5ajj

Crystal structure of variola virus virulence factor F1L in complex with human Bid BH3 domain

Method: X-RAY DIFFRACTION Dmax: 62.4 Å Quality: GOOD

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

HOMOLOG OF VACCINIA VIRUS CDS F1L PUTATIVE

VARIOLA VIRUS

UniProt Q85365

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 × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 39–201 Fragment:UNP RESIDUES 39-201 BH3-INTERACTING DOMAIN DEATH AGONIST × 2 (P55957) GOL GLYCEROL × 2 ACT ACETATE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:pH 6.5;1.8 M SODIUM ACETATE AND 0.1 M HEPES PH 6.5 Resolution 1.75 Å R-free 0.208

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.

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

View Construct and Data Evidence
UniProt name Q85365_VARV
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 6–168; UniProt 39–201

BH3-INTERACTING DOMAIN DEATH AGONIST

HOMO SAPIENS

UniProt P55957

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 × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain B; UniProt 79–112 Fragment:UNP RESIDUES 79-112 HOMOLOG OF VACCINIA VIRUS CDS F1L PUTATIVE × 2 (Q85365) GOL GLYCEROL × 2 ACT ACETATE ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:pH 6.5;1.8 M SODIUM ACETATE AND 0.1 M HEPES PH 6.5 Resolution 1.75 Å R-free 0.208

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.

13 other PDB entries and 18 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name BID_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–34; UniProt 79–112

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 5ajj

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5ajj
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2. Structure Basics 2. Structure Basics

Entry ID entry_id5ajj
Deposition date deposition_date2015-02-25
Structure title titleCrystal structure of variola virus virulence factor F1L in complex with human Bid BH3 domain
Keywords keywordsVIRAL PROTEIN, BCL-2, APOPTOSIS, POXVIRUS, BID; VIRAL PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier18.61
Radius of gyration Rg (electron density) rg_electron17.52
Forward intensity I(0) i07424870.00
Molecular weight molecular_weight19418.0 kDa
Excluded volume excluded_volume24136 ų
Envelope volume envelope_volume30246 ų
Hydration-shell volume shell_volume15102 ų
Envelope diameter envelope_diameter61.8
Shell Rg shell_rg22.90
Envelope Rg envelope_rg17.56
Shape Rg shape_rg17.53
Total Rg total_rg18.43
Total atoms total_atoms2682
Residues n_residues167
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 dmax62.4
Rg (real space) rg_real18.56
Rg uncertainty (real space) rg_real_error0.53
I(0) (real space) i0_real7.4250e+06
I(0) uncertainty (real space) i0_real_error9.8410e+04
Rg (reciprocal space) rg_reciprocal18.56
I(0) (reciprocal space) i0_reciprocal7425000.0000
Solution quality estimate total_estimate0.7936
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks3
Primary peak position r_peak_primary22.2
Skewness Skewness skewness0.227
Kurtosis Kurtosis kurtosis-0.338
Angular range angular_range— – 0.4250 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha714000.0000
Real-space data points n_real_points74
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.783; Stabil: 0.989; Sysdev: 1.000; Positv: 1.000; Valcen: 0.997; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

8. Citations (1)

9. Files and Curves (10)