GREMLIN Database
LYAT - Transcriptional regulator LytR
UniProt: Q02115 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 306 (282)
Sequences: 6250 (4702)
Seq/√Len: 280.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
167_T187_T5.2961.00
175_S180_S3.8781.00
104_I121_I3.5981.00
189_N192_E3.4741.00
167_T185_E3.3921.00
147_Y248_N3.3901.00
88_I101_M3.1161.00
197_T217_V3.0771.00
205_R212_D2.8801.00
68_S91_T2.7501.00
173_A182_G2.7001.00
173_A183_K2.6751.00
169_N185_E2.5991.00
89_Y145_V2.5341.00
72_M133_T2.3721.00
90_M101_M2.3191.00
32_Y36_H2.2991.00
87_L121_I2.2671.00
196_Y213_R2.1791.00
29_G33_Y2.1411.00
187_T224_K2.1021.00
111_K118_M2.0571.00
182_G186_I2.0381.00
72_M87_L2.0101.00
104_I137_V1.9931.00
128_G132_M1.9921.00
89_Y143_V1.9461.00
188_L192_E1.9341.00
119_D123_H1.9311.00
93_N96_T1.9101.00
156_F197_T1.8941.00
157_R191_K1.8751.00
170_S186_I1.8291.00
87_L133_T1.8281.00
108_T288_A1.7951.00
70_L137_V1.7911.00
161_D190_G1.7841.00
289_D292_A1.7571.00
30_Y34_L1.7401.00
156_F194_L1.7261.00
163_L221_I1.6921.00
67_F92_V1.6601.00
66_P94_P1.6271.00
12_L15_T1.6211.00
71_I90_M1.6141.00
138_E144_P1.6111.00
84_A133_T1.6021.00
250_T253_N1.6021.00
162_T240_V1.6001.00
293_L297_T1.5541.00
166_I217_V1.5411.00
112_I124_S1.5311.00
15_T19_I1.5301.00
28_G32_Y1.5241.00
26_G30_Y1.5201.00
173_A180_S1.5051.00
111_K139_N1.4931.00
292_A295_D1.4861.00
134_V248_N1.4791.00
109_Y118_M1.4431.00
121_I137_V1.4381.00
18_T22_L1.4101.00
13_L16_I1.3971.00
119_D127_F1.3731.00
66_P91_T1.3711.00
199_M202_E1.3601.00
134_V138_E1.3551.00
31_A35_W1.3531.00
132_M136_T1.3461.00
33_Y37_K1.3451.00
294_S298_K1.3341.00
124_S133_T1.3211.00
113_I132_M1.3201.00
205_R209_G1.3131.00
171_T216_Q1.3121.00
112_I119_D1.2981.00
168_V188_L1.2931.00
100_D269_K1.2731.00
14_L18_T1.2721.00
170_S182_G1.2711.00
196_Y216_Q1.2601.00
22_L26_G1.2571.00
202_E205_R1.2551.00
208_F286_Y1.2551.00
158_D244_N1.2501.00
11_T14_L1.2421.00
160_V217_V1.2381.00
169_N186_I1.2321.00
101_M270_Q1.2271.00
259_S262_K1.2221.00
181_F195_A1.2181.00
112_I136_T1.2101.00
28_G31_A1.2051.00
158_D243_N1.2011.00
77_R80_D1.1981.00
109_Y285_Y1.1981.00
165_G190_G1.1911.00
170_S181_F1.1881.00
98_T269_K1.1831.00
177_D195_A1.1801.00
10_K14_L1.1791.00
211_Q215_R1.1771.00
17_L21_G1.1751.00
166_I193_A1.1671.00
84_A87_L1.1671.00
11_T15_T1.1621.00
209_G212_D1.1541.00
12_L16_I1.1481.00
282_G285_Y1.1461.00
153_M194_L1.1451.00
174_F181_F1.1391.00
168_V217_V1.1371.00
140_F293_L1.1371.00
72_M130_T1.1301.00
91_T102_V1.1281.00
166_I220_G1.1231.00
66_P93_N1.1191.00
168_V196_Y1.1181.00
83_R123_H1.1161.00
31_A34_L1.1161.00
110_T136_T1.1131.00
290_E294_S1.1121.00
275_G286_Y1.1111.00
109_Y120_K1.1061.00
192_E195_A1.1001.00
124_S128_G1.0961.00
174_F199_M1.0951.00
67_F147_Y1.0891.00
123_H127_F1.0861.00
255_W259_S1.0831.00
157_R194_L1.0821.00
41_T242_E1.0721.00
75_D83_R1.0691.00
163_L225_G1.0681.00
113_I136_T1.0621.00
112_I132_M1.0611.00
69_V92_V1.0531.00
288_A293_L1.0461.00
76_E152_N1.0441.00
130_T148_F1.0351.00
84_A124_S1.0341.00
68_S146_D1.0281.00
235_G239_K1.0261.00
228_I232_T1.0251.00
109_Y283_I1.0191.00
224_K227_N1.0151.00
110_T121_I1.0091.00
83_R127_F1.0081.00
89_Y141_L0.9991.00
217_V221_I0.9981.00
120_K284_Y0.9911.00
114_G132_M0.9911.00
134_V148_F0.9881.00
89_Y104_I0.9841.00
220_G223_N0.9831.00
106_R200_R0.9791.00
107_D120_K0.9791.00
220_G224_K0.9741.00
84_A150_K0.9721.00
170_S188_L0.9711.00
215_R219_Q0.9701.00
25_L28_G0.9671.00
170_S173_A0.9671.00
132_M135_D0.9641.00
215_R270_Q0.9511.00
253_N256_D0.9491.00
123_H126_A0.9411.00
216_Q220_G0.9411.00
227_N230_S0.9381.00
104_I108_T0.9361.00
176_Y199_M0.9331.00
181_F186_I0.9271.00
181_F188_L0.9261.00
35_W38_A0.9241.00
147_Y253_N0.9211.00
211_Q272_E0.9211.00
233_K236_D0.9191.00
120_K283_I0.9141.00
167_T224_K0.9091.00
208_F275_G0.8991.00
125_Y150_K0.8971.00
215_R272_E0.8951.00
65_D95_K0.8901.00
104_I141_L0.8881.00
67_F94_P0.8821.00
69_V90_M0.8821.00
77_R153_M0.8801.00
228_I231_I0.8721.00
120_K285_Y0.8721.00
194_L198_R0.8701.00
279_K284_Y0.8681.00
208_F211_Q0.8671.00
146_D248_N0.8601.00
37_K239_K0.8591.00
27_T31_A0.8521.00
113_I135_D0.8511.00
206_G209_G0.8511.00
191_K195_A0.8451.00
179_Y195_A0.8401.00
278_T287_Q0.8381.00
169_N183_K0.8361.00
277_G284_Y0.8351.00
113_I139_N0.8341.00
112_I115_K0.8261.00
119_D282_G0.8251.00
236_D240_V0.8221.00
21_G24_V0.8200.99
21_G25_L0.8160.99
161_D189_N0.8140.99
168_V220_G0.8120.99
83_R119_D0.8060.99
169_N216_Q0.8040.99
202_E209_G0.8040.99
176_Y202_E0.8040.99
134_V145_V0.8020.99
151_V155_S0.8020.99
160_V189_N0.8000.99
147_Y250_T0.7990.99
74_V77_R0.7990.99
119_D283_I0.7970.99
74_V150_K0.7940.99
69_V147_Y0.7930.99
100_D271_H0.7930.99
72_M84_A0.7910.99
212_D215_R0.7900.99
88_I218_I0.7860.99
230_S233_K0.7850.99
35_W39_A0.7830.99
13_L17_L0.7820.99
249_L253_N0.7810.99
85_D200_R0.7770.99
15_T18_T0.7760.99
69_V249_L0.7760.99
30_Y33_Y0.7740.99
103_S211_Q0.7710.99
76_E150_K0.7670.99
120_K123_H0.7670.99
255_W258_Q0.7630.99
171_T196_Y0.7620.99
136_T140_F0.7600.99
216_Q219_Q0.7590.99
222_I226_A0.7530.99
110_T140_F0.7500.99
179_Y192_E0.7500.99
159_V237_M0.7450.99
176_Y179_Y0.7450.99
172_F183_K0.7360.99
93_N98_T0.7260.99
103_S215_R0.7260.99
70_L87_L0.7240.99
260_D264_A0.7240.99
293_L296_I0.7210.99
109_Y280_I0.7160.99
152_N244_N0.7130.99
19_I23_L0.7120.99
85_D106_R0.7090.99
10_K13_L0.7090.99
112_I127_F0.7080.99
294_S297_T0.7060.98
158_D162_T0.7050.98
212_D216_Q0.7030.98
33_Y36_H0.7020.98
162_T237_M0.7020.98
83_R126_A0.7010.98
99_T264_A0.6970.98
137_V140_F0.6960.98
150_K246_K0.6950.98
65_D94_P0.6950.98
138_E143_V0.6940.98
121_I136_T0.6940.98
119_D124_S0.6890.98
219_Q223_N0.6860.98
239_K242_E0.6850.98
131_Q135_D0.6840.98
193_A217_V0.6840.98
165_G187_T0.6800.98
291_S295_D0.6790.98
140_F288_A0.6750.98
258_Q262_K0.6730.98
25_L29_G0.6720.98
162_T236_D0.6690.98
39_A44_S0.6690.98
44_S47_E0.6680.98
202_E213_R0.6670.98
41_T44_S0.6660.98
34_L38_A0.6660.98
252_D256_D0.6640.98
168_V216_Q0.6620.98
36_H40_S0.6610.98
70_L133_T0.6600.98
213_R216_Q0.6590.98
71_I151_V0.6580.98
280_I285_Y0.6540.98
174_F202_E0.6540.98
181_F192_E0.6540.98
88_I211_Q0.6520.97
238_F242_E0.6510.97
155_S159_V0.6490.97
14_L25_L0.6450.97
170_S216_Q0.6430.97
54_K57_K0.6430.97
249_L254_M0.6420.97
18_T21_G0.6410.97
71_I149_V0.6400.97
125_Y130_T0.6380.97
85_D210_R0.6370.97
276_T289_D0.6350.97
19_I26_G0.6350.97
142_D297_T0.6350.97
287_Q290_E0.6330.97
75_D85_D0.6320.97
208_F272_E0.6260.97
88_I103_S0.6250.97
107_D200_R0.6240.97
274_K292_A0.6240.97
226_A229_S0.6240.97
157_R161_D0.6230.97
115_K132_M0.6210.97
42_V46_H0.6200.97
130_T150_K0.6200.97
160_V163_L0.6180.97
176_Y201_K0.6170.96
148_F248_N0.6160.96
44_S48_S0.6150.96
159_V163_L0.6140.96
34_L37_K0.6100.96
277_G286_Y0.6080.96
207_D211_Q0.6070.96
280_I287_Q0.6070.96
284_Y287_Q0.6060.96
106_R210_R0.6020.96
218_I222_I0.6000.96
20_I24_V0.5990.96
261_Y264_A0.5970.96
72_M148_F0.5970.96
138_E145_V0.5960.96
291_S294_S0.5960.96
154_E158_D0.5950.96
179_Y186_I0.5930.96
133_T140_F0.5910.96
85_D122_N0.5870.95
115_K127_F0.5870.95
155_S244_N0.5870.95
275_G278_T0.5840.95
108_T273_L0.5840.95
158_D161_D0.5830.95
159_V162_T0.5820.95
167_T170_S0.5820.95
139_N142_D0.5800.95
70_L89_Y0.5790.95
105_P272_E0.5790.95
18_T25_L0.5780.95
196_Y217_V0.5770.95
170_S174_F0.5760.95
240_V244_N0.5760.95
98_T267_H0.5740.95
173_A186_I0.5730.95
290_E293_L0.5710.95
295_D298_K0.5710.95
97_N263_G0.5710.95
176_Y181_F0.5690.95
66_P96_T0.5680.94
96_T99_T0.5670.94
137_V141_L0.5670.94
236_D239_K0.5650.94
93_N97_N0.5640.94
209_G213_R0.5610.94
194_L197_T0.5610.94
138_E146_D0.5600.94
252_D255_W0.5590.94
65_D146_D0.5590.94
124_S136_T0.5580.94
110_T113_I0.5550.94
281_N285_Y0.5540.94
92_V99_T0.5540.94
17_L24_V0.5490.93
204_P209_G0.5480.93
16_I19_I0.5470.93
199_M205_R0.5440.93
207_D214_Q0.5440.93
170_S185_E0.5440.93
102_V271_H0.5430.93
105_P211_Q0.5420.93
171_T183_K0.5390.93
83_R122_N0.5390.93
92_V257_I0.5380.93
152_N156_F0.5380.93
171_T212_D0.5370.93
86_T197_T0.5360.93
30_Y38_A0.5350.93
170_S196_Y0.5350.93
211_Q270_Q0.5350.93
108_T140_F0.5330.92
67_F257_I0.5320.92
175_S182_G0.5310.92
91_T94_P0.5240.92
87_L104_I0.5230.92
86_T103_S0.5230.92
158_D240_V0.5230.92
68_S89_Y0.5220.92
109_Y119_D0.5220.92
123_H284_Y0.5210.92
61_I65_D0.5190.91
219_Q270_Q0.5190.91
161_D165_G0.5190.91
172_F204_P0.5190.91
29_G32_Y0.5190.91
277_G280_I0.5180.91
10_K15_T0.5170.91
14_L17_L0.5170.91
23_L26_G0.5160.91
105_P208_F0.5150.91
108_T120_K0.5090.91
170_S183_K0.5090.91
223_N226_A0.5090.91
176_Y195_A0.5080.91
151_V245_V0.5060.90
174_F180_S0.5050.90
260_D263_G0.5030.90
226_A265_R0.5020.90
109_Y278_T0.5020.90
39_A42_V0.5010.90
159_V244_N0.5000.90
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  
3owqA 1 0.7745 100 0.101 Contact Map
3pe5A 1 0.8039 100 0.155 Contact Map
3qfiA 1 0.7745 100 0.176 Contact Map
3nxhA 1 0.6928 100 0.177 Contact Map
4de9A 1 0.7516 100 0.195 Contact Map
3okzA 1 0.8203 100 0.208 Contact Map
2xxpA 1 0.9869 100 0.229 Contact Map
4obmA 1 0.8039 97.8 0.891 Contact Map
1rz2A 1 0.5131 64.6 0.948 Contact Map
2m8rA 1 0.1209 61.7 0.949 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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