GREMLIN Database
RE_HpaII - HpaII restriction endonuclease
PFAM: PF09561 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 356 (355)
Sequences: 951 (760)
Seq/√Len: 40.3
META: 0.876

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
164_K345_E7.6681.00
24_D28_N4.0941.00
165_I339_I3.7141.00
145_Q150_S3.5531.00
194_I199_G3.5331.00
229_M326_L3.4961.00
162_I207_E3.4431.00
328_T336_F3.3281.00
157_K335_K3.3091.00
207_E349_K3.1801.00
172_D341_K3.0551.00
164_K202_E3.0471.00
193_A196_E2.9441.00
104_F108_I2.9261.00
205_K212_E2.8821.00
271_R317_E2.6751.00
155_A334_H2.6311.00
183_T189_D2.5761.00
339_I346_Y2.5481.00
245_V321_F2.5341.00
244_L326_L2.5301.00
153_L276_V2.5251.00
221_L224_E2.4811.00
186_K189_D2.4701.00
187_I331_T2.3591.00
162_I349_K2.3561.00
77_F104_F2.3531.00
181_I186_K2.3211.00
187_I190_R2.3041.00
21_Y29_K2.2961.00
233_F328_T2.2831.00
193_A197_L2.1930.99
161_F230_L2.1760.99
166_T202_E2.1590.99
330_S333_R2.1510.99
158_T283_S2.1480.99
229_M244_L2.0870.99
160_N349_K2.0380.99
23_A308_Y2.0120.99
162_I340_Y1.9800.99
39_K50_E1.9630.99
341_K344_G1.9380.99
240_K243_D1.9110.99
175_I346_Y1.9110.99
156_S329_P1.8840.98
13_K17_D1.8780.98
171_S174_E1.8570.98
77_F108_I1.8180.98
253_P265_Y1.8040.98
87_K100_E1.7840.98
327_E352_L1.7730.98
341_K346_Y1.7610.97
229_M269_I1.7510.97
1_N4_E1.7480.97
252_N265_Y1.7430.97
188_K328_T1.7330.97
300_K304_E1.7140.97
165_I199_G1.7120.97
14_L40_I1.6960.97
242_K322_N1.6770.97
153_L282_P1.6650.96
105_L110_C1.6610.96
178_I190_R1.6590.96
267_Y271_R1.6580.96
29_K304_E1.6550.96
203_F212_E1.6530.96
326_L352_L1.6230.96
269_I326_L1.6230.96
168_L199_G1.6130.96
160_N351_N1.5990.95
224_E228_E1.5610.95
158_T208_N1.5600.95
14_L37_I1.5580.95
232_L247_K1.5410.94
241_I321_F1.5400.94
3_G7_E1.5270.94
20_L297_I1.5230.94
19_K34_F1.5160.94
4_E7_E1.5130.94
164_K204_V1.4850.93
23_A297_I1.4560.93
153_L211_F1.4560.93
278_L292_A1.4430.92
158_T329_P1.4280.92
183_T186_K1.4190.92
170_L179_N1.4160.92
174_E197_L1.4070.91
222_L272_F1.4010.91
80_K101_I1.3950.91
271_R275_A1.3930.91
161_F352_L1.3890.91
155_A327_E1.3860.91
83_K100_E1.3810.90
124_T137_E1.3780.90
6_S144_S1.3700.90
248_L265_Y1.3680.90
85_L146_L1.3610.90
76_E107_S1.3480.89
1_N7_E1.3330.89
274_T316_F1.3120.88
1_N5_W1.3010.88
241_I269_I1.2820.87
335_K338_K1.2750.87
252_N257_D1.2660.86
209_E257_D1.2500.85
313_R317_E1.2310.85
10_A299_V1.2190.84
164_K347_Y1.2170.84
175_I339_I1.2160.84
343_N347_Y1.2100.84
342_E349_K1.2080.83
187_I191_I1.2070.83
219_D268_K1.2060.83
149_P325_K1.2020.83
178_I193_A1.2010.83
121_S139_G1.1940.83
178_I194_I1.1920.83
3_G6_S1.1920.83
233_F236_S1.1740.82
92_S304_E1.1700.81
56_D71_R1.1670.81
133_G136_P1.1650.81
36_P128_H1.1600.81
155_A159_T1.1540.80
162_I205_K1.1530.80
102_E106_N1.1520.80
25_E318_D1.1510.80
153_L354_I1.1510.80
220_S264_F1.1490.80
201_L348_F1.1360.79
170_L174_E1.1340.79
114_K120_K1.1320.79
59_I63_N1.1320.79
172_D179_N1.1260.79
280_M307_C1.1240.79
153_L159_T1.1240.79
179_N183_T1.1220.79
336_F351_N1.1190.78
12_L108_I1.1120.78
234_Y328_T1.1110.78
195_K235_S1.0920.77
141_S294_G1.0860.76
242_K246_E1.0850.76
182_D186_K1.0850.76
60_I63_N1.0820.76
228_E251_E1.0710.75
342_E347_Y1.0600.74
77_F81_A1.0490.74
6_S147_G1.0480.74
13_K82_E1.0420.73
181_I189_D1.0390.73
159_T282_P1.0390.73
230_L352_L1.0380.73
340_Y349_K1.0370.73
161_F206_V1.0340.73
29_K306_L1.0320.72
25_E315_E1.0320.72
15_L53_I1.0310.72
165_I305_V1.0300.72
247_K250_E1.0290.72
11_F117_S1.0240.72
132_T136_P1.0230.72
88_I91_S1.0150.71
1_N6_S1.0130.71
183_T194_I1.0120.71
217_L267_Y1.0100.71
11_F297_I1.0030.70
165_I240_K0.9980.70
277_A292_A0.9970.70
53_I59_I0.9930.69
209_E339_I0.9900.69
201_L231_L0.9900.69
44_E115_A0.9870.69
312_N315_E0.9860.69
195_K201_L0.9830.69
228_E231_L0.9830.69
184_R189_D0.9810.69
61_I68_E0.9800.68
328_T334_H0.9730.68
121_S124_T0.9710.68
101_I105_L0.9680.67
308_Y316_F0.9650.67
226_L230_L0.9600.67
16_A81_A0.9570.67
23_A312_N0.9520.66
22_A312_N0.9510.66
289_K314_N0.9500.66
238_I243_D0.9460.66
298_V321_F0.9410.65
188_K233_F0.9380.65
115_A305_V0.9360.65
186_K331_T0.9330.65
324_T356_F0.9310.64
232_L251_E0.9300.64
321_F326_L0.9290.64
206_V212_E0.9170.63
290_Y313_R0.9150.63
213_N264_F0.9140.63
233_F334_H0.9100.63
15_L18_G0.9090.63
241_I246_E0.9030.62
245_V269_I0.9010.62
2_K88_I0.8960.61
23_A34_F0.8940.61
81_A104_F0.8930.61
139_G270_K0.8850.60
267_Y314_N0.8790.60
208_N283_S0.8780.60
179_N186_K0.8750.60
12_L101_I0.8740.59
287_D291_D0.8700.59
202_E345_E0.8680.59
228_E232_L0.8670.59
237_G354_I0.8670.59
212_E216_I0.8660.59
215_L226_L0.8600.58
332_S335_K0.8570.58
21_Y34_F0.8570.58
203_F206_V0.8540.58
298_V310_I0.8520.58
232_L248_L0.8510.57
352_L355_R0.8480.57
160_N207_E0.8480.57
185_S189_D0.8440.57
8_L113_L0.8440.57
201_L339_I0.8390.56
171_S179_N0.8390.56
8_L12_L0.8380.56
153_L199_G0.8380.56
353_Q356_F0.8360.56
256_Y271_R0.8360.56
101_I104_F0.8350.56
11_F23_A0.8340.56
145_Q149_P0.8300.56
166_T200_K0.8300.56
177_E193_A0.8290.55
205_K342_E0.8230.55
11_F145_Q0.8230.55
22_A327_E0.8220.55
328_T337_G0.8210.55
23_A138_L0.8180.54
15_L51_Y0.8170.54
22_A34_F0.8160.54
178_I181_I0.8150.54
51_Y54_D0.8140.54
277_A307_C0.8030.53
167_G199_G0.8020.53
233_F238_I0.7990.53
114_K150_S0.7980.53
78_K82_E0.7960.52
281_T284_K0.7960.52
179_N189_D0.7930.52
190_R194_I0.7910.52
183_T190_R0.7890.52
233_F239_S0.7860.52
217_L264_F0.7840.51
174_E177_E0.7840.51
40_I125_I0.7830.51
86_E90_S0.7820.51
85_L89_K0.7820.51
290_Y310_I0.7800.51
177_E181_I0.7790.51
234_Y336_F0.7780.51
290_Y312_N0.7760.51
82_E86_E0.7750.50
165_I192_K0.7740.50
252_N264_F0.7710.50
206_V226_L0.7700.50
37_I125_I0.7690.50
252_N256_Y0.7650.50
152_L278_L0.7650.50
204_V347_Y0.7640.49
274_T290_Y0.7620.49
42_R115_A0.7560.49
12_L30_I0.7560.49
156_S334_H0.7550.49
176_N180_S0.7550.49
181_I190_R0.7530.48
37_I104_F0.7520.48
140_F307_C0.7510.48
152_L356_F0.7500.48
314_N318_D0.7480.48
145_Q316_F0.7470.48
23_A306_L0.7450.48
129_D311_Y0.7450.48
225_I269_I0.7420.47
270_K321_F0.7410.47
12_L105_L0.7410.47
143_K154_N0.7390.47
218_I272_F0.7380.47
277_A280_M0.7380.47
329_P353_Q0.7370.47
103_E163_Y0.7350.47
190_R331_T0.7330.47
120_K281_T0.7310.46
152_L296_Y0.7290.46
179_N190_R0.7290.46
160_N336_F0.7280.46
267_Y317_E0.7260.46
32_D88_I0.7240.46
92_S106_N0.7230.46
324_T354_I0.7200.45
107_S246_E0.7200.45
147_G150_S0.7180.45
14_L18_G0.7180.45
340_Y347_Y0.7170.45
128_H132_T0.7140.45
198_G201_L0.7110.45
267_Y288_G0.7090.44
222_L268_K0.7080.44
206_V230_L0.7050.44
28_N250_E0.7050.44
268_K282_P0.7030.44
62_I65_N0.7030.44
173_E176_N0.7020.44
217_L253_P0.7010.44
155_A329_P0.7000.44
146_L199_G0.7000.44
266_E321_F0.6960.43
163_Y227_A0.6900.43
60_I66_G0.6900.43
87_K90_S0.6890.43
108_I113_L0.6850.42
300_K309_H0.6850.42
152_L277_A0.6840.42
65_N69_E0.6830.42
140_F295_G0.6820.42
270_K318_D0.6800.42
3_G154_N0.6790.42
232_L244_L0.6780.42
267_Y277_A0.6760.41
140_F309_H0.6750.41
35_Y311_Y0.6740.41
191_I194_I0.6720.41
192_K196_E0.6700.41
81_A301_E0.6650.40
84_L293_T0.6640.40
10_A248_L0.6630.40
335_K349_K0.6580.40
126_V137_E0.6560.40
223_P269_I0.6520.39
162_I204_V0.6510.39
141_S277_A0.6510.39
333_R355_R0.6500.39
72_I165_I0.6500.39
22_A308_Y0.6490.39
59_I62_I0.6490.39
24_D203_F0.6460.39
35_Y108_I0.6460.39
66_G69_E0.6460.39
297_I356_F0.6440.39
292_A296_Y0.6430.39
11_F282_P0.6430.39
56_D163_Y0.6430.39
277_A296_Y0.6420.38
84_L217_L0.6420.38
81_A254_L0.6370.38
107_S205_K0.6370.38
112_K318_D0.6360.38
19_K23_A0.6350.38
253_P256_Y0.6340.38
51_Y227_A0.6320.38
212_E257_D0.6320.38
217_L317_E0.6290.37
296_Y356_F0.6280.37
240_K339_I0.6260.37
114_K117_S0.6260.37
10_A14_L0.6230.37
99_P272_F0.6220.37
282_P313_R0.6210.37
211_F215_L0.6200.37
213_N261_N0.6190.36
175_I179_N0.6180.36
243_D348_F0.6180.36
190_R347_Y0.6170.36
156_S281_T0.6170.36
213_N216_I0.6170.36
110_C194_I0.6170.36
86_E111_T0.6150.36
218_I325_K0.6150.36
225_I296_Y0.6140.36
37_I77_F0.6140.36
278_L307_C0.6140.36
28_N300_K0.6130.36
318_D322_N0.6130.36
185_S190_R0.6130.36
76_E235_S0.6120.36
342_E345_E0.6120.36
139_G152_L0.6120.36
165_I225_I0.6110.36
5_W9_Y0.6110.36
84_L101_I0.6040.35
300_K306_L0.6020.35
113_L127_I0.6010.35
188_K236_S0.6000.35
322_N338_K0.5990.35
314_N317_E0.5970.35
23_A140_F0.5960.35
125_I158_T0.5950.34
167_G179_N0.5920.34
272_F354_I0.5920.34
120_K319_Y0.5920.34
22_A30_I0.5910.34
98_I211_F0.5870.34
298_V309_H0.5870.34
249_E266_E0.5860.34
76_E79_E0.5860.34
39_K126_V0.5840.34
41_I48_T0.5840.34
41_I137_E0.5840.34
279_G286_W0.5830.33
275_A290_Y0.5830.33
73_P125_I0.5830.33
1_N9_Y0.5810.33
98_I192_K0.5800.33
85_L145_Q0.5790.33
83_K87_K0.5790.33
35_Y127_I0.5770.33
59_I64_G0.5770.33
153_L333_R0.5760.33
159_T328_T0.5760.33
326_L354_I0.5760.33
113_L274_T0.5750.33
130_L134_I0.5730.33
200_K209_E0.5730.33
185_S238_I0.5720.33
156_S283_S0.5720.33
128_H314_N0.5710.32
10_A18_G0.5700.32
89_K165_I0.5700.32
278_L309_H0.5690.32
110_C126_V0.5680.32
42_R51_Y0.5680.32
187_I282_P0.5660.32
254_L265_Y0.5650.32
350_L354_I0.5650.32
262_H285_V0.5640.32
296_Y311_Y0.5640.32
270_K278_L0.5630.32
293_T310_I0.5630.32
275_A287_D0.5600.32
136_P317_E0.5600.32
256_Y275_A0.5600.32
29_K302_D0.5590.32
192_K235_S0.5580.31
257_D262_H0.5560.31
36_P104_F0.5550.31
115_A273_L0.5540.31
151_T154_N0.5530.31
167_G341_K0.5520.31
187_I328_T0.5520.31
194_I348_F0.5520.31
282_P292_A0.5510.31
16_A342_E0.5510.31
281_T291_D0.5510.31
97_S247_K0.5500.31
328_T331_T0.5500.31
297_I317_E0.5500.31
336_F349_K0.5490.31
254_L317_E0.5490.31
155_A281_T0.5490.31
97_S197_L0.5490.31
258_L261_N0.5470.31
253_P275_A0.5470.31
18_G74_I0.5460.31
70_L79_E0.5450.30
164_K171_S0.5450.30
33_L136_P0.5440.30
191_I327_E0.5430.30
172_D176_N0.5430.30
217_L271_R0.5420.30
92_S95_T0.5420.30
334_H338_K0.5410.30
139_G356_F0.5410.30
249_E321_F0.5390.30
35_Y305_V0.5390.30
246_E250_E0.5390.30
174_E178_I0.5380.30
12_L77_F0.5380.30
213_N217_L0.5370.30
61_I67_E0.5360.30
160_N334_H0.5350.30
249_E263_P0.5350.30
73_P77_F0.5350.30
4_E85_L0.5340.30
163_Y273_L0.5330.29
267_Y292_A0.5330.29
223_P300_K0.5320.29
134_I290_Y0.5320.29
168_L197_L0.5320.29
159_T278_L0.5290.29
348_F351_N0.5290.29
69_E173_E0.5260.29
40_I95_T0.5240.29
8_L101_I0.5240.29
105_L115_A0.5230.29
3_G9_Y0.5180.28
274_T313_R0.5180.28
3_G141_S0.5170.28
194_I201_L0.5160.28
204_V246_E0.5160.28
213_N285_V0.5160.28
150_S316_F0.5150.28
216_I252_N0.5140.28
92_S266_E0.5130.28
60_I64_G0.5130.28
68_E71_R0.5120.28
196_E251_E0.5110.28
154_N286_W0.5100.28
87_K237_G0.5100.28
66_G86_E0.5100.28
140_F316_F0.5100.28
127_I244_L0.5090.28
14_L290_Y0.5080.28
40_I88_I0.5080.28
123_I146_L0.5080.28
173_E343_N0.5080.28
304_E310_I0.5070.28
157_K334_H0.5070.28
159_T352_L0.5070.28
204_V339_I0.5060.27
9_Y51_Y0.5040.27
178_I183_T0.5030.27
172_D175_I0.5030.27
108_I354_I0.5020.27
36_P132_T0.5020.27
256_Y317_E0.5010.27
203_F286_W0.5010.27
123_I297_I0.5010.27
200_K231_L0.5000.27
340_Y345_E0.5000.27
175_I178_I0.5000.27
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  
4bwpA 2 0.2331 39.3 0.972 Contact Map
4czxB 2 0.2247 30.1 0.974 Contact Map
4xr7L 2 0.2416 26.3 0.974 Contact Map
4bwxA 2 0.2219 19.2 0.976 Contact Map
4d0kB 2 0.2303 17.1 0.977 Contact Map
4cyiA 3 0.2331 10.6 0.979 Contact Map
4e3yA 1 0.2978 7.7 0.98 Contact Map
1y9qA 1 0.3848 7.4 0.98 Contact Map
3mcbB 1 0.1348 6.8 0.98 Contact Map
1sa3A 1 0.6685 6.3 0.981 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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