GREMLIN Database
ALSR - HTH-type transcriptional regulator AlsR
UniProt: Q04778 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 302 (284)
Sequences: 79751 (58409)
Seq/√Len: 3465.9

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_M74_Q3.6351.00
15_E24_R3.4071.00
158_E289_N2.7231.00
96_G141_I2.5161.00
67_H81_L2.4551.00
11_A24_R2.3301.00
233_V240_T2.2951.00
112_E291_Q2.2421.00
164_P244_S2.2281.00
173_H189_E2.2191.00
159_T162_S2.2061.00
162_S267_E2.2051.00
92_L123_E2.2041.00
159_T267_E2.1441.00
251_N254_V2.1171.00
92_L121_K2.1051.00
20_K23_R2.0971.00
45_V60_A2.0921.00
8_Y35_Q2.0661.00
182_T185_D2.0441.00
14_E69_R2.0211.00
162_S265_N2.0091.00
10_I69_R1.9951.00
67_H74_Q1.9891.00
112_E287_I1.9831.00
94_V123_E1.9811.00
10_I65_L1.9711.00
10_I14_E1.9521.00
230_I250_F1.9361.00
11_A14_E1.9351.00
166_V244_S1.9141.00
192_I238_G1.9121.00
11_A15_E1.9081.00
8_Y32_L1.8881.00
13_A57_L1.8871.00
71_A75_I1.8711.00
65_L69_R1.8241.00
18_F36_I1.7701.00
190_P220_V1.7431.00
49_K56_E1.7311.00
132_Q144_G1.7251.00
64_F78_G1.7211.00
157_I269_V1.6901.00
63_I81_L1.6851.00
234_S250_F1.6521.00
135_E140_N1.6491.00
13_A65_L1.6371.00
113_Y284_F1.6121.00
15_E20_K1.5831.00
156_H274_K1.5771.00
14_E24_R1.5701.00
10_I68_C1.5671.00
9_F65_L1.5401.00
134_E138_K1.5371.00
178_K185_D1.5361.00
8_Y27_M1.5251.00
5_H35_Q1.5091.00
203_Y207_I1.5001.00
88_G119_S1.4941.00
158_E272_Y1.4891.00
67_H70_M1.4861.00
5_H42_E1.4821.00
113_Y120_V1.4811.00
17_H20_K1.4791.00
19_G29_Q1.4731.00
5_H38_Q1.4611.00
28_T31_P1.4551.00
46_T49_K1.4521.00
285_I289_N1.4331.00
146_L271_A1.4321.00
11_A25_L1.4271.00
59_A62_E1.4231.00
10_I72_L1.3981.00
67_H77_Q1.3951.00
156_H272_Y1.3931.00
103_Y227_Q1.3721.00
272_Y285_I1.3701.00
143_I281_I1.3681.00
71_A78_G1.3601.00
169_L257_R1.3591.00
90_Q119_S1.3411.00
51_T56_E1.3351.00
135_E141_I1.3351.00
112_E116_K1.3311.00
94_V125_R1.3281.00
283_H286_H1.3231.00
137_L154_A1.3181.00
136_L144_G1.3121.00
163_S245_S1.3071.00
64_F79_I1.3051.00
74_Q77_Q1.3051.00
270_I285_I1.3001.00
169_L239_M1.2841.00
116_K287_I1.2791.00
148_P269_V1.2781.00
42_E79_I1.2751.00
3_L75_I1.2721.00
229_V240_T1.2681.00
143_I270_I1.2681.00
189_E239_M1.2651.00
114_R220_V1.2601.00
66_N70_M1.2531.00
114_R190_P1.2211.00
67_H78_G1.2211.00
231_G234_S1.2131.00
171_K253_D1.2081.00
63_I66_N1.1991.00
111_R115_K1.1891.00
9_F48_L1.1881.00
159_T269_V1.1851.00
27_M31_P1.1821.00
62_E66_N1.1761.00
166_V258_K1.1721.00
171_K255_T1.1671.00
37_K41_E1.1671.00
244_S248_K1.1591.00
157_I271_A1.1431.00
9_F13_A1.1421.00
34_Q38_Q1.1411.00
111_R235_A1.1321.00
174_P189_E1.1301.00
112_E115_K1.1281.00
210_C215_F1.1261.00
34_Q37_K1.1161.00
123_E222_E1.1041.00
190_P218_N1.0981.00
9_F47_L1.0971.00
192_I229_V1.0901.00
6_L68_C1.0881.00
286_H289_N1.0841.00
117_F283_H1.0841.00
70_M77_Q1.0831.00
33_S37_K1.0801.00
18_F55_V1.0791.00
63_I67_H1.0781.00
287_I291_Q1.0761.00
273_R276_N1.0691.00
244_S258_K1.0691.00
102_T126_E1.0681.00
230_I234_S1.0641.00
11_A21_A1.0621.00
223_A229_V1.0581.00
12_V21_A1.0551.00
113_Y287_I1.0511.00
158_E285_I1.0501.00
108_P235_A1.0481.00
93_L284_F1.0471.00
71_A74_Q1.0451.00
282_K286_H1.0441.00
109_I288_S1.0421.00
181_I185_D1.0351.00
35_Q38_Q1.0341.00
7_Q76_G1.0321.00
180_S260_D1.0291.00
234_S253_D1.0251.00
170_P236_G1.0241.00
137_L152_H1.0241.00
231_G235_A1.0171.00
4_R7_Q1.0141.00
79_I83_Q1.0061.00
179_E257_R1.0041.00
234_S255_T1.0021.00
57_L61_G0.9991.00
167_L239_M0.9891.00
164_P265_N0.9881.00
168_A247_K0.9861.00
73_M77_Q0.9731.00
8_Y25_L0.9711.00
278_N281_I0.9681.00
193_T219_I0.9671.00
27_M32_L0.9651.00
76_G79_I0.9651.00
64_F68_C0.9641.00
13_A48_L0.9601.00
287_I290_C0.9551.00
113_Y117_F0.9541.00
76_G80_E0.9511.00
169_L173_H0.9501.00
204_M207_I0.9481.00
96_G132_Q0.9471.00
12_V18_F0.9461.00
223_A232_L0.9451.00
9_F57_L0.9441.00
125_R135_E0.9431.00
173_H176_T0.9361.00
164_P258_K0.9311.00
248_K252_L0.9311.00
116_K290_C0.9291.00
135_E138_K0.9281.00
38_Q41_E0.9231.00
21_A32_L0.9181.00
9_F39_L0.9161.00
109_I287_I0.9081.00
254_V258_K0.9071.00
204_M208_Q0.8941.00
20_K24_R0.8871.00
48_L55_V0.8841.00
45_V82_A0.8811.00
121_K218_N0.8771.00
13_A61_G0.8741.00
120_V280_L0.8681.00
141_I144_G0.8671.00
66_N69_R0.8671.00
177_S190_P0.8651.00
96_G146_L0.8651.00
99_G225_E0.8631.00
169_L174_P0.8571.00
249_L253_D0.8561.00
70_M73_M0.8561.00
16_L56_E0.8521.00
191_I217_P0.8481.00
174_P179_E0.8461.00
19_G23_R0.8451.00
173_H190_P0.8451.00
190_P219_I0.8411.00
51_T54_F0.8371.00
156_H159_T0.8361.00
95_I143_I0.8351.00
185_D188_D0.8271.00
168_A256_Y0.8251.00
286_H290_C0.8241.00
155_L271_A0.8241.00
133_Q137_L0.8231.00
25_L32_L0.8221.00
154_A274_K0.8201.00
175_L189_E0.8181.00
247_K250_F0.8131.00
125_R141_I0.8081.00
168_A240_T0.8081.00
148_P267_E0.8071.00
111_R237_I0.8031.00
96_G144_G0.8001.00
250_F255_T0.8001.00
60_A82_A0.7981.00
91_G280_L0.7971.00
75_I79_I0.7941.00
184_E187_R0.7921.00
209_F213_A0.7921.00
37_K46_T0.7921.00
13_A16_L0.7841.00
16_L62_E0.7831.00
4_R35_Q0.7811.00
170_P237_I0.7811.00
29_Q33_S0.7801.00
63_I85_T0.7791.00
9_F64_F0.7781.00
75_I78_G0.7751.00
3_L72_L0.7741.00
206_F210_C0.7731.00
74_Q78_G0.7711.00
14_E65_L0.7691.00
15_E21_A0.7681.00
60_A63_I0.7671.00
250_F253_D0.7661.00
131_R134_E0.7651.00
77_Q81_L0.7621.00
166_V256_Y0.7621.00
109_I291_Q0.7611.00
83_Q86_A0.7611.00
12_V36_I0.7611.00
114_R237_I0.7601.00
279_P283_H0.7581.00
182_T260_D0.7561.00
16_L54_F0.7561.00
12_V48_L0.7541.00
172_Q176_T0.7541.00
91_G120_V0.7521.00
232_L237_I0.7421.00
143_I284_F0.7421.00
5_H8_Y0.7411.00
142_D281_I0.7361.00
168_A242_V0.7321.00
112_E290_C0.7321.00
7_Q11_A0.7301.00
18_F32_L0.7251.00
113_Y283_H0.7241.00
68_C71_A0.7201.00
60_A85_T0.7191.00
89_E117_F0.7181.00
78_G82_A0.7171.00
97_F102_T0.7161.00
116_K283_H0.7151.00
137_L155_L0.7131.00
170_P173_H0.7101.00
49_K58_T0.7081.00
173_H177_S0.7061.00
254_V257_R0.7041.00
69_R73_M0.7041.00
49_K54_F0.7011.00
56_E62_E0.7001.00
209_F212_Q0.6981.00
31_P35_Q0.6961.00
12_V32_L0.6961.00
60_A64_F0.6961.00
94_V141_I0.6921.00
243_P246_A0.6851.00
57_L62_E0.6841.00
255_T258_K0.6801.00
62_E65_L0.6801.00
169_L175_L0.6791.00
225_E228_M0.6791.00
203_Y222_E0.6761.00
94_V142_D0.6741.00
195_A222_E0.6731.00
208_Q211_E0.6711.00
184_E213_A0.6681.00
59_A63_I0.6671.00
194_V229_V0.6631.00
283_H287_I0.6611.00
40_E45_V0.6611.00
172_Q175_L0.6581.00
208_Q212_Q0.6581.00
187_R215_F0.6571.00
139_G273_R0.6551.00
7_Q10_I0.6511.00
103_Y231_G0.6491.00
221_Q232_L0.6481.00
172_Q236_G0.6471.00
205_D209_F0.6471.00
77_Q80_E0.6421.00
93_L280_L0.6401.00
36_I40_E0.6401.00
64_F82_A0.6361.00
251_N256_Y0.6361.00
207_I211_E0.6361.00
73_M76_G0.6361.00
191_I239_M0.6351.00
40_E50_R0.6341.00
188_D218_N0.6341.00
126_E224_T0.6311.00
121_K222_E0.6281.00
23_R26_N0.6261.00
145_I288_S0.6201.00
67_H71_A0.6201.00
279_P282_K0.6191.00
97_F106_L0.6141.00
68_C72_L0.6101.00
164_P263_Q0.6041.00
167_L186_L0.6041.00
167_L241_F0.6031.00
21_A25_L0.6031.00
12_V17_H0.6021.00
90_Q121_K0.6001.00
195_A224_T0.5951.00
18_F54_F0.5941.00
206_F209_F0.5911.00
143_I285_I0.5891.00
108_P111_R0.5891.00
63_I82_A0.5891.00
4_R38_Q0.5881.00
131_R135_E0.5881.00
272_Y282_K0.5841.00
210_C217_P0.5791.00
108_P112_E0.5781.00
106_L109_I0.5781.00
126_E225_E0.5781.00
93_L143_I0.5771.00
163_S266_A0.5771.00
80_E84_R0.5761.00
30_P34_Q0.5741.00
147_H266_A0.5741.00
167_L191_I0.5731.00
4_R8_Y0.5731.00
136_L271_A0.5721.00
229_V233_V0.5711.00
161_Q268_W0.5701.00
205_D208_Q0.5681.00
7_Q72_L0.5671.00
284_F288_S0.5671.00
43_V64_F0.5631.00
203_Y209_F0.5631.00
57_L65_L0.5601.00
204_M209_F0.5591.00
249_L252_L0.5591.00
31_P34_Q0.5591.00
43_V82_A0.5581.00
48_L57_L0.5571.00
165_C241_F0.5561.00
156_H275_D0.5551.00
28_T34_Q0.5551.00
223_A228_M0.5531.00
175_L181_I0.5531.00
45_V49_K0.5531.00
168_A251_N0.5531.00
136_L155_L0.5521.00
9_F61_G0.5481.00
72_L76_G0.5471.00
207_I210_C0.5461.00
232_L238_G0.5461.00
132_Q139_G0.5451.00
203_Y206_F0.5411.00
101_A105_F0.5351.00
110_V122_I0.5341.00
91_G119_S0.5321.00
72_L75_I0.5321.00
117_F120_V0.5321.00
234_S251_N0.5321.00
173_H239_M0.5311.00
242_V247_K0.5311.00
175_L178_K0.5311.00
196_K222_E0.5251.00
66_N81_L0.5241.00
8_Y36_I0.5241.00
18_F29_Q0.5241.00
103_Y225_E0.5221.00
43_V46_T0.5211.00
202_L205_D0.5181.00
169_L176_T0.5181.00
134_E140_N0.5171.00
258_K261_Q0.5151.00
226_Y243_P0.5151.00
180_S185_D0.5131.00
96_G125_R0.5111.00
174_P178_K0.5111.00
187_R216_R0.5111.00
202_L206_F0.5101.00
84_R89_E0.5101.00
67_H82_A0.5091.00
160_A270_I0.5091.00
8_Y21_A0.5061.00
13_A62_E0.5061.00
46_T60_A0.5051.00
27_M35_Q0.5031.00
182_T261_Q0.5031.00
16_L55_V0.5021.00
178_K181_I0.5001.00
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  
2h9bA 2 0.7053 100 0.075 Contact Map
1ixcA 4 0.9735 100 0.075 Contact Map
2h98A 2 0.7053 100 0.078 Contact Map
2esnA 3 0.9636 100 0.099 Contact Map
4x6gA 4 0.9934 100 0.101 Contact Map
1al3A 1 0.7119 100 0.102 Contact Map
1uthA 2 0.7417 100 0.103 Contact Map
3fzvA 4 0.9404 100 0.107 Contact Map
3fxqA 3 0.957 100 0.111 Contact Map
3szpA 3 0.9503 100 0.126 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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