2bap

Crystal structure of the N-terminal mDia1 Armadillo Repeat Region and Dimerisation Domain in complex with the mDia1 autoregulatory domain (DAD)

Method: X-RAY DIFFRACTION Dmax: 142.3 Å Quality: REASONABLE

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

Diaphanous protein homolog 1

Mus musculus

UniProt O08808

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 × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 135–451 Chain C; UniProt 1145–1200 Fragment:mDia1 N-terminal regulatory domain Fragment:mDia1 autoregulatory domain, DAD No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7.1;293 K;3.7 M NaFormiate pH 7.1, 100 mM HEPES pH 7.1, 4% (w/v) PEG5000-MME, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 3.30 Å R-free 0.364
2 Protein homooligomer Homooligomer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain B; UniProt 135–451 Chain D; UniProt 1145–1200 Fragment:mDia1 N-terminal regulatory domain Fragment:mDia1 autoregulatory domain, DAD No other associated polymer X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 7.1;293 K;3.7 M NaFormiate pH 7.1, 100 mM HEPES pH 7.1, 4% (w/v) PEG5000-MME, VAPOR DIFFUSION, HANGING DROP, temperature 293K Resolution 3.30 Å R-free 0.364

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.

12 other PDB entries and 17 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name DIAP1_MOUSE
Isoform
PDB entities 1, 2
Chains and sequence ranges Author chain A; PDBConstruct 1–317; UniProt 135–451 Author chain B; PDBConstruct 1–317; UniProt 135–451 Author chain C; PDBConstruct 1–56; UniProt 1145–1200 Author chain D; PDBConstruct 1–56; UniProt 1145–1200

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 2bap

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 2bap
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2. Structure Basics 2. Structure Basics

Entry ID entry_id2bap
Deposition date deposition_date2005-10-14
Structure title titleCrystal structure of the N-terminal mDia1 Armadillo Repeat Region and Dimerisation Domain in complex with the mDia1 autoregulatory domain (DAD)
Keywords keywordsArmadillo Repeats, all helical, signaling protein; SIGNALING PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier37.02
Radius of gyration Rg (electron density) rg_electron37.65
Forward intensity I(0) i078842500.00
Molecular weight molecular_weight70951.0 kDa
Excluded volume excluded_volume88887 ų
Envelope volume envelope_volume131960 ų
Hydration-shell volume shell_volume31484 ų
Envelope diameter envelope_diameter149.1
Shell Rg shell_rg39.55
Envelope Rg envelope_rg38.91
Shape Rg shape_rg37.76
Total Rg total_rg37.42
Total atoms total_atoms4960
Residues n_residues621
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 dmax142.3
Rg (real space) rg_real37.74
Rg uncertainty (real space) rg_real_error2.43
I(0) (real space) i0_real7.8840e+07
I(0) uncertainty (real space) i0_real_error1.6770e+06
Rg (reciprocal space) rg_reciprocal37.29
I(0) (reciprocal space) i0_reciprocal78810000.0000
Solution quality estimate total_estimate0.7008
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks3
Primary peak position r_peak_primary29.8
Skewness Skewness skewness0.727
Kurtosis Kurtosis kurtosis0.074
Angular range angular_range— – 0.2150 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha20520000.0000
Real-space data points n_real_points44
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.401; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.176; Smooth: 0.728

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (2)

7. Fold Classification (SCOP + CATH) 6 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd2bapa1
Class classa — All alpha proteins
Fold Fold folda.118 — alpha-alpha superhelix
Superfamily Superfamily superfamilya.118.1 — ARM repeat
Family Family familya.118.1.23 — Diap1 N-terninal region-like
Domain ID domain_idd2bapb1
Class classa — All alpha proteins
Fold Fold folda.118 — alpha-alpha superhelix
Superfamily Superfamily superfamilya.118.1 — ARM repeat
Family Family familya.118.1.23 — Diap1 N-terninal region-like

CATH v4.4 (4 domains)

Domain ID domain_id2bapA01
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology10 — Leucine-rich Repeat Variant
Homologous superfamily homologous superfamily10 — Leucine-rich Repeat Variant
Domain ID domain_id2bapA02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology238 — Recoverin; domain 1
Homologous superfamily homologous superfamily150 — Formin, FH3 diaphanous domain
Domain ID domain_id2bapB01
Class class1 — Mainly Alpha
Architecture architecture25 — Alpha Horseshoe
Topology topology10 — Leucine-rich Repeat Variant
Homologous superfamily homologous superfamily10 — Leucine-rich Repeat Variant
Domain ID domain_id2bapB02
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology238 — Recoverin; domain 1
Homologous superfamily homologous superfamily150 — Formin, FH3 diaphanous domain

8. Citations (1)

9. Files and Curves (10)