5v2p

CaV beta2a subunit: CaV1.2 AID-CAP complex

Method: X-RAY DIFFRACTION Dmax: 93.1 Å Quality: GOOD

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

Voltage-dependent L-type calcium channel subunit beta-2

Rattus norvegicus

UniProt Q8VGC3

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 heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain A; UniProt 24–145 Chain A; UniProt 254–476 Fragment:beta2a subunit (UNP residues 24-145,254-476) Voltage-dependent L-type calcium channel subunit alpha-1C × 1 (Q13936) NI NICKEL (II) ION × 1 1PE PENTAETHYLENE GLYCOL × 2 8VY 1,3-bis(bromomethyl)benzene × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 6.3;277 K;34-37% PEG400, 0.1 M magnesium chloride, 0.1 M MES, pH 6.3 Resolution 2.00 Å R-free 0.230

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.

4 other PDB entries and 6 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CACB2_RAT
Isoform Q8VGC3-4
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–123; UniProt 24–145 Author chain A; PDBConstruct 125–347; UniProt 254–476

Voltage-dependent L-type calcium channel subunit alpha-1C

OrganismNot specified

UniProt Q13936

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 heterocomplex Heteromer Protein × 2 PDB declaration: dimeric(2) Consistent with protein copy count Chain B; UniProt 427–445 Fragment:AID-CAP (UNP residues 427-445) Mutation:K427C, Q428S, Q429P, E432C Voltage-dependent L-type calcium channel subunit beta-2 × 1 (Q8VGC3) NI NICKEL (II) ION × 1 1PE PENTAETHYLENE GLYCOL × 2 8VY 1,3-bis(bromomethyl)benzene × 1 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 6.3;277 K;34-37% PEG400, 0.1 M magnesium chloride, 0.1 M MES, pH 6.3 Resolution 2.00 Å R-free 0.230

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.

23 other PDB entries and 39 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CAC1C_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–19; UniProt 427–445

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 5v2p

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5v2p
Download Download

2. Structure Basics 2. Structure Basics

Entry ID entry_id5v2p
Deposition date deposition_date2017-03-06
Structure title titleCaV beta2a subunit: CaV1.2 AID-CAP complex
Keywords keywordsion channel, signaling, calcium, TRANSPORT PROTEIN; TRANSPORT PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier24.83
Radius of gyration Rg (electron density) rg_electron24.03
Forward intensity I(0) i020078700.00
Molecular weight molecular_weight34235.0 kDa
Excluded volume excluded_volume42998 ų
Envelope volume envelope_volume53521 ų
Hydration-shell volume shell_volume20167 ų
Envelope diameter envelope_diameter96.5
Shell Rg shell_rg28.87
Envelope Rg envelope_rg24.82
Shape Rg shape_rg23.99
Total Rg total_rg24.77
Total atoms total_atoms2407
Residues n_residues306
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 dmax93.1
Rg (real space) rg_real25.15
Rg uncertainty (real space) rg_real_error0.89
I(0) (real space) i0_real2.0080e+07
I(0) uncertainty (real space) i0_real_error2.9520e+05
Rg (reciprocal space) rg_reciprocal25.08
I(0) (reciprocal space) i0_reciprocal20080000.0000
Solution quality estimate total_estimate0.7767
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary23.6
Skewness Skewness skewness0.641
Kurtosis Kurtosis kurtosis0.032
Angular range angular_range— – 0.3200 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha3772000.0000
Real-space data points n_real_points64
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.551; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.474; Smooth: 0.964

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (6)

7. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id5v2pA01
Class class2 — Mainly Beta
Architecture architecture30 — Roll
Topology topology30 — SH3 type barrels.
Homologous superfamily homologous superfamily40 — SH3 Domains
Domain ID domain_id5v2pA02
Class class3 — Alpha Beta
Architecture architecture40 — 3-Layer(aba) Sandwich
Topology topology50 — Rossmann fold
Homologous superfamily homologous superfamily300 — P-loop containing nucleotide triphosphate hydrolases

8. Citations (1)

9. Files and Curves (10)