GREMLIN Database
BSDA - HTH-type transcriptional regulator BsdA
UniProt: P94403 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 290 (279)
Sequences: 79116 (57800)
Seq/√Len: 3460.4

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
71_E75_R3.7491.00
15_E24_K3.4121.00
11_T24_K2.7701.00
68_R82_E2.6161.00
159_Q268_T2.5301.00
45_V61_E2.3861.00
10_I70_K2.3811.00
97_G141_I2.3401.00
166_V244_V2.3021.00
10_I14_Q2.2451.00
93_T123_N2.2391.00
159_Q162_D2.2321.00
162_D268_T2.2201.00
68_R75_R2.1891.00
8_Y35_Q2.1851.00
11_T15_E2.1761.00
93_T121_T2.0801.00
166_V257_T2.0581.00
173_A189_F2.0461.00
95_A123_N2.0241.00
234_S254_H1.9781.00
13_A58_L1.9721.00
162_D266_I1.9681.00
233_V240_S1.9571.00
164_P244_V1.9451.00
72_I76_F1.9181.00
66_L70_K1.9081.00
11_T14_Q1.8931.00
13_A66_L1.8901.00
182_K185_D1.8831.00
230_L250_H1.8731.00
8_Y32_L1.8701.00
20_S23_K1.8041.00
10_I66_L1.8011.00
68_R71_E1.7921.00
234_S250_H1.7831.00
190_P220_V1.7831.00
14_Q70_K1.7791.00
157_F270_A1.7571.00
64_V82_E1.7511.00
15_E20_S1.7171.00
192_I238_G1.6871.00
169_L258_V1.6841.00
17_K20_S1.6641.00
135_L140_Q1.6401.00
49_D57_T1.6301.00
158_K273_W1.5811.00
65_F79_A1.5681.00
156_Q275_T1.5651.00
75_R78_D1.5481.00
51_N57_T1.5441.00
10_I69_A1.5311.00
5_Q42_E1.5221.00
68_R78_D1.5151.00
5_Q38_Q1.5131.00
135_L141_I1.4831.00
11_T25_L1.4701.00
14_Q24_K1.4631.00
28_A31_P1.4621.00
156_Q273_W1.4471.00
5_Q35_Q1.4321.00
18_I36_L1.4311.00
273_W287_L1.4221.00
67_K71_E1.4151.00
95_A125_W1.4131.00
134_E138_S1.4011.00
146_T272_M1.3971.00
148_T270_A1.3911.00
203_Y207_M1.3861.00
46_V49_D1.3811.00
72_I79_A1.3811.00
159_Q270_A1.3761.00
113_I120_L1.3731.00
163_I245_T1.3691.00
136_L144_A1.3601.00
68_R79_A1.3461.00
231_S234_S1.3391.00
89_E119_H1.3351.00
171_D256_H1.3321.00
65_F80_V1.3241.00
250_H254_H1.3231.00
229_L240_S1.3221.00
19_T29_Q1.3181.00
91_A119_H1.3171.00
143_A271_V1.3161.00
27_M31_P1.3101.00
111_T235_S1.3091.00
271_V287_L1.3091.00
64_V68_R1.3081.00
178_G185_D1.2981.00
9_F66_L1.2951.00
3_I76_F1.2941.00
10_I73_L1.2831.00
113_I286_F1.2801.00
60_Y63_A1.2701.00
34_R38_Q1.2691.00
143_A283_A1.2561.00
114_K220_V1.2531.00
180_T261_E1.2501.00
189_F239_A1.2491.00
108_E235_S1.2481.00
137_E154_T1.2431.00
64_V67_K1.2391.00
114_K190_P1.2371.00
112_Q116_R1.2311.00
169_L239_A1.2311.00
8_Y27_M1.2311.00
52_K55_Q1.2301.00
285_Q288_D1.2271.00
279_L283_A1.2151.00
71_E78_D1.2091.00
111_T115_E1.2061.00
127_N135_L1.2061.00
174_G189_F1.2011.00
257_T260_I1.1991.00
244_V257_T1.1921.00
6_L69_A1.1891.00
171_D254_H1.1871.00
157_F272_M1.1681.00
9_F13_A1.1671.00
42_E80_V1.1601.00
181_I185_D1.1571.00
231_S235_S1.1461.00
190_P218_R1.1421.00
11_T21_A1.1371.00
63_A67_K1.1361.00
34_R37_K1.1321.00
125_W135_L1.1261.00
244_V248_P1.1211.00
72_I75_R1.1201.00
117_Y285_Q1.1171.00
9_F48_F1.1141.00
76_F80_V1.0851.00
193_L219_I1.0741.00
164_P266_I1.0631.00
137_E152_S1.0611.00
168_V257_T1.0601.00
249_V252_R1.0581.00
170_S236_G1.0491.00
18_I56_M1.0481.00
37_K41_D1.0461.00
230_L234_S1.0461.00
179_D256_H1.0451.00
35_Q38_Q1.0441.00
74_H78_D1.0391.00
61_E64_V1.0351.00
80_V84_Q1.0321.00
103_A126_E1.0311.00
33_S37_K1.0231.00
113_I117_Y1.0181.00
65_F69_A1.0061.00
71_E74_H1.0031.00
94_L286_F1.0031.00
123_N222_E0.9811.00
284_Q288_D0.9811.00
204_N208_N0.9771.00
248_P251_M0.9701.00
274_R277_S0.9651.00
168_V247_I0.9621.00
12_I21_A0.9611.00
21_A32_L0.9591.00
64_V86_L0.9581.00
111_T237_F0.9571.00
112_Q115_E0.9561.00
16_Q57_T0.9551.00
38_Q41_D0.9521.00
12_I18_I0.9511.00
192_I229_L0.9491.00
7_R77_E0.9491.00
20_S24_K0.9481.00
58_L62_G0.9421.00
156_Q159_Q0.9351.00
234_S252_R0.9351.00
76_F79_A0.9331.00
78_D82_E0.9311.00
13_A48_F0.9251.00
7_R11_T0.9241.00
9_F47_L0.9241.00
204_N207_M0.9231.00
158_K287_L0.9181.00
77_E80_V0.9151.00
223_C229_L0.9101.00
9_F39_L0.9101.00
51_N55_Q0.9051.00
4_R7_R0.9041.00
15_E21_A0.9021.00
167_L239_A0.9011.00
8_Y25_L0.9001.00
281_K285_Q0.8941.00
7_R10_I0.8911.00
280_P283_A0.8911.00
75_R79_A0.8891.00
135_L138_S0.8861.00
114_K237_F0.8851.00
67_K70_K0.8811.00
27_M32_L0.8801.00
19_T23_K0.8771.00
63_A66_L0.8771.00
61_E86_L0.8721.00
209_E213_L0.8701.00
223_C232_L0.8701.00
169_L173_A0.8681.00
16_Q55_Q0.8671.00
100_I225_D0.8671.00
13_A16_Q0.8661.00
45_V83_V0.8641.00
14_Q66_L0.8601.00
133_L137_E0.8551.00
92_G282_P0.8541.00
148_T268_T0.8521.00
12_I48_F0.8511.00
183_M262_N0.8451.00
172_E236_G0.8441.00
9_F58_L0.8441.00
175_Y189_F0.8391.00
61_E83_V0.8311.00
79_A83_V0.8311.00
125_W141_I0.8301.00
96_V143_A0.8271.00
232_L237_F0.8251.00
173_A176_P0.8241.00
225_D228_T0.8221.00
77_E81_I0.8211.00
48_F56_M0.8201.00
70_K74_H0.8201.00
176_P256_H0.8141.00
4_R35_Q0.8121.00
97_G144_A0.8111.00
190_P219_I0.8091.00
29_Q33_S0.8091.00
98_S103_A0.8061.00
141_I144_A0.8061.00
12_I36_L0.8041.00
184_V187_P0.8031.00
177_C190_P0.8031.00
7_R73_L0.7941.00
25_L32_L0.7941.00
210_F215_L0.7931.00
69_A72_I0.7921.00
97_G146_T0.7891.00
12_I32_L0.7861.00
139_R274_R0.7821.00
209_E212_R0.7801.00
18_I32_L0.7781.00
277_S280_P0.7751.00
164_P264_P0.7751.00
113_I285_Q0.7741.00
60_Y64_V0.7741.00
169_L174_G0.7721.00
170_S173_A0.7711.00
182_K261_E0.7671.00
120_L282_P0.7621.00
191_L217_P0.7601.00
174_G179_D0.7601.00
247_I250_H0.7581.00
205_Q209_E0.7581.00
108_E111_T0.7551.00
170_S237_F0.7511.00
155_V272_M0.7501.00
9_F62_G0.7501.00
168_V242_L0.7491.00
206_V210_F0.7491.00
37_K46_V0.7471.00
185_D188_S0.7451.00
121_T218_R0.7411.00
5_Q8_Y0.7391.00
142_D283_A0.7381.00
169_L256_H0.7361.00
58_L63_A0.7361.00
49_D59_T0.7351.00
279_L284_Q0.7351.00
195_R222_E0.7341.00
13_A63_A0.7341.00
3_I73_L0.7331.00
9_F65_F0.7311.00
16_Q63_A0.7311.00
143_A286_F0.7301.00
68_R72_I0.7271.00
187_P215_L0.7231.00
164_P259_H0.7231.00
95_A142_D0.7221.00
106_M109_K0.7211.00
167_L241_I0.7181.00
137_E155_V0.7131.00
172_E176_P0.7111.00
173_A177_C0.7101.00
51_N54_K0.7041.00
13_A62_G0.7011.00
180_T259_H0.7001.00
208_N212_R0.6991.00
90_V117_Y0.6941.00
205_Q208_N0.6921.00
23_K26_H0.6921.00
203_Y209_E0.6901.00
84_Q87_K0.6871.00
31_P35_Q0.6831.00
49_D55_Q0.6791.00
73_L77_E0.6781.00
207_M211_H0.6751.00
147_T267_M0.6731.00
168_V240_S0.6721.00
206_V209_E0.6711.00
281_K284_Q0.6701.00
202_V206_V0.6681.00
126_E224_H0.6661.00
191_L239_A0.6631.00
243_P246_M0.6601.00
194_L229_L0.6601.00
57_T63_A0.6601.00
61_E65_F0.6591.00
92_G120_L0.6551.00
154_T275_T0.6541.00
107_L111_T0.6501.00
65_F83_V0.6481.00
43_L65_F0.6451.00
182_K262_N0.6391.00
121_T222_E0.6381.00
116_R285_Q0.6351.00
223_C228_T0.6331.00
78_D81_I0.6321.00
195_R224_H0.6311.00
172_E175_Y0.6311.00
202_V205_Q0.6271.00
221_C232_L0.6251.00
171_D253_N0.6231.00
95_A141_I0.6181.00
136_L155_V0.6141.00
184_V213_L0.6121.00
94_L143_A0.6071.00
111_T114_K0.6051.00
4_R38_Q0.6021.00
117_Y120_L0.6011.00
82_E85_E0.6001.00
137_E140_Q0.5991.00
148_T157_F0.5961.00
169_L175_Y0.5951.00
64_V83_V0.5951.00
108_E112_Q0.5941.00
105_L109_K0.5941.00
43_L46_V0.5931.00
4_R8_Y0.5901.00
175_Y178_G0.5891.00
40_E50_R0.5881.00
143_A287_L0.5861.00
21_A25_L0.5861.00
100_I128_E0.5861.00
160_L271_V0.5781.00
97_G127_N0.5781.00
12_I17_K0.5761.00
45_V49_D0.5761.00
173_A239_A0.5761.00
18_I29_Q0.5751.00
74_H77_E0.5731.00
165_C241_I0.5721.00
98_S124_I0.5711.00
38_Q42_E0.5631.00
97_G125_W0.5631.00
91_A121_T0.5621.00
210_F217_P0.5611.00
254_H257_T0.5591.00
81_I85_E0.5581.00
16_Q56_M0.5551.00
136_L272_M0.5541.00
81_I84_Q0.5531.00
108_E231_S0.5521.00
167_L186_I0.5521.00
31_P34_R0.5521.00
175_Y181_I0.5501.00
174_G178_G0.5491.00
79_A82_E0.5481.00
208_N211_H0.5461.00
92_G119_H0.5461.00
282_P285_Q0.5451.00
46_V61_E0.5451.00
6_L65_F0.5451.00
10_I77_E0.5431.00
163_I267_M0.5431.00
48_F58_L0.5421.00
273_W284_Q0.5411.00
229_L233_V0.5381.00
283_A287_L0.5381.00
194_L226_S0.5381.00
98_S106_M0.5381.00
207_M210_F0.5371.00
43_L83_V0.5361.00
45_V87_K0.5351.00
173_A190_P0.5341.00
30_P33_S0.5331.00
273_W279_L0.5311.00
30_P34_R0.5291.00
121_T220_V0.5291.00
203_Y222_E0.5281.00
69_A73_L0.5271.00
99_T102_C0.5261.00
115_E237_F0.5261.00
43_L80_V0.5251.00
172_E256_H0.5251.00
97_G135_L0.5251.00
102_C105_L0.5241.00
85_E90_V0.5211.00
168_V255_V0.5211.00
36_L40_E0.5191.00
204_N209_E0.5181.00
27_M35_Q0.5181.00
90_V119_H0.5171.00
104_A227_A0.5141.00
242_L247_I0.5131.00
251_M254_H0.5131.00
13_A70_K0.5111.00
133_L152_S0.5101.00
121_T219_I0.5101.00
226_S243_P0.5101.00
163_I243_P0.5101.00
184_V215_L0.5091.00
72_I80_V0.5081.00
109_K112_Q0.5051.00
203_Y206_V0.5031.00
104_A231_S0.5001.00
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  
1ixcA 4 0.9897 100 0.081 Contact Map
1al3A 1 0.6966 100 0.085 Contact Map
2h98A 2 0.6828 100 0.086 Contact Map
4x6gA 4 0.9897 100 0.091 Contact Map
2h9bA 2 0.6828 100 0.092 Contact Map
2esnA 3 0.9828 100 0.093 Contact Map
3fxqA 3 0.9828 100 0.095 Contact Map
1uthA 2 0.7414 100 0.096 Contact Map
3fzvA 4 0.9621 100 0.098 Contact Map
3szpA 3 0.9759 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.

Page generated in 0.0105 seconds.