1k09

Solution structure of BetaCore, A Designed Water Soluble Four-Stranded Antiparallel b-sheet Protein

Method: SOLUTION NMR Dmax: 43.8 Å Quality: GOOD

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

Core Module I

OrganismNot specified

UniProt P00974

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 homooligomer Homooligomer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 49–73 Chain B; UniProt 49–73 Non-standard monomer:Yes (specific site not provided by mmCIF) C55 (7E)-4,9-dioxo-6-oxa-3,7,10-triazadodec-7-ene-1,12-dioic acid × 1 SOLUTION NMR NMR measurement conditions:pH 3;278 K;Pressure ambient NMR measurement conditions:pH 3;288 K;Pressure ambient NMR sample composition:0.4 mM BetaCore selectively-15N; pH3; 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.

123 other PDB entries and 265 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name BPT1_BOVIN
Isoform
PDB entities 1, 2
Chains and sequence ranges Author chain A; PDBConstruct 1–25; UniProt 49–73 Author chain B; PDBConstruct 1–25; UniProt 49–73

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 1k09

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1k09
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1k09
Deposition date deposition_date2001-09-18
Structure title titleSolution structure of BetaCore, A Designed Water Soluble Four-Stranded Antiparallel b-sheet Protein
Keywords keywordsFOUR-STRANDED ANTIPARALLEL BETA-SHEET, DE NOVO PROTEIN; DE NOVO PROTEIN
Experimental Method methodSOLUTION NMR

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

Radius of gyration Rg (Guinier) rg_guinier12.17
Radius of gyration Rg (electron density) rg_electron11.93
Forward intensity I(0) i0188124000.00
Molecular weight molecular_weight118720.0 kDa
Excluded volume excluded_volume149920 ų
Envelope volume envelope_volume21341 ų
Hydration-shell volume shell_volume12525 ų
Envelope diameter envelope_diameter48.7
Shell Rg shell_rg20.27
Envelope Rg envelope_rg14.99
Shape Rg shape_rg11.76
Total Rg total_rg12.79
Total atoms total_atoms16480
Residues n_residues920
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 dmax43.8
Rg (real space) rg_real12.26
Rg uncertainty (real space) rg_real_error0.39
I(0) (real space) i0_real1.8810e+08
I(0) uncertainty (real space) i0_real_error1.9580e+06
Rg (reciprocal space) rg_reciprocal12.25
I(0) (reciprocal space) i0_reciprocal188100000.0000
Solution quality estimate total_estimate0.8281
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary12.8
Skewness Skewness skewness0.482
Kurtosis Kurtosis kurtosis-0.304
Angular range angular_range— – 0.5000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha133600.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.707; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.654; Smooth: 0.987

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd1k09a_
Class classk — Designed proteins
Fold Fold foldk.35 — Beta-sheet designs
Superfamily Superfamily superfamilyk.35.1 — Beta-sheet designs
Family Family familyk.35.1.1 — Beta-sheet designs
Domain ID domain_idd1k09b_
Class classk — Designed proteins
Fold Fold foldk.35 — Beta-sheet designs
Superfamily Superfamily superfamilyk.35.1 — Beta-sheet designs
Family Family familyk.35.1.1 — Beta-sheet designs

8. Citations (1)

9. Files and Curves (10)