1pq1

Crystal structure of Bcl-xl/Bim

Method: X-RAY DIFFRACTION Dmax: 58.5 Å Quality: GOOD

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

Apoptosis regulator Bcl-X

Mus musculus

UniProt Q64373

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 1–196 Fragment:BIM BCL2-like protein 11 × 1 (O54918) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 4.5;298 K;NH4H2PO4, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K Resolution 1.65 Å R-free 0.237

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 20 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name BCLX_MOUSE
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–196; UniProt 1–196

BCL2-like protein 11

Mus musculus

UniProt O54918

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 83–115 Not recorded Apoptosis regulator Bcl-X × 1 (Q64373) X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, HANGING DROP;pH 4.5;298 K;NH4H2PO4, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K Resolution 1.65 Å R-free 0.237

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 BIM_MOUSE
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–33; UniProt 83–115

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 1pq1

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1pq1
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2. Structure Basics 2. Structure Basics

Entry ID entry_id1pq1
Deposition date deposition_date2003-06-17
Structure title titleCrystal structure of Bcl-xl/Bim
Keywords keywordsBcl-xl/Bim, APOPTOSIS; APOPTOSIS
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier17.22
Radius of gyration Rg (electron density) rg_electron15.79
Forward intensity I(0) i08080240.00
Molecular weight molecular_weight20617.0 kDa
Excluded volume excluded_volume25662 ų
Envelope volume envelope_volume28979 ų
Hydration-shell volume shell_volume15370 ų
Envelope diameter envelope_diameter59.6
Shell Rg shell_rg21.88
Envelope Rg envelope_rg16.31
Shape Rg shape_rg15.77
Total Rg total_rg16.89
Total atoms total_atoms1458
Residues n_residues180
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 dmax58.5
Rg (real space) rg_real17.13
Rg uncertainty (real space) rg_real_error0.39
I(0) (real space) i0_real8.0800e+06
I(0) uncertainty (real space) i0_real_error1.0440e+05
Rg (reciprocal space) rg_reciprocal17.14
I(0) (reciprocal space) i0_reciprocal8080000.0000
Solution quality estimate total_estimate0.7746
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks3
Primary peak position r_peak_primary23.1
Skewness Skewness skewness0.233
Kurtosis Kurtosis kurtosis-0.092
Angular range angular_range— – 0.4600 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha1943000.0000
Real-space data points n_real_points77
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.689; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 1.000; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 3 domains

SCOP 2.08 (2 domains)

Domain ID domain_idd1pq1a_
Class classf — Membrane and cell surface proteins and peptides
Fold Fold foldf.1 — Toxins' membrane translocation domains
Superfamily Superfamily superfamilyf.1.4 — Bcl-2 inhibitors of programmed cell death
Family Family familyf.1.4.1 — Bcl-2 inhibitors of programmed cell death
Domain ID domain_idd1pq1b_
Class classj — Peptides
Fold Fold foldj.35 — Transmembrane helical fragments
Superfamily Superfamily superfamilyj.35.1 — Transmembrane helical fragments
Family Family familyj.35.1.1 — Transmembrane helical fragments

CATH v4.4 (1 domains)

Domain ID domain_id1pq1A00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology437 — Apoptosis Regulator Bcl-x
Homologous superfamily homologous superfamily10 — Blc2-like

8. Citations (1)

9. Files and Curves (10)