GREMLIN Database
SMRA - Probable DNA endonuclease SmrA
UniProt: P76053 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
EcoGene: EG13354
Length: 187 (168)
Sequences: 1520 (1134)
Seq/√Len: 87.5

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
102_V119_I4.9121.00
158_H165_Y3.6011.00
86_A105_F2.9541.00
87_S120_I2.8651.00
109_A114_L2.7901.00
13_M16_V2.7411.00
106_I117_V2.5851.00
86_A114_L2.5321.00
110_L147_D2.5311.00
93_Q101_M2.5001.00
109_A117_V2.4961.00
73_V82_Y2.3711.00
85_Q114_L2.2621.00
120_I162_G2.2561.00
155_L165_Y2.2361.00
123_K162_G2.1321.00
153_T161_S2.1251.00
139_A143_T2.0871.00
155_L158_H2.0071.00
34_R37_Q1.9961.00
138_V164_C1.9651.00
9_F13_M1.8611.00
116_N167_A1.7751.00
117_V166_V1.7541.00
118_L165_Y1.7131.00
123_K161_S1.7001.00
91_L98_C1.6711.00
94_P97_E1.6611.00
12_A15_D1.6451.00
70_Q73_V1.6411.00
142_L148_V1.6071.00
106_I145_F1.5761.00
35_A38_R1.5641.00
39_I42_L1.5631.00
105_F117_V1.5381.00
7_S11_D1.5321.00
3_L7_S1.4901.00
62_L139_A1.4730.99
124_G134_V1.4660.99
99_R144_E1.4570.99
98_C134_V1.4430.99
11_D14_E1.4240.99
36_P40_D1.4040.99
108_Q112_D1.4010.99
4_D7_S1.3800.99
96_E99_R1.3540.99
132_N135_R1.3360.99
69_L77_L1.3070.99
139_A153_T1.3040.99
69_L149_Q1.2710.98
15_D18_P1.2680.98
44_L47_F1.2650.98
156_P162_G1.2570.98
104_S108_Q1.2490.98
149_Q167_A1.2440.98
148_V166_V1.2380.98
72_G78_R1.2070.98
118_L154_A1.1840.97
121_H147_D1.1650.97
34_R39_I1.1610.97
121_H164_C1.1450.97
136_S139_A1.1450.97
49_T52_F1.1330.97
108_Q111_A1.1330.97
41_T44_L1.1310.97
89_N98_C1.1280.97
135_R153_T1.1240.97
6_K10_L1.1240.97
95_V137_Y1.1160.96
91_L162_G1.1050.96
150_A167_A1.1010.96
70_Q74_L1.0920.96
121_H138_V1.0900.96
89_N162_G1.0870.96
38_R42_L1.0500.95
89_N92_R1.0460.95
9_F12_A1.0420.95
88_L105_F1.0410.95
24_D27_W1.0330.94
86_A109_A1.0300.94
76_K82_Y1.0250.94
28_H32_N1.0050.94
35_A39_I1.0020.94
118_L160_G1.0010.93
128_K131_A1.0000.93
42_L45_D0.9970.93
93_Q134_V0.9900.93
88_L117_V0.9800.93
118_L158_H0.9740.93
118_L159_G0.9610.92
74_L152_C0.9500.92
77_L150_A0.9490.92
70_Q121_H0.9460.91
151_Y164_C0.9430.91
75_D108_Q0.9380.91
76_K81_K0.9360.91
109_A113_G0.9320.91
24_D33_Q0.9320.91
64_F121_H0.9270.91
71_H117_V0.9110.90
36_P41_T0.9110.90
63_E74_L0.8950.89
134_V167_A0.8920.89
76_K115_R0.8900.89
6_K79_S0.8820.88
91_L134_V0.8780.88
65_R74_L0.8560.87
92_R102_V0.8560.87
62_L164_C0.8530.87
72_G76_K0.8490.86
32_N42_L0.8480.86
58_L83_P0.8470.86
160_G165_Y0.8380.86
7_S22_A0.8310.85
68_G150_A0.8310.85
69_L73_V0.8300.85
117_V168_L0.8260.85
70_Q115_R0.8210.84
72_G165_Y0.8210.84
134_V139_A0.8200.84
138_V162_G0.8190.84
18_P96_E0.8150.84
64_F150_A0.8130.84
120_I123_K0.8060.83
152_C167_A0.8000.83
73_V76_K0.7950.82
72_G75_D0.7880.82
48_L52_F0.7830.81
96_E129_S0.7790.81
4_D8_L0.7700.80
107_Q147_D0.7640.80
12_A79_S0.7640.80
9_F121_H0.7600.79
126_D131_A0.7580.79
30_T41_T0.7560.79
9_F15_D0.7530.79
87_S123_K0.7520.79
121_H132_N0.7470.78
29_P56_I0.7410.78
43_Q47_F0.7380.77
22_A26_H0.7320.77
143_T153_T0.7310.77
89_N134_V0.7280.77
72_G82_Y0.7230.76
154_A159_G0.7190.76
11_D29_P0.7160.75
41_T45_D0.7110.75
61_P153_T0.7100.75
140_R144_E0.7060.74
91_L123_K0.7050.74
25_V30_T0.7020.74
39_I46_N0.6990.74
78_R152_C0.6950.73
99_R141_W0.6920.73
20_K148_V0.6850.72
121_H145_F0.6820.72
139_A151_Y0.6820.72
65_R69_L0.6720.71
165_Y170_K0.6710.70
124_G139_A0.6680.70
10_L17_Q0.6670.70
93_Q97_E0.6670.70
95_V133_I0.6670.70
57_P60_Q0.6670.70
66_R169_R0.6650.70
77_L116_N0.6630.70
109_A112_D0.6620.69
23_T29_P0.6620.69
88_L144_E0.6620.69
77_L144_E0.6530.68
85_Q158_H0.6520.68
94_P101_M0.6520.68
3_L17_Q0.6510.68
46_N103_F0.6500.68
23_T31_R0.6490.68
85_Q115_R0.6470.68
24_D120_I0.6460.68
94_P134_V0.6460.68
90_L93_Q0.6460.68
84_Q158_H0.6430.67
88_L101_M0.6410.67
97_E100_K0.6400.67
55_I58_L0.6370.67
154_A160_G0.6350.66
9_F145_F0.6330.66
119_I166_V0.6300.66
51_G55_I0.6230.65
118_L155_L0.6210.65
12_A16_V0.6180.64
36_P44_L0.6180.64
8_L102_V0.6170.64
84_Q157_H0.6060.63
87_S118_L0.6050.63
135_R167_A0.6030.62
46_N51_G0.6010.62
95_V145_F0.6000.62
34_R38_R0.5990.62
105_F162_G0.5980.62
69_L134_V0.5950.61
108_Q163_A0.5940.61
116_N126_D0.5920.61
6_K11_D0.5900.61
30_T33_Q0.5890.60
91_L94_P0.5860.60
14_E35_A0.5860.60
98_C132_N0.5850.60
132_N136_S0.5810.59
45_D49_T0.5770.59
89_N94_P0.5710.58
75_D135_R0.5710.58
125_R135_R0.5660.57
32_N40_D0.5650.57
82_Y153_T0.5630.57
86_A101_M0.5600.57
70_Q137_Y0.5590.57
29_P32_N0.5580.56
120_I164_C0.5580.56
103_F140_R0.5560.56
119_I164_C0.5550.56
26_H30_T0.5540.56
71_H134_V0.5520.56
91_L132_N0.5510.55
86_A117_V0.5500.55
68_G73_V0.5490.55
101_M108_Q0.5480.55
18_P21_R0.5460.55
9_F64_F0.5450.55
42_L46_N0.5420.54
74_L82_Y0.5400.54
68_G135_R0.5390.54
70_Q82_Y0.5370.54
15_D102_V0.5340.53
136_S140_R0.5330.53
87_S124_G0.5330.53
114_L117_V0.5320.53
4_D67_E0.5300.53
70_Q153_T0.5290.53
89_N120_I0.5210.51
95_V134_V0.5210.51
47_F50_T0.5170.51
26_H112_D0.5160.51
141_W169_R0.5150.51
53_L137_Y0.5150.51
7_S45_D0.5130.50
93_Q103_F0.5090.50
74_L78_R0.5090.50
20_K23_T0.5080.50
159_G165_Y0.5070.50
23_T27_W0.5060.49
47_F52_F0.5050.49
95_V151_Y0.5020.49
75_D89_N0.5000.49
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  
3qd7X 1 0.7005 100 0.371 Contact Map
4od6A 1 0.4385 99.9 0.541 Contact Map
2zqeA 1 0.4278 99.9 0.55 Contact Map
2d9iA 1 0.4866 99.9 0.605 Contact Map
2vkcA 1 0.5348 99.9 0.62 Contact Map
3fauA 3 0.4118 99.9 0.626 Contact Map
2wh5A 1 0.4813 19.2 0.948 Contact Map
4r1dB 1 0.1176 12.8 0.952 Contact Map
2copA 1 0.5668 11.9 0.953 Contact Map
1pavA 1 0.4171 11.5 0.953 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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