GREMLIN Database
NRPS - Nonribosomal peptide synthase
PFAM: PF08415 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_10
Length: 54 (53)
Sequences: 4562 (3746)
Seq/√Len: 514.5
META: 0.703

GREMLIN Results:

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

Residue pairs sorted by coevolution strength:
i j Sco Prob
4_V12_E5.2101.00
13_L17_R3.1521.00
4_V8_E3.0511.00
12_E15_R2.9271.00
4_V9_V2.5801.00
30_T50_S2.3591.00
8_E12_E1.8761.00
45_L48_G1.8591.00
10_L25_M1.7791.00
12_E16_R1.6951.00
7_V11_R1.6561.00
19_G22_A1.5731.00
30_T33_L1.5241.00
39_L43_G1.4331.00
37_D41_W1.3281.00
5_S8_E1.2031.00
37_D40_E1.1791.00
38_A41_W1.1481.00
48_G51_Q1.1221.00
17_R22_A1.1081.00
10_L33_L1.0021.00
39_L42_L0.9951.00
29_F34_E0.9831.00
34_E39_L0.9621.00
11_R28_V0.9411.00
48_G52_T0.9251.00
20_A23_A0.9151.00
50_S53_P0.8961.00
24_L29_F0.8881.00
21_P24_L0.8771.00
34_E37_D0.8491.00
6_G13_L0.8271.00
8_E11_R0.8171.00
36_G39_L0.8161.00
20_A38_A0.8141.00
5_S51_Q0.7851.00
32_A48_G0.7521.00
16_R21_P0.7471.00
18_G22_A0.7281.00
6_G16_R0.7211.00
36_G40_E0.7191.00
40_E43_G0.7151.00
10_L14_A0.6731.00
40_E44_E0.6731.00
10_L23_A0.6631.00
14_A32_A0.6611.00
39_L44_E0.6451.00
20_A24_L0.6421.00
39_L45_L0.6351.00
20_A44_E0.6281.00
14_A23_A0.6201.00
13_L25_M0.6151.00
9_V51_Q0.6141.00
30_T54_Q0.6010.99
36_G43_G0.5970.99
10_L32_A0.5900.99
24_L30_T0.5770.99
9_V13_L0.5710.99
25_M32_A0.5640.99
19_G23_A0.5620.99
6_G9_V0.5560.99
16_R42_L0.5470.99
5_S52_T0.5450.99
7_V54_Q0.5430.99
47_Y51_Q0.5350.99
26_P46_V0.5290.99
29_F33_L0.5280.99
18_G40_E0.5270.99
32_A50_S0.5250.99
32_A49_I0.5220.99
34_E38_A0.5190.99
14_A31_S0.5190.99
3_A27_V0.5140.98
42_L45_L0.5070.98
13_L23_A0.5060.98
47_Y53_P0.5040.98
6_G19_G0.5040.98
41_W44_E0.5030.98
9_V26_P0.5010.98
23_A26_P0.5000.98
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  
4qicA 2 0.8704 8.2 0.856 Contact Map
2jgpA 1 0.9815 7.9 0.857 Contact Map
3j25A 1 0.9444 7.3 0.859 Contact Map
3n0rA 1 0.8704 7.1 0.86 Contact Map
3sy8A 6 0.9074 6.6 0.862 Contact Map
2h5eA 1 0.9815 6.6 0.862 Contact Map
1l5aA 2 0.9074 6.3 0.863 Contact Map
1dcfA 2 0.9815 5.5 0.867 Contact Map
3lteA 3 0.9444 5.1 0.869 Contact Map
4g97A 1 0.8704 5.1 0.869 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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