9zn4

Solution NMR structure of the MppE leader peptide, a Nif11 RiPP from Moorena producens

Method: SOLUTION NMR Dmax: 51.8 Å Quality: GOOD

1. Protein Identity and Related Structures Protein Identity & Related Structures

Nif11 domain-containing protein

Moorena producens

UniProt A0A1D8TKK6

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 1–77 Not recorded No other associated polymer SOLUTION NMR NMR measurement conditions:pH 6.5;298 K;Ionic strength (raw mmCIF value) 100;Pressure 1 NMR sample composition:0.3 mM [U-13C; U-15N] MppE, 90% H2O/10% D2O | 90% H2O/10% D2O Resolution not provided

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence
UniProt name A0A1D8TKK6_9CYAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–77; UniProt 1–77

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 9zn4

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9zn4
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2. Structure Basics 2. Structure Basics

Entry ID entry_id9zn4
Deposition date deposition_date2025-12-12
最后修订 last_revision2025-12-24
Structure title titleSolution NMR structure of the MppE leader peptide, a Nif11 RiPP from Moorena producens
Keywords keywordsRiPP leader peptide, a nif11-related precursor family, BIOSYNTHETIC PROTEIN; BIOSYNTHETIC PROTEIN
Experimental Method methodSOLUTION NMR

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier14.49
Radius of gyration Rg (electron density) rg_electron13.68
Forward intensity I(0) i0123220000.00
Molecular weight molecular_weight87083.0 kDa
Excluded volume excluded_volume106970 ų
Envelope volume envelope_volume36933 ų
Hydration-shell volume shell_volume17602 ų
Envelope diameter envelope_diameter55.2
Shell Rg shell_rg24.08
Envelope Rg envelope_rg18.26
Shape Rg shape_rg13.66
Total Rg total_rg14.34
Total atoms total_atoms11860
Residues n_residues770
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax51.8
Rg (real space) rg_real14.50
Rg uncertainty (real space) rg_real_error0.32
I(0) (real space) i0_real1.2320e+08
I(0) uncertainty (real space) i0_real_error1.4440e+06
Rg (reciprocal space) rg_reciprocal14.50
I(0) (reciprocal space) i0_reciprocal123200000.0000
Solution quality estimate total_estimate0.7545
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary17.0
Skewness Skewness skewness0.404
Kurtosis Kurtosis kurtosis-0.010
Angular range angular_range— – 0.5000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha318200.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.618; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.951; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (1)

8. Citations (1)

9. Files and Curves (10)