GREMLIN Database
YDIP - Probable BsuMI modification methylase subunit YdiP
UniProt: O34680 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 389 (301)
Sequences: 719 (573)
Seq/√Len: 33.0

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
248_R254_E7.0571.00
17_L289_G6.8501.00
108_I162_A5.9061.00
5_S14_E5.2311.00
65_A92_L4.4521.00
114_P156_H4.0341.00
91_K94_E3.9651.00
8_S29_E3.9081.00
19_Q286_K3.8271.00
17_L62_L3.5941.00
71_D83_G3.4061.00
146_A281_S3.3651.00
251_G283_R3.2171.00
37_V275_L3.1531.00
61_D106_P3.0401.00
71_D86_S2.8731.00
12_G252_F2.7531.00
239_G245_D2.7021.00
286_K290_E2.6811.00
281_S284_V2.6191.00
2_K23_T2.4420.99
16_G20_S2.4140.99
50_D53_E2.3270.99
70_Q85_R2.2990.99
7_F280_V2.1330.99
246_A273_W2.1110.98
96_I108_I2.0990.98
6_L63_V2.0520.98
5_S8_S2.0210.98
241_I246_A2.0080.98
105_P137_Y1.9800.98
146_A284_V1.9750.98
33_L271_A1.9520.97
16_G280_V1.8310.96
97_E135_L1.8280.96
17_L64_A1.7910.96
27_F38_L1.7730.96
12_G16_G1.7390.95
151_L281_S1.6920.94
117_L158_V1.6510.93
7_F11_G1.6060.92
244_R247_E1.6040.92
104_R164_L1.5980.92
17_L109_L1.5660.91
7_F88_L1.5570.91
31_D34_A1.5400.91
217_K222_V1.5400.91
92_L110_I1.5390.91
58_P103_N1.5380.91
252_F279_A1.5300.90
39_S48_E1.5240.90
4_V26_I1.5230.90
247_E258_N1.5160.90
28_C51_I1.5060.90
219_G222_V1.4900.89
243_I269_E1.4870.89
247_E272_R1.4670.88
71_D87_G1.4400.88
251_G284_V1.4210.87
145_D154_R1.4200.87
3_V24_T1.4020.86
247_E276_V1.3860.85
65_A289_G1.3780.85
86_S124_A1.3750.85
119_L124_A1.3680.85
92_L96_I1.3520.84
270_G274_R1.3370.83
69_C155_R1.2990.81
217_K221_S1.2780.80
63_V92_L1.2710.80
214_P222_V1.2590.79
29_E38_L1.2540.79
131_V135_L1.2470.79
67_F92_L1.2320.78
64_A289_G1.2300.78
305_E308_T1.2300.78
72_L86_S1.2260.77
11_G280_V1.2230.77
76_G85_R1.2230.77
120_N123_K1.2200.77
6_L28_C1.2150.77
112_N155_R1.2130.77
29_E66_G1.2120.77
130_S134_E1.2100.77
7_F67_F1.2070.76
13_I280_V1.1900.75
4_V60_C1.1840.75
125_M141_Y1.1830.75
79_E82_D1.1820.75
66_G250_Q1.1700.74
29_E43_P1.1680.74
67_F128_L1.1570.73
63_V96_I1.1530.73
93_F131_V1.1490.73
280_V289_G1.1330.72
174_S178_S1.1250.71
28_C49_D1.1240.71
8_S27_F1.1220.71
113_V155_R1.1160.70
34_A278_N1.1130.70
10_I275_L1.1120.70
306_L311_W1.1090.70
36_A39_S1.1040.70
123_K126_S1.1010.69
129_T139_W1.0980.69
290_E293_S1.0910.69
5_S124_A1.0880.68
13_I66_G1.0850.68
228_P231_W1.0660.67
157_R277_G1.0650.67
10_I279_A1.0530.66
12_G20_S1.0530.66
226_S229_A1.0510.66
15_L253_P1.0400.65
108_I132_L1.0390.65
187_S190_D1.0320.64
31_D271_A1.0310.64
60_C63_V1.0300.64
69_C112_N1.0270.64
7_F51_I1.0230.64
244_R248_R1.0160.63
12_G282_V1.0150.63
16_G289_G1.0110.63
159_I243_I1.0090.62
204_R217_K1.0030.62
227_P230_V1.0020.62
94_E98_K0.9990.62
307_V310_T0.9990.62
146_A159_I0.9950.61
203_L214_P0.9950.61
305_E310_T0.9890.61
204_R219_G0.9880.61
211_E214_P0.9800.60
244_R254_E0.9760.60
69_C113_V0.9620.59
15_L18_H0.9520.58
174_S183_D0.9430.57
204_R214_P0.9400.57
10_I16_G0.9390.57
125_M160_L0.9390.57
35_K48_E0.9380.57
247_E279_A0.9360.57
159_I288_I0.9350.57
251_G282_V0.9350.57
68_P85_R0.9340.56
214_P220_S0.9340.56
179_E182_L0.9310.56
229_A241_I0.9310.56
72_L83_G0.9280.56
109_L161_L0.9270.56
40_K257_T0.9270.56
134_E160_L0.9190.55
224_I229_A0.9180.55
15_L256_W0.9170.55
3_V27_F0.9160.55
205_G222_V0.9150.55
214_P217_K0.9140.55
207_G214_P0.9140.55
69_C157_R0.9000.54
216_I246_A0.9000.54
213_V249_L0.8980.54
232_S235_E0.8980.54
268_K271_A0.8940.53
183_D187_S0.8910.53
7_F239_G0.8900.53
247_E257_T0.8870.53
12_G280_V0.8860.53
76_G83_G0.8800.52
10_I41_N0.8790.52
98_K126_S0.8770.52
97_E104_R0.8720.51
243_I276_V0.8690.51
3_V14_E0.8690.51
72_L124_A0.8680.51
143_T156_H0.8640.51
86_S89_V0.8590.50
13_I16_G0.8590.50
293_S297_G0.8580.50
53_E57_L0.8570.50
5_S34_A0.8540.50
206_V217_K0.8540.50
65_A70_Q0.8520.50
70_Q76_G0.8510.50
96_I162_A0.8500.50
204_R220_S0.8490.49
37_V83_G0.8450.49
25_E95_L0.8410.49
208_W211_E0.8400.49
66_G153_Q0.8340.48
24_T38_L0.8330.48
59_S103_N0.8280.48
17_L20_S0.8280.48
10_I258_N0.8260.48
71_D124_A0.8240.47
14_E24_T0.8230.47
303_E308_T0.8230.47
8_S124_A0.8210.47
240_T273_W0.8200.47
14_E27_F0.8190.47
72_L256_W0.8180.47
205_G219_G0.8180.47
301_D307_V0.8160.47
14_E38_L0.8150.47
33_L216_I0.8120.46
77_G108_I0.8110.46
13_I285_S0.8100.46
93_F279_A0.8050.46
146_A151_L0.8010.45
225_A230_V0.7990.45
65_A85_R0.7980.45
41_N287_W0.7980.45
178_S182_L0.7970.45
290_E294_Q0.7920.45
204_R207_G0.7880.44
73_S112_N0.7870.44
228_P236_D0.7870.44
97_E131_V0.7840.44
88_L215_P0.7820.44
72_L118_R0.7780.44
35_K39_S0.7770.43
83_G87_G0.7770.43
272_R276_V0.7760.43
215_P239_G0.7740.43
301_D308_T0.7730.43
267_I279_A0.7720.43
140_A173_F0.7710.43
126_S300_S0.7700.43
59_S106_P0.7690.43
136_G164_L0.7680.43
303_E306_L0.7660.43
182_L190_D0.7630.42
37_V247_E0.7620.42
242_N245_D0.7620.42
132_L162_A0.7600.42
62_L289_G0.7600.42
14_E34_A0.7580.42
239_G280_V0.7560.42
2_K25_E0.7540.42
17_L280_V0.7530.42
29_E35_K0.7500.41
204_R218_C0.7490.41
203_L206_V0.7490.41
54_I58_P0.7490.41
300_S304_G0.7460.41
307_V311_W0.7460.41
14_E67_F0.7430.41
177_H181_D0.7410.41
194_Y197_F0.7410.41
75_A273_W0.7400.40
187_S191_H0.7380.40
23_T44_G0.7330.40
207_G232_S0.7320.40
117_L141_Y0.7310.40
190_D193_N0.7290.40
232_S236_D0.7270.39
223_G232_S0.7260.39
29_E276_V0.7240.39
27_F45_V0.7230.39
8_S63_V0.7220.39
12_G279_A0.7210.39
28_C35_K0.7210.39
69_C277_G0.7200.39
52_N91_K0.7170.39
116_M158_V0.7160.39
158_V282_V0.7140.38
145_D238_V0.7130.38
94_E164_L0.7130.38
98_K103_N0.7100.38
207_G221_S0.7060.38
78_K115_Y0.7050.38
140_A149_F0.7000.37
41_N257_T0.6970.37
303_E309_K0.6970.37
39_S97_E0.6950.37
189_V193_N0.6930.37
123_K127_Y0.6920.37
2_K170_D0.6920.37
304_G308_T0.6920.37
60_C103_N0.6870.36
71_D89_V0.6870.36
63_V156_H0.6870.36
198_Y201_E0.6860.36
8_S64_A0.6860.36
67_F280_V0.6820.36
128_L160_L0.6820.36
10_I282_V0.6780.36
226_S230_V0.6760.35
20_S286_K0.6740.35
55_R84_S0.6730.35
19_Q290_E0.6730.35
97_E136_G0.6710.35
40_K287_W0.6690.35
8_S14_E0.6680.35
68_P88_L0.6650.35
206_V218_C0.6620.34
244_R255_D0.6610.34
159_I285_S0.6610.34
151_L210_R0.6600.34
148_C296_K0.6600.34
212_A216_I0.6570.34
106_P164_L0.6540.34
230_V235_E0.6530.34
249_L269_E0.6520.34
42_F45_V0.6500.34
5_S24_T0.6480.33
3_V90_K0.6480.33
138_T165_F0.6480.33
31_D50_D0.6480.33
109_L288_I0.6480.33
95_L103_N0.6470.33
306_L309_K0.6470.33
47_I271_A0.6440.33
53_E104_R0.6440.33
218_C222_V0.6430.33
214_P229_A0.6430.33
9_G278_N0.6430.33
6_L13_I0.6420.33
67_F256_W0.6390.33
137_Y164_L0.6390.33
32_P255_D0.6380.33
24_T45_V0.6370.33
51_I60_C0.6350.32
224_I231_W0.6350.32
66_G248_R0.6320.32
26_I47_I0.6310.32
196_G202_G0.6310.32
224_I232_S0.6300.32
228_P233_P0.6300.32
89_V128_L0.6270.32
303_E311_W0.6260.32
71_D238_V0.6200.31
67_F116_M0.6190.31
62_L109_L0.6180.31
306_L310_T0.6160.31
18_H110_I0.6140.31
83_G275_L0.6080.30
74_Q116_M0.6070.30
250_Q280_V0.6070.30
206_V232_S0.6040.30
3_V64_A0.6040.30
161_L292_L0.6040.30
43_P94_E0.6030.30
55_R58_P0.6020.30
225_A229_A0.6020.30
155_R277_G0.6000.30
148_C174_S0.6000.30
4_V41_N0.5990.30
207_G219_G0.5990.30
70_Q81_I0.5980.30
257_T272_R0.5960.30
23_T293_S0.5950.30
128_L141_Y0.5940.29
84_S87_G0.5920.29
106_P167_D0.5920.29
74_Q115_Y0.5910.29
228_P232_S0.5900.29
182_L188_V0.5900.29
131_V134_E0.5890.29
304_G309_K0.5890.29
56_E126_S0.5880.29
230_V270_G0.5870.29
204_R222_V0.5840.29
49_D53_E0.5840.29
107_W138_T0.5780.28
232_S237_I0.5770.28
227_P232_S0.5760.28
134_E190_D0.5710.28
66_G112_N0.5690.28
6_L95_L0.5680.28
147_R247_E0.5680.28
294_Q302_F0.5670.28
29_E124_A0.5660.28
11_G17_L0.5660.28
179_E190_D0.5650.28
12_G250_Q0.5650.28
244_R256_W0.5610.27
12_G67_F0.5600.27
13_I284_V0.5600.27
13_I242_N0.5600.27
138_T170_D0.5600.27
18_H44_G0.5590.27
153_Q250_Q0.5560.27
72_L153_Q0.5560.27
151_L251_G0.5550.27
252_F258_N0.5550.27
17_L29_E0.5540.27
8_S12_G0.5520.27
208_W219_G0.5520.27
41_N258_N0.5500.27
271_A279_A0.5500.27
303_E310_T0.5490.26
212_A260_T0.5470.26
28_C48_E0.5440.26
28_C95_L0.5440.26
207_G220_S0.5440.26
6_L92_L0.5430.26
203_L221_S0.5420.26
153_Q278_N0.5410.26
11_G16_G0.5410.26
243_I285_S0.5400.26
176_D310_T0.5400.26
205_G213_V0.5400.26
13_I159_I0.5370.26
26_I103_N0.5370.26
90_K124_A0.5360.26
44_G255_D0.5360.26
14_E92_L0.5350.26
178_S190_D0.5340.25
67_F120_N0.5340.25
12_G34_A0.5310.25
76_G95_L0.5310.25
2_K176_D0.5310.25
115_Y273_W0.5300.25
125_M256_W0.5300.25
133_S138_T0.5300.25
305_E311_W0.5290.25
298_S302_F0.5270.25
218_C242_N0.5270.25
60_C104_R0.5250.25
181_D185_K0.5250.25
31_D91_K0.5240.25
26_I57_L0.5230.25
185_K190_D0.5220.25
11_G38_L0.5200.25
6_L66_G0.5190.25
116_M128_L0.5190.25
10_I281_S0.5190.25
152_P176_D0.5180.25
7_F13_I0.5180.25
150_G214_P0.5170.24
184_G187_S0.5170.24
227_P233_P0.5150.24
28_C118_R0.5150.24
149_F284_V0.5140.24
203_L279_A0.5140.24
140_A172_I0.5140.24
25_E93_F0.5130.24
204_R221_S0.5130.24
132_L139_W0.5120.24
193_N254_E0.5120.24
112_N157_R0.5100.24
225_A231_W0.5100.24
8_S11_G0.5080.24
88_L91_K0.5080.24
39_S43_P0.5060.24
6_L289_G0.5040.24
38_L289_G0.5020.24
298_S309_K0.5010.23
10_I37_V0.5000.23
7_F24_T0.5000.23
11_G88_L0.5000.23
59_S304_G0.5000.23
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  
3swrA 1 0.7326 100 0.282 Contact Map
4ft4B 1 0.7635 100 0.303 Contact Map
4wxxA 1 0.7455 100 0.308 Contact Map
4dkjA 1 0.7326 100 0.313 Contact Map
2c7pA 1 0.7378 100 0.316 Contact Map
3g7uA 1 0.6761 100 0.347 Contact Map
3ubtY 2 0.7429 100 0.35 Contact Map
3qv2A 1 0.7018 100 0.351 Contact Map
3me5A 1 0.7352 100 0.357 Contact Map
4h0nA 1 0.7147 100 0.359 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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