262_S0.6211.00
167_L233_F0.6201.00
176_P252_S0.6191.00
167_L182_L0.6161.00
199_F202_N0.6161.00
213_M224_M0.6141.00
36_M40_E0.6141.00
278_F282_L0.6141.00
4_K38_K0.6121.00
241_Q244_A0.6111.00
7_Q72_I0.6111.00
12_A17_S0.6111.00
97_V106_L0.6101.00
200_L204_R0.6061.00
21_A25_L0.6061.00
106_L109_F0.6061.00
112_A284_D0.6051.00
80_Q84_Q0.6041.00
68_A72_I0.6031.00
9_F61_G0.6001.00
93_L274_D0.6001.00
93_L143_I0.5971.00
171_F246_K0.5971.00
99_P128_G0.5861.00
191_D216_G0.5801.00
90_S121_E0.5781.00
72_I76_Q0.5761.00
117_H120_V0.5751.00
126_V217_Q0.5751.00
202_N205_S0.5741.00
196_G201_D0.5731.00
63_L82_V0.5731.00
43_L64_F0.5721.00
4_K8_T0.5711.00
18_F54_R0.5701.00
31_A34_Q0.5671.00
45_M49_L0.5651.00
43_L82_V0.5641.00
143_I279_H0.5631.00
28_T34_Q0.5621.00
167_L187_L0.5611.00
221_A225_M0.5591.00
30_P34_Q0.5581.00
197_D214_A0.5571.00
136_V155_L0.5561.00
108_R112_A0.5541.00
215_V220_T0.5531.00
96_A127_A0.5531.00
174_S177_D0.5531.00
165_L233_F0.5531.00
204_R209_Y0.5511.00
48_F57_L0.5511.00
234_L239_I0.5481.00
13_A62_R0.5451.00
96_A125_H0.5421.00
57_L65_L0.5411.00
91_R119_H0.5411.00
101_I105_I0.5391.00
43_L46_R0.5391.00
18_F29_Q0.5381.00
224_M230_G0.5361.00
145_L282_L0.5351.00
148_K157_Y0.5351.00
192_H214_A0.5331.00
46_R60_E0.5311.00
274_D277_H0.5281.00
183_T208_P0.5281.00
8_T36_M0.5281.00
80_Q83_S0.5261.00
16_E55_V0.5251.00
161_C264_T0.5251.00
110_L122_L0.5251.00
105_I109_F0.5251.00
176_P181_V0.5241.00
164_T259_L0.5221.00
268_W276_Q0.5171.00
226_K245_E0.5151.00
97_V124_T0.5151.00
84_Q89_Y0.5141.00
108_R223_H0.5131.00
18_F50_H0.5121.00
252_S255_A0.5121.00
72_I75_Y0.5111.00
275_I279_H0.5091.00
66_P81_K0.5081.00
163_G262_S0.5081.00
218_T235_P0.5071.00
27_L35_H0.5071.00
71_M79_K0.5061.00
136_V267_M0.5051.00
78_G81_K0.5051.00
45_M86_K0.5051.00
156_Y271_N0.5041.00
103_S217_Q0.5041.00
81_K84_Q0.5031.00
8_T21_A0.5021.00
107_P111_P0.5001.00
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  
2h98A 2 0.6804 100 0.115 Contact Map
4x6gA 4 0.9931 100 0.116 Contact Map
3fxqA 3 0.9794 100 0.117 Contact Map
1uthA 2 0.7491 100 0.117 Contact Map
2esnA 3 0.9828 100 0.118 Contact Map
1ixcA 4 0.9759 100 0.118 Contact Map
2h9bA 2 0.6804 100 0.119 Contact Map
1al3A 1 0.6976 100 0.124 Contact Map
3fzvA 4 0.9553 100 0.131 Contact Map
3szpA 3 0.9656 100 0.139 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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