GREMLIN Database
PERR - HTH-type transcriptional regulator PerR
UniProt: Q57083 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13340
Length: 297 (276)
Sequences: 79640 (57886)
Seq/√Len: 3484.3

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
76_R80_E3.7131.00
21_T30_E3.4381.00
158_I288_L2.6971.00
73_H87_L2.5501.00
99_H141_F2.5091.00
17_A30_E2.5001.00
173_L186_L2.2831.00
159_P265_G2.2831.00
162_V265_G2.2611.00
159_P162_V2.2341.00
227_A234_V2.2221.00
51_V66_E2.2141.00
95_P126_R2.2141.00
14_A41_A2.1521.00
16_E75_Q2.1201.00
95_P124_D2.0951.00
16_E20_R2.0721.00
164_E238_K2.0651.00
73_H80_E2.0651.00
162_V263_Y2.0561.00
115_K286_W2.0461.00
166_T238_K2.0401.00
179_K182_D2.0151.00
17_A21_T2.0111.00
26_L29_S2.0061.00
224_I244_E1.9571.00
17_A20_R1.9371.00
97_R126_R1.9351.00
16_E71_L1.9131.00
19_G63_L1.9071.00
20_R75_Q1.9011.00
14_A38_I1.8751.00
77_G81_L1.8551.00
71_L75_Q1.8451.00
228_V244_E1.8301.00
189_I232_G1.8161.00
187_T214_G1.7611.00
157_K267_Y1.7481.00
55_Q62_T1.7191.00
19_G71_L1.7101.00
69_I87_L1.7011.00
70_L84_G1.6751.00
228_V249_K1.6671.00
21_T26_L1.6551.00
135_R140_D1.6531.00
24_F42_I1.6141.00
73_H76_R1.5851.00
16_E74_I1.5721.00
156_E272_Q1.5591.00
158_I270_F1.5481.00
11_L41_A1.5371.00
23_A26_L1.5331.00
11_L48_L1.5171.00
20_R30_E1.5161.00
134_A138_Q1.5051.00
116_F283_F1.4911.00
11_L44_K1.4851.00
15_F71_L1.4571.00
34_S37_A1.4521.00
14_A33_L1.4521.00
17_A31_L1.4501.00
73_H83_Q1.4471.00
146_V269_V1.4451.00
284_K288_L1.4411.00
52_R55_Q1.4401.00
270_F284_K1.4291.00
8_P11_L1.4251.00
25_A35_P1.4231.00
156_E270_F1.4231.00
106_H221_F1.4201.00
57_S62_T1.4111.00
116_F123_I1.3971.00
135_R141_F1.3941.00
195_L199_K1.3881.00
80_E83_Q1.3841.00
136_F144_D1.3831.00
148_G267_Y1.3791.00
119_E286_W1.3791.00
282_V285_T1.3731.00
77_G84_G1.3701.00
65_K68_E1.3561.00
276_M280_L1.3531.00
16_E78_F1.3481.00
196_Y200_G1.3391.00
93_S122_S1.3381.00
70_L85_L1.3371.00
268_L284_K1.3271.00
163_E239_L1.3231.00
97_R128_S1.3161.00
72_E76_R1.3091.00
9_L81_L1.3041.00
143_L268_L1.2971.00
73_H84_G1.2911.00
137_E154_P1.2851.00
223_A234_V1.2791.00
225_A228_V1.2751.00
115_K119_E1.2611.00
169_C233_V1.2581.00
186_L233_V1.2511.00
143_L280_L1.2471.00
159_P267_Y1.2431.00
33_L37_A1.2331.00
69_I72_E1.2321.00
117_I214_G1.2211.00
169_C173_L1.2161.00
48_L85_L1.2141.00
15_F54_F1.2071.00
40_H44_K1.2021.00
117_I187_T1.2011.00
114_G118_R1.2011.00
114_G229_D1.1961.00
69_I73_H1.1771.00
15_F19_G1.1671.00
157_K269_V1.1441.00
40_H43_R1.1411.00
238_K242_E1.1361.00
244_E249_K1.1361.00
111_P229_D1.1321.00
120_N282_V1.1201.00
130_S135_R1.1161.00
76_R83_Q1.1121.00
12_L74_I1.1081.00
68_E72_E1.1071.00
126_R216_R1.0971.00
43_R47_N1.0951.00
158_I284_K1.0951.00
178_K182_D1.0911.00
224_I228_V1.0901.00
225_A229_D1.0831.00
285_T288_L1.0781.00
169_C252_C1.0771.00
17_A27_A1.0751.00
105_A129_A1.0631.00
252_C255_V1.0591.00
137_E152_P1.0561.00
77_G80_E1.0551.00
41_A44_K1.0551.00
24_F61_I1.0541.00
242_E246_A1.0531.00
15_F53_L1.0501.00
39_S43_R1.0501.00
166_T252_C1.0481.00
10_N13_R1.0401.00
85_L89_T1.0401.00
170_S230_G1.0341.00
271_P274_Q1.0321.00
112_R287_L1.0291.00
115_K118_R1.0291.00
281_D285_T1.0221.00
217_F223_A1.0091.00
79_N83_Q1.0081.00
202_F207_M1.0071.00
18_A27_A1.0051.00
164_E263_Y1.0051.00
190_Q213_Y1.0031.00
116_F286_W0.9881.00
128_S135_R0.9861.00
196_Y199_K0.9831.00
286_W289_N0.9811.00
96_L283_F0.9801.00
44_K47_N0.9701.00
70_L74_I0.9661.00
63_L67_G0.9651.00
116_F120_N0.9651.00
243_R247_S0.9641.00
168_L241_A0.9641.00
27_A38_I0.9631.00
18_A24_F0.9611.00
33_L38_I0.9611.00
189_I223_A0.9551.00
177_L255_V0.9491.00
180_P257_S0.9491.00
19_G54_F0.9481.00
135_R138_Q0.9461.00
82_Q85_L0.9411.00
198_W202_F0.9391.00
167_P233_V0.9351.00
26_L30_E0.9341.00
13_R82_Q0.9341.00
14_A31_L0.9311.00
15_F63_L0.9261.00
76_R79_N0.9181.00
112_R286_W0.9101.00
15_F45_L0.9051.00
200_G204_A0.9041.00
277_H280_L0.9031.00
82_Q86_A0.9031.00
10_N41_A0.9001.00
94_R279_A0.8991.00
217_F226_A0.8991.00
102_P219_R0.8951.00
51_V88_V0.8901.00
81_L85_L0.8841.00
210_P213_Y0.8801.00
22_G62_T0.8781.00
148_G265_G0.8771.00
99_H144_D0.8741.00
119_E289_N0.8741.00
114_G231_L0.8621.00
91_D122_S0.8611.00
72_E75_Q0.8601.00
54_F61_I0.8591.00
92_E122_S0.8591.00
66_E88_V0.8551.00
187_T213_Y0.8531.00
169_C174_A0.8511.00
156_E159_P0.8501.00
141_F144_D0.8461.00
25_A29_S0.8441.00
57_S60_E0.8391.00
99_H146_V0.8381.00
83_Q87_L0.8351.00
31_L38_I0.8301.00
200_G203_E0.8281.00
170_S173_L0.8261.00
9_L78_F0.8241.00
187_T210_P0.8221.00
81_L84_G0.8221.00
117_I231_L0.8211.00
66_E69_I0.8131.00
123_I279_A0.8111.00
35_P39_S0.8091.00
197_Q201_W0.8061.00
98_L143_L0.8051.00
80_E84_G0.8041.00
278_S282_V0.8041.00
19_G22_G0.8041.00
15_F70_L0.7961.00
21_T27_A0.7961.00
20_R71_L0.7951.00
22_G60_E0.7941.00
19_G67_G0.7931.00
13_R17_A0.7921.00
199_K203_E0.7891.00
173_L187_T0.7891.00
170_S231_L0.7881.00
155_Y269_V0.7881.00
22_G68_E0.7861.00
171_P249_K0.7831.00
276_M281_D0.7811.00
168_L234_V0.7811.00
285_T289_N0.7791.00
181_E184_Y0.7781.00
249_K253_P0.7781.00
43_R52_R0.7711.00
100_T105_A0.7681.00
171_P248_G0.7671.00
128_S141_F0.7661.00
11_L14_A0.7601.00
68_E71_L0.7601.00
18_A54_F0.7561.00
75_Q79_N0.7551.00
94_R123_I0.7541.00
226_A231_L0.7521.00
245_I248_G0.7511.00
197_Q200_G0.7501.00
84_G88_V0.7461.00
244_E247_S0.7441.00
198_W201_W0.7411.00
119_E282_V0.7391.00
55_Q64_T0.7381.00
74_I77_G0.7381.00
24_F38_I0.7361.00
18_A38_I0.7321.00
195_L201_W0.7291.00
116_F282_V0.7241.00
282_V286_W0.7241.00
13_R16_E0.7231.00
274_Q277_H0.7231.00
201_W205_N0.7211.00
209_P213_Y0.7171.00
139_D271_P0.7161.00
168_L236_E0.7161.00
143_L283_F0.7151.00
238_K252_C0.7141.00
18_A42_I0.7131.00
192_D216_R0.7111.00
182_D185_A0.7091.00
137_E155_Y0.7091.00
66_E70_L0.7071.00
237_S240_L0.7071.00
154_P272_Q0.7061.00
168_L245_I0.7021.00
172_Q230_G0.7021.00
219_R222_M0.7011.00
252_C256_N0.7011.00
142_D280_L0.6931.00
65_K69_I0.6921.00
241_A244_E0.6891.00
172_Q175_E0.6861.00
70_L88_V0.6841.00
241_A245_I0.6781.00
201_W204_A0.6741.00
106_H225_A0.6741.00
10_N44_K0.6631.00
171_P250_L0.6621.00
62_T68_E0.6621.00
73_H77_G0.6611.00
97_R142_D0.6611.00
188_L233_V0.6611.00
191_C223_A0.6611.00
63_L68_E0.6601.00
147_Y264_I0.6551.00
37_A41_A0.6521.00
97_R141_F0.6481.00
46_E51_V0.6471.00
55_Q60_E0.6461.00
29_S32_E0.6441.00
195_L216_R0.6431.00
228_V248_G0.6401.00
167_P235_L0.6391.00
111_P114_G0.6361.00
13_R78_F0.6341.00
83_Q86_A0.6331.00
46_E56_R0.6321.00
8_P48_L0.6281.00
42_I46_E0.6281.00
254_L257_S0.6271.00
124_D216_R0.6231.00
192_D218_D0.6211.00
115_K289_N0.6201.00
79_N82_Q0.6131.00
15_F67_G0.6111.00
109_L112_R0.6101.00
179_K255_V0.6081.00
278_S281_D0.6071.00
171_P251_V0.6061.00
18_A23_A0.6061.00
196_Y201_W0.6041.00
163_E264_I0.5991.00
102_P131_T0.5991.00
270_F281_D0.5991.00
215_L226_A0.5961.00
10_N14_A0.5961.00
199_K202_F0.5941.00
243_R246_A0.5931.00
86_A90_A0.5931.00
100_T109_L0.5891.00
51_V55_Q0.5881.00
167_P183_L0.5881.00
202_F209_P0.5861.00
27_A31_L0.5851.00
143_L284_K0.5851.00
164_E253_P0.5841.00
74_I78_F0.5831.00
196_Y202_F0.5821.00
69_I88_V0.5791.00
78_F82_Q0.5781.00
184_Y207_M0.5771.00
49_L88_V0.5761.00
96_L143_L0.5761.00
217_F222_M0.5731.00
205_N209_P0.5721.00
210_P214_G0.5711.00
49_L70_L0.5701.00
96_L279_A0.5691.00
173_L233_V0.5681.00
111_P115_K0.5651.00
54_F63_L0.5631.00
19_G68_E0.5591.00
129_A218_D0.5581.00
120_N123_I0.5571.00
283_F287_L0.5561.00
195_L202_F0.5561.00
136_F155_Y0.5501.00
165_L235_L0.5491.00
37_A40_H0.5491.00
169_C175_E0.5481.00
24_F35_P0.5461.00
167_P188_L0.5431.00
195_L200_G0.5431.00
160_L268_L0.5411.00
193_V216_R0.5401.00
202_F205_N0.5391.00
236_E241_A0.5351.00
49_L52_R0.5341.00
108_W112_R0.5331.00
148_G157_K0.5311.00
223_A227_A0.5311.00
34_S40_H0.5301.00
93_S124_D0.5291.00
129_A219_R0.5281.00
36_S40_H0.5281.00
174_A186_L0.5261.00
169_C253_P0.5251.00
63_L71_L0.5241.00
161_A266_H0.5231.00
87_L90_A0.5221.00
33_L41_A0.5221.00
177_L182_D0.5201.00
134_A140_D0.5191.00
199_K209_P0.5191.00
52_R66_E0.5191.00
104_F108_W0.5161.00
110_L114_G0.5151.00
111_P225_A0.5151.00
136_F269_V0.5131.00
14_A42_I0.5121.00
24_F60_E0.5111.00
106_H219_R0.5101.00
22_G61_I0.5101.00
99_H130_S0.5091.00
99_H128_S0.5091.00
84_G87_L0.5061.00
94_R122_S0.5061.00
156_E273_H0.5061.00
137_E140_D0.5061.00
226_A232_G0.5051.00
101_A104_F0.5051.00
181_E207_M0.5041.00
248_G252_C0.5041.00
114_G117_I0.5011.00
250_L253_P0.5011.00
72_E87_L0.5001.00
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  
3szpA 3 0.9461 100 0.141 Contact Map
1uthA 2 0.7239 100 0.146 Contact Map
2esnA 3 0.963 100 0.146 Contact Map
3hhgA 3 0.963 100 0.153 Contact Map
1ixcA 4 0.9428 100 0.156 Contact Map
3fzvA 4 0.9394 100 0.157 Contact Map
3fxqA 3 0.9495 100 0.16 Contact Map
2h98A 2 0.6667 100 0.161 Contact Map
2h9bA 2 0.6667 100 0.164 Contact Map
1al3A 1 0.6768 100 0.164 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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