GREMLIN Database
NGP1NT - NGP1NT (NUC091) domain
PFAM: PF08153 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 129 (129)
Sequences: 637 (404)
Seq/√Len: 35.5
META: 0.344

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_N14_K3.9501.00
9_R15_I3.4561.00
114_S117_E2.9941.00
100_G103_A2.7401.00
88_H91_E2.7391.00
120_K124_K2.5591.00
112_V118_L2.2490.99
47_K50_Q2.1300.99
8_K11_K2.1080.99
101_P104_Q2.0890.99
32_E36_R2.0690.99
4_N20_P2.0500.99
97_D104_Q1.9870.98
18_A21_F1.9780.98
44_I76_S1.9360.98
119_A123_E1.9150.98
27_P67_L1.8670.97
45_S48_A1.8380.97
41_T70_R1.7660.96
90_L94_P1.7220.96
115_L119_A1.6520.95
122_A125_S1.6420.94
8_K16_I1.5880.93
17_K76_S1.5870.93
18_A22_Q1.5590.93
74_P77_L1.5440.92
92_T112_V1.5400.92
29_A50_Q1.5380.92
56_M59_K1.5120.92
100_G105_R1.5070.91
94_P97_D1.5020.91
113_S117_E1.4450.90
17_K21_F1.4400.89
48_A64_Y1.4390.89
47_K71_N1.4300.89
51_K55_E1.4150.89
75_M80_D1.3890.88
56_M78_L1.3670.87
27_P31_I1.3580.86
125_S128_T1.3540.86
34_D39_G1.3290.85
121_K124_K1.3180.85
24_R109_K1.3140.85
65_S78_L1.2990.84
118_L122_A1.2980.84
62_D65_S1.2880.83
124_K128_T1.2390.81
12_K16_I1.2130.79
100_G110_L1.2090.79
52_F62_D1.1910.78
17_K20_P1.1720.77
19_A65_S1.1570.76
33_P37_W1.1550.76
88_H92_T1.1270.74
57_G65_S1.1260.74
16_I89_L1.0960.72
57_G96_E1.0820.71
71_N75_M1.0790.71
83_K87_V1.0750.70
53_R59_K1.0620.70
43_V73_L1.0480.69
15_I55_E1.0450.68
5_G75_M1.0450.68
19_A22_Q1.0410.68
52_F80_D1.0320.67
29_A33_P1.0250.67
103_A110_L1.0080.65
60_A78_L1.0060.65
17_K69_K1.0040.65
43_V52_F0.9980.65
83_K104_Q0.9820.63
25_E28_V0.9820.63
15_I22_Q0.9760.63
44_I101_P0.9650.62
31_I48_A0.9580.61
35_R109_K0.9450.60
120_K123_E0.9200.58
35_R68_L0.9130.58
6_K63_P0.9120.58
56_M117_E0.9080.57
93_E108_P0.9040.57
97_D100_G0.8980.56
62_D126_Q0.8880.56
122_A126_Q0.8830.55
32_E63_P0.8770.55
65_S116_E0.8730.54
52_F106_K0.8710.54
98_T128_T0.8700.54
39_G66_V0.8630.53
89_L94_P0.8530.53
39_G98_T0.8420.52
107_R126_Q0.8400.51
43_V57_G0.8360.51
50_Q53_R0.8300.51
108_P111_A0.8080.49
81_K114_S0.8030.48
64_Y67_L0.7970.48
117_E126_Q0.7970.48
57_G124_K0.7800.46
48_A52_F0.7670.45
5_G10_N0.7660.45
57_G60_A0.7560.44
36_R39_G0.7550.44
51_K93_E0.7550.44
68_L87_V0.7440.43
29_A48_A0.7330.42
50_Q81_K0.7310.42
78_L83_K0.7290.42
85_A95_F0.7290.42
83_K88_H0.7280.42
20_P23_S0.7280.42
60_A94_P0.7260.42
123_E128_T0.7160.41
53_R67_L0.7160.41
6_K101_P0.7130.41
4_N8_K0.7120.41
8_K17_K0.7050.40
118_L124_K0.7020.40
45_S75_M0.6940.39
17_K115_L0.6920.39
50_Q89_L0.6750.37
116_E124_K0.6700.37
100_G104_Q0.6650.37
85_A89_L0.6640.37
90_L96_E0.6620.36
12_K17_K0.6620.36
41_T98_T0.6610.36
57_G97_D0.6590.36
19_A73_L0.6540.36
49_L91_E0.6520.36
98_T103_A0.6480.35
21_F27_P0.6480.35
1_M64_Y0.6440.35
14_K116_E0.6390.35
44_I119_A0.6380.35
119_A122_A0.6380.35
55_E64_Y0.6340.34
102_K106_K0.6280.34
96_E121_K0.6270.34
4_N69_K0.6260.34
5_G16_I0.6240.33
42_R75_M0.6240.33
26_A29_A0.6220.33
56_M65_S0.6160.33
6_K45_S0.6130.33
111_A125_S0.6100.32
12_K102_K0.6070.32
34_D42_R0.6060.32
44_I127_D0.6050.32
2_Y50_Q0.6020.32
25_E94_P0.5910.31
44_I110_L0.5870.31
53_R77_L0.5850.31
88_H93_E0.5850.31
5_G20_P0.5840.30
58_E101_P0.5840.30
117_E120_K0.5810.30
20_P90_L0.5790.30
79_Q87_V0.5750.30
53_R71_N0.5720.30
31_I109_K0.5710.30
56_M66_V0.5690.29
109_K114_S0.5690.29
3_K9_R0.5660.29
48_A51_K0.5650.29
90_L115_L0.5620.29
62_D72_K0.5620.29
23_S26_A0.5600.29
87_V90_L0.5560.28
75_M113_S0.5550.28
78_L87_V0.5530.28
117_E121_K0.5520.28
116_E120_K0.5510.28
89_L103_A0.5480.28
62_D70_R0.5430.28
68_L111_A0.5370.27
36_R58_E0.5340.27
2_Y21_F0.5330.27
22_Q32_E0.5270.26
46_Q103_A0.5220.26
53_R75_M0.5180.26
113_S119_A0.5170.26
22_Q76_S0.5140.26
2_Y83_K0.5130.26
28_V67_L0.5100.25
80_D116_E0.5090.25
3_K96_E0.5080.25
79_Q111_A0.5070.25
43_V48_A0.5070.25
93_E97_D0.5060.25
111_A117_E0.5040.25
41_T69_K0.5020.25
8_K21_F0.5010.25
41_T58_E0.5000.25
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  
1b7yB 2 0.4651 9.8 0.951 Contact Map
3u24A 1 0.6357 8 0.953 Contact Map
3pcoB 2 0.5194 7 0.954 Contact Map
1b69A 1 0.4264 5.2 0.957 Contact Map
3qdlA 4 0.3333 4.6 0.958 Contact Map
1z1bA 3 0.9535 4.3 0.958 Contact Map
1yu8X 1 0.3798 4.1 0.959 Contact Map
2o70A 2 0.3488 4 0.959 Contact Map
3cmqA 1 0.5116 3.9 0.959 Contact Map
3o0yA 3 0.6899 3.8 0.959 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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