GREMLIN Database
Nodulin_late - Late nodulin protein
PFAM: PF07127 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 54 (53)
Sequences: 625 (582)
Seq/√Len: 80.0
META: 0.003

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
40_C46_P4.2221.00
3_K6_K2.6981.00
33_D47_K2.4241.00
17_L24_V2.1371.00
8_V12_I1.8681.00
14_F17_L1.8071.00
25_D38_K1.5801.00
21_A43_P1.5621.00
6_K9_Y1.5611.00
12_I20_V1.4060.99
36_C53_C1.3990.99
48_C53_C1.3900.99
2_A8_V1.3760.99
15_L46_P1.3320.98
6_K11_M1.3260.98
41_P47_K1.2570.98
12_I19_L1.2320.97
18_F23_N1.2160.97
5_L13_I1.2040.97
33_D46_P1.1970.97
32_T42_P1.1820.97
30_C35_D1.1320.96
5_L48_C1.1090.95
28_I52_F1.0780.94
11_M20_V1.0510.94
14_F25_D1.0370.93
9_Y19_L1.0140.92
10_V32_T1.0110.92
18_F24_V1.0020.92
27_Y45_V0.9550.90
10_V24_V0.9540.90
31_K39_K0.9390.89
5_L11_M0.9380.89
31_K34_A0.9320.89
8_V26_A0.9030.87
42_P52_F0.8770.85
4_I39_K0.8720.85
29_P52_F0.8440.83
15_L45_V0.8430.83
15_L37_P0.8200.81
34_A38_K0.8110.81
34_A50_N0.7960.79
7_F25_D0.7940.79
19_L41_P0.7920.79
13_I40_C0.7900.79
27_Y39_K0.7740.78
3_K13_I0.7640.77
27_Y52_F0.7620.76
10_V37_P0.7430.75
11_M21_A0.7400.74
25_D52_F0.7400.74
9_Y17_L0.7330.74
9_Y16_S0.7320.73
14_F44_L0.7320.73
4_I13_I0.7090.71
11_M14_F0.7060.71
1_M6_K0.7020.70
8_V19_L0.7000.70
17_L47_K0.7000.70
15_L42_P0.6810.68
47_K52_F0.6690.67
1_M4_I0.6220.61
28_I44_L0.6220.61
10_V34_A0.6020.59
36_C48_C0.6010.58
21_A24_V0.5960.58
28_I51_G0.5870.57
25_D43_P0.5830.56
1_M5_L0.5780.56
30_C36_C0.5750.55
4_I22_T0.5700.54
45_V52_F0.5690.54
10_V28_I0.5550.53
30_C53_C0.5520.52
25_D35_D0.5480.52
12_I22_T0.5430.51
4_I23_N0.5290.49
16_S19_L0.5120.47
22_T37_P0.5030.46
4_I40_C0.5000.45
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  
1rjiA 1 0.5185 55.6 0.76 Contact Map
2axkA 1 0.5926 51.7 0.766 Contact Map
1tskA 1 0.5741 48.8 0.77 Contact Map
1m2sA 1 0.5926 48.7 0.77 Contact Map
1hp2A 1 0.5741 47.7 0.771 Contact Map
1n8mA 1 0.5556 47.7 0.771 Contact Map
1wmtA 1 0.5741 47.5 0.772 Contact Map
1bigA 1 0.5741 47.4 0.772 Contact Map
1wz5A 1 0.5185 46.9 0.772 Contact Map
1qkyA 1 0.5556 46.9 0.772 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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