GREMLIN Database
RE_NgoPII - NgoPII restriction endonuclease
PFAM: PF09521 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 262 (262)
Sequences: 513 (412)
Seq/√Len: 25.5
META: 0.865

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
10_I42_A4.8641.00
28_A31_M4.3691.00
235_Y247_E4.1251.00
196_Y204_G4.1241.00
184_G199_I3.4561.00
115_K119_N3.4361.00
112_M162_K3.4191.00
151_Y211_V3.4091.00
229_I259_V3.3791.00
232_K236_N3.0501.00
58_K61_E2.9421.00
75_I83_I2.6440.99
131_A145_F2.6060.99
185_R196_Y2.5540.99
105_K125_E2.5270.99
150_C231_N2.5120.99
76_I120_C2.4700.99
57_E260_K2.4010.98
243_R247_E2.2940.98
96_A204_G2.2810.98
187_N196_Y2.2000.97
49_E54_K2.1980.97
185_R204_G2.1930.97
178_S185_R2.1770.97
215_I259_V2.1210.97
110_S162_K2.0510.96
249_L254_L2.0380.96
111_P181_K2.0320.96
178_S187_N2.0070.95
155_K159_E2.0060.95
44_A62_V1.9740.95
89_E137_K1.9740.95
187_N204_G1.9540.95
129_I147_Y1.9140.94
107_Y155_K1.8880.93
22_Y34_A1.8710.93
236_N243_R1.8370.92
101_Y110_S1.8010.92
1_T62_V1.7990.92
65_Y71_N1.7940.92
153_A191_P1.7850.91
81_D234_K1.7790.91
132_V146_V1.7780.91
75_I85_V1.7410.90
46_T49_E1.7380.90
89_E136_K1.7290.90
76_I157_I1.7260.90
1_T77_I1.6980.89
5_K242_D1.6890.89
24_G30_N1.6790.88
37_E55_R1.6750.88
68_N71_N1.6670.88
7_I226_L1.6410.87
65_Y116_A1.6180.87
214_Y262_K1.6150.86
1_T5_K1.6120.86
7_I224_F1.5950.86
240_N243_R1.5570.84
235_Y243_R1.5560.84
150_C261_I1.5360.84
89_E135_V1.5270.83
64_S126_K1.5270.83
39_I131_A1.5170.83
164_T171_S1.4810.81
132_V212_F1.4800.81
95_L132_V1.4780.81
227_F231_N1.4660.80
150_C230_I1.4450.80
68_N176_E1.4350.79
68_N193_G1.3960.77
219_D222_K1.3930.77
188_K193_G1.3480.74
149_D231_N1.3380.74
68_N188_K1.3330.74
83_I147_Y1.3110.72
94_A206_E1.2950.71
33_E70_N1.2850.71
95_L244_E1.2810.71
66_L75_I1.2800.71
151_Y194_I1.2760.70
176_E188_K1.2720.70
104_A155_K1.2660.70
110_S214_Y1.2640.70
94_A204_G1.2610.69
127_D234_K1.2520.69
144_W150_C1.2450.68
8_I12_N1.2380.68
54_K57_E1.2360.68
76_I114_T1.2350.68
180_T197_L1.2200.67
234_K237_S1.2120.66
76_I79_N1.2010.66
144_W209_L1.1970.65
96_A205_I1.1840.64
232_K258_D1.1690.63
69_Q128_I1.1680.63
22_Y25_R1.1400.61
101_Y159_E1.1400.61
144_W227_F1.1390.61
13_N38_Y1.1330.61
112_M184_G1.1210.60
8_I38_Y1.1020.59
240_N244_E1.1010.59
15_I22_Y1.0960.58
164_T175_V1.0960.58
70_N120_C1.0940.58
150_C155_K1.0920.58
125_E154_D1.0870.58
116_A154_D1.0850.57
83_I129_I1.0820.57
76_I128_I1.0770.57
216_Y227_F1.0650.56
5_K8_I1.0590.56
109_D155_K1.0510.55
55_R59_Y1.0470.55
181_K199_I1.0370.54
218_Y225_N1.0300.54
65_Y68_N1.0290.53
88_I207_N1.0230.53
101_Y112_M1.0230.53
194_I211_V1.0160.52
4_L246_L1.0100.52
129_I144_W0.9970.51
168_G172_I0.9930.51
4_L59_Y0.9930.51
47_F118_R0.9920.51
239_P243_R0.9840.50
128_I152_A0.9820.50
60_S66_L0.9750.50
76_I126_K0.9520.48
94_A118_R0.9520.48
104_A107_Y0.9510.48
196_Y206_E0.9320.46
72_P113_I0.9190.45
144_W166_K0.9160.45
37_E40_K0.9160.45
18_L34_A0.9120.45
76_I138_N0.9100.45
166_K170_N0.9090.45
136_K139_K0.9040.44
75_I162_K0.9040.44
61_E78_K0.8880.43
33_E188_K0.8880.43
58_K62_V0.8870.43
246_L249_L0.8850.43
147_Y238_F0.8850.43
164_T228_A0.8820.43
180_T185_R0.8810.43
11_V38_Y0.8790.43
115_K118_R0.8770.42
7_I63_F0.8750.42
3_I145_F0.8730.42
29_N180_T0.8610.41
194_I205_I0.8550.41
88_I151_Y0.8520.41
33_E69_Q0.8460.40
5_K150_C0.8450.40
110_S150_C0.8450.40
31_M89_E0.8400.40
150_C242_D0.8390.40
115_K156_E0.8360.39
165_I169_I0.8320.39
56_L214_Y0.8290.39
161_I168_G0.8280.39
246_L254_L0.8250.39
42_A47_F0.8160.38
160_R168_G0.8140.38
178_S199_I0.8100.38
59_Y254_L0.8080.38
35_L140_L0.8040.37
46_T52_E0.8010.37
13_N16_T0.7980.37
68_N205_I0.7980.37
81_D127_D0.7910.36
139_K246_L0.7890.36
22_Y41_D0.7880.36
16_T21_Y0.7810.36
43_F83_I0.7790.36
144_W149_D0.7760.35
35_L41_D0.7690.35
24_G34_A0.7670.35
94_A196_Y0.7660.35
171_S233_E0.7650.35
164_T186_V0.7650.35
240_N252_K0.7640.35
165_I172_I0.7630.35
43_F147_Y0.7530.34
28_A33_E0.7530.34
182_E202_M0.7510.34
26_N77_I0.7500.34
77_I83_I0.7480.34
92_N199_I0.7470.33
60_S115_K0.7400.33
94_A116_A0.7390.33
66_L179_E0.7390.33
112_M214_Y0.7380.33
106_L128_I0.7340.33
198_R202_M0.7310.32
95_L143_L0.7260.32
165_I207_N0.7220.32
116_A229_I0.7200.32
239_P257_K0.7190.32
30_N34_A0.7160.31
220_E226_L0.7160.31
16_T20_S0.7150.31
144_W154_D0.7120.31
57_E61_E0.7120.31
56_L60_S0.7100.31
160_R205_I0.7070.31
41_D59_Y0.7070.31
18_L33_E0.7060.31
113_I118_R0.7060.31
162_K170_N0.7060.31
65_Y106_L0.7060.31
233_E252_K0.7030.31
70_N161_I0.6960.30
189_V193_G0.6950.30
24_G144_W0.6940.30
166_K209_L0.6870.30
109_D145_F0.6870.30
44_A59_Y0.6870.30
110_S199_I0.6830.29
15_I21_Y0.6810.29
95_L216_Y0.6800.29
10_I226_L0.6780.29
150_C227_F0.6780.29
46_T51_D0.6780.29
80_G185_R0.6760.29
44_A77_I0.6760.29
11_V254_L0.6740.29
248_N251_N0.6740.29
168_G175_V0.6730.29
152_A240_N0.6710.29
32_G36_E0.6710.29
12_N146_V0.6710.29
105_K261_I0.6700.29
193_G205_I0.6690.29
230_I233_E0.6680.29
230_I238_F0.6670.28
4_L243_R0.6660.28
3_I93_S0.6640.28
162_K177_F0.6620.28
85_V89_E0.6540.28
79_N93_S0.6520.28
11_V14_P0.6520.28
31_M34_A0.6510.28
151_Y205_I0.6490.27
145_F238_F0.6470.27
59_Y83_I0.6450.27
246_L256_I0.6450.27
100_S182_E0.6440.27
176_E193_G0.6430.27
19_K23_S0.6430.27
149_D230_I0.6420.27
183_L201_G0.6420.27
66_L151_Y0.6400.27
112_M181_K0.6400.27
176_E189_V0.6390.27
124_T248_N0.6380.27
40_K89_E0.6380.27
18_L85_V0.6370.27
18_L30_N0.6370.27
38_Y220_E0.6360.27
152_A183_L0.6360.27
12_N248_N0.6320.26
6_A43_F0.6310.26
85_V145_F0.6290.26
150_C226_L0.6290.26
45_G124_T0.6290.26
77_I170_N0.6280.26
146_V259_V0.6270.26
226_L231_N0.6270.26
239_P247_E0.6260.26
212_F230_I0.6260.26
124_T253_N0.6260.26
19_K22_Y0.6250.26
41_D55_R0.6250.26
86_K100_S0.6250.26
22_Y30_N0.6240.26
8_I254_L0.6240.26
181_K253_N0.6240.26
14_P38_Y0.6230.26
162_K168_G0.6200.26
245_K249_L0.6190.26
50_T53_Q0.6190.26
178_S189_V0.6170.26
40_K55_R0.6170.26
1_T44_A0.6170.26
7_I188_K0.6170.26
128_I131_A0.6170.26
128_I147_Y0.6160.26
166_K184_G0.6140.25
13_N47_F0.6140.25
146_V199_I0.6120.25
76_I121_E0.6040.25
68_N96_A0.6030.25
38_Y79_N0.6030.25
134_V207_N0.6020.25
88_I188_K0.6020.25
80_G186_V0.6020.25
159_E212_F0.5990.25
21_Y25_R0.5940.24
61_E157_I0.5930.24
6_A10_I0.5900.24
159_E213_D0.5870.24
163_N252_K0.5870.24
9_N259_V0.5860.24
33_E252_K0.5850.24
178_S196_Y0.5850.24
126_K201_G0.5830.24
178_S181_K0.5820.24
104_A154_D0.5820.24
96_A191_P0.5800.24
181_K196_Y0.5800.24
103_K194_I0.5800.24
127_D147_Y0.5800.24
228_A247_E0.5790.24
87_K182_E0.5770.23
86_K198_R0.5750.23
136_K141_K0.5750.23
154_D217_E0.5670.23
76_I254_L0.5660.23
186_V197_L0.5660.23
169_I184_G0.5640.23
136_K175_V0.5630.23
40_K95_L0.5620.23
4_L8_I0.5620.23
26_N34_A0.5600.23
100_S202_M0.5600.23
18_L106_L0.5590.22
138_N258_D0.5580.22
110_S238_F0.5570.22
243_R254_L0.5560.22
230_I236_N0.5560.22
145_F226_L0.5540.22
89_E196_Y0.5540.22
7_I11_V0.5530.22
168_G193_G0.5530.22
162_K214_Y0.5530.22
142_S209_L0.5520.22
42_A226_L0.5460.22
184_G246_L0.5460.22
46_T59_Y0.5450.22
101_Y147_Y0.5440.22
35_L195_T0.5440.22
102_P190_D0.5440.22
12_N58_K0.5430.22
62_V77_I0.5420.22
122_N179_E0.5410.22
5_K44_A0.5390.21
135_V154_D0.5390.21
94_A169_I0.5360.21
20_S48_N0.5350.21
231_N261_I0.5340.21
112_M168_G0.5340.21
88_I211_V0.5340.21
10_I227_F0.5310.21
142_S212_F0.5310.21
29_N69_Q0.5310.21
95_L206_E0.5300.21
168_G186_V0.5280.21
61_E257_K0.5270.21
222_K255_S0.5270.21
33_E37_E0.5250.21
83_I167_D0.5230.21
45_G245_K0.5230.21
240_N260_K0.5220.21
8_I246_L0.5180.20
37_E59_Y0.5180.20
239_P242_D0.5170.20
154_D221_N0.5160.20
79_N167_D0.5150.20
177_F186_V0.5140.20
166_K210_K0.5130.20
182_E198_R0.5120.20
255_S260_K0.5120.20
51_D54_K0.5120.20
138_N145_F0.5110.20
14_P22_Y0.5100.20
118_R228_A0.5090.20
126_K165_I0.5080.20
160_R206_E0.5080.20
17_E138_N0.5060.20
38_Y59_Y0.5050.20
100_S198_R0.5050.20
3_I215_I0.5030.20
209_L261_I0.5030.20
169_I177_F0.5030.20
71_N172_I0.5020.20
113_I117_C0.5010.20
40_K59_Y0.5000.20
47_F62_V0.5000.20
114_T157_I0.5000.20
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  
4k0mC 1 0.3053 11.6 0.975 Contact Map
4r8aA 1 0.4008 4.7 0.979 Contact Map
2f5tX 2 0.2366 4.7 0.979 Contact Map
4oavB 2 0.2137 4.2 0.98 Contact Map
4lsbA 2 0.2672 3.5 0.981 Contact Map
2z3qA 1 0.416 3 0.981 Contact Map
2mh8A 1 0.2137 2.7 0.982 Contact Map
2gpvG 1 0.0458 2.3 0.982 Contact Map
2bsqE 2 0.2252 2.2 0.982 Contact Map
1na6A 2 0.5916 2.1 0.983 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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