8x91

P/Q type calcium channel in complex with omega-conotoxin MVIIC

Method: ELECTRON MICROSCOPY Dmax: 209.2 Å Quality: REASONABLE

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

Voltage-dependent L-type calcium channel subunit beta-3

Homo sapiens

UniProt P54284

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Heteromer Protein × 4 其他Polymer 5 PDB declaration: tetrameric(4) Consistent with protein copy count Chain C; UniProt 1–484 Not recorded Omega-conotoxin MVIIC × 1 (P37300) Voltage-dependent calcium channel subunit alpha-2/delta-1 × 1 (P54289) Voltage-dependent P/Q-type calcium channel subunit alpha-1A × 1 (O00555) ;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 3 ;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 CA CALCIUM ION × 3 CLR CHOLESTEROL × 5 PT5 [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate × 1 Y01 CHOLESTEROL HEMISUCCINATE × 3 3PE 1,2-Distearoyl-sn-glycerophosphoethanolamine × 2 ELECTRON MICROSCOPY cryo-EM buffer:pH 8 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.11 Å

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.

15 other PDB entries and 15 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CACB3_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain C; PDBConstruct 1–484; UniProt 1–484

Omega-conotoxin MVIIC

OrganismNot specified

UniProt P37300

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Heteromer Protein × 4 其他Polymer 5 PDB declaration: tetrameric(4) Consistent with protein copy count Chain X; UniProt 3–28 Not recorded Voltage-dependent L-type calcium channel subunit beta-3 × 1 (P54284) Voltage-dependent calcium channel subunit alpha-2/delta-1 × 1 (P54289) Voltage-dependent P/Q-type calcium channel subunit alpha-1A × 1 (O00555) ;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 3 ;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 CA CALCIUM ION × 3 CLR CHOLESTEROL × 5 PT5 [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate × 1 Y01 CHOLESTEROL HEMISUCCINATE × 3 3PE 1,2-Distearoyl-sn-glycerophosphoethanolamine × 2 ELECTRON MICROSCOPY cryo-EM buffer:pH 8 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.11 Å

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.

3 other PDB entries and 3 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name O17C_CONMA
Isoform
PDB entities 2
Chains and sequence ranges Author chain X; PDBConstruct 1–26; UniProt 3–28

Voltage-dependent calcium channel subunit alpha-2/delta-1

Homo sapiens

UniProt P54289

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Heteromer Protein × 4 其他Polymer 5 PDB declaration: tetrameric(4) Consistent with protein copy count Chain B; UniProt 1–1103 Not recorded Voltage-dependent L-type calcium channel subunit beta-3 × 1 (P54284) Omega-conotoxin MVIIC × 1 (P37300) Voltage-dependent P/Q-type calcium channel subunit alpha-1A × 1 (O00555) ;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 3 ;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 CA CALCIUM ION × 3 CLR CHOLESTEROL × 5 PT5 [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate × 1 Y01 CHOLESTEROL HEMISUCCINATE × 3 3PE 1,2-Distearoyl-sn-glycerophosphoethanolamine × 2 ELECTRON MICROSCOPY cryo-EM buffer:pH 8 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.11 Å

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.

29 other PDB entries and 29 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CA2D1_HUMAN
Isoform
PDB entities 3
Chains and sequence ranges Author chain B; PDBConstruct 1–1103; UniProt 1–1103

Voltage-dependent P/Q-type calcium channel subunit alpha-1A

Homo sapiens

UniProt O00555

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Other combination Heteromer Protein × 4 其他Polymer 5 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 1–2506 Not recorded Voltage-dependent L-type calcium channel subunit beta-3 × 1 (P54284) Omega-conotoxin MVIIC × 1 (P37300) Voltage-dependent calcium channel subunit alpha-2/delta-1 × 1 (P54289) ;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 3 ;2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose ; × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 CA CALCIUM ION × 3 CLR CHOLESTEROL × 5 PT5 [(2R)-1-octadecanoyloxy-3-[oxidanyl-[(1R,2R,3S,4R,5R,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phospho ryl]oxy-propan-2-yl] (8Z)-icosa-5,8,11,14-tetraenoate × 1 Y01 CHOLESTEROL HEMISUCCINATE × 3 3PE 1,2-Distearoyl-sn-glycerophosphoethanolamine × 2 ELECTRON MICROSCOPY cryo-EM buffer:pH 8 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.11 Å

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.

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

View Construct and Data Evidence
UniProt name CAC1A_HUMAN
Isoform
PDB entities 4
Chains and sequence ranges Author chain A; PDBConstruct 44–2549; UniProt 1–2506

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 8x91

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8x91
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2. Structure Basics 2. Structure Basics

Entry ID entry_id8x91
Deposition date deposition_date2023-11-29
Structure title titleP/Q type calcium channel in complex with omega-conotoxin MVIIC
Keywords keywordsvoltage-gated calcium channel in complex with toxins, MEMBRANE PROTEIN; MEMBRANE PROTEIN
Experimental Method methodELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier60.19
Radius of gyration Rg (electron density) rg_electron60.02
Forward intensity I(0) i01304990000.00
Molecular weight molecular_weight316270.0 kDa
Excluded volume excluded_volume401750 ų
Envelope volume envelope_volume629950 ų
Hydration-shell volume shell_volume93222 ų
Envelope diameter envelope_diameter227.4
Shell Rg shell_rg54.93
Envelope Rg envelope_rg61.06
Shape Rg shape_rg60.01
Total Rg total_rg59.90
Total atoms total_atoms22258
Residues n_residues2690
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 dmax209.2
Rg (real space) rg_real60.92
Rg uncertainty (real space) rg_real_error2.48
I(0) (real space) i0_real1.3050e+09
I(0) uncertainty (real space) i0_real_error2.9070e+07
Rg (reciprocal space) rg_reciprocal59.55
I(0) (reciprocal space) i0_reciprocal1302000000.0000
Solution quality estimate total_estimate0.6144
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary64.4
Skewness Skewness skewness0.664
Kurtosis Kurtosis kurtosis0.134
Angular range angular_range— – 0.1300 −1
Current regularization parameter α current_alpha0.0002
Highest regularization parameter α highest_alpha70730000.0000
Real-space data points n_real_points27
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.772; Stabil: 1.000; Sysdev: 0.025; Positv: 1.000; Valcen: 0.995; Smooth: 0.598

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (13)

8. Citations (1)

9. Files and Curves (10)