4reb

Structural Insights into 5' Flap DNA Unwinding and Incision by the Human FAN1 Dimer

Method: X-RAY DIFFRACTION Dmax: 141.5 Å Quality: GOOD

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

Fanconi-associated nuclease 1

Homo sapiens

UniProt Q9Y2M0

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–DNA Homooligomer Protein × 2 DNA 3 PDB declaration: pentameric(5) Consistent with all polymer counts Chain A; UniProt 373–1017 Chain H; UniProt 373–1017 Fragment:UNP residues 373-1017 Mutation:D960A ;DNA (5'-D(P*GP*TP*GP*GP*CP*GP*AP*GP*C)-3') ; × 1 ;DNA (5'-D(P*CP*GP*TP*GP*GP*CP*GP*AP*GP*CP*GP*CP*TP*CP*GP*CP*CP*AP*CP*G)-3') ; × 1 ;DNA (5'-D(P*GP*CP*TP*CP*GP*CP*CP*AP*CP*G)-3') ; × 1 SM SAMARIUM (III) ION × 2 X-RAY DIFFRACTION X-ray crystallization conditions:micro-batch under oil;300 K;0.1mM spermidine, 1% 1,6-Hexanediol, 22-24% PEG 3350, 0.1M BisTris Propane, micro-batch under oil, temperature 300K Resolution 4.20 Å R-free 0.262

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.

17 other PDB entries and 25 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name FAN1_HUMAN
Isoform
PDB entities 4
Chains and sequence ranges Author chain A; PDBConstruct 3–647; UniProt 373–1017 Author chain H; PDBConstruct 3–647; UniProt 373–1017

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 4reb

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 4reb
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2. Structure Basics 2. Structure Basics

Entry ID entry_id4reb
Deposition date deposition_date2014-09-22
Structure title titleStructural Insights into 5' Flap DNA Unwinding and Incision by the Human FAN1 Dimer
Keywords keywordsHJC, TPR, SAP, structure specific nuclease, FANCID2, nucleus, Hydrolase-DNA complex; Hydrolase/DNA
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier43.53
Radius of gyration Rg (electron density) rg_electron43.85
Forward intensity I(0) i0343298000.00
Molecular weight molecular_weight144330.0 kDa
Excluded volume excluded_volume177790 ų
Envelope volume envelope_volume271880 ų
Hydration-shell volume shell_volume54572 ų
Envelope diameter envelope_diameter144.0
Shell Rg shell_rg46.11
Envelope Rg envelope_rg41.92
Shape Rg shape_rg43.89
Total Rg total_rg43.84
Total atoms total_atoms10098
Residues n_residues1189
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 dmax141.5
Rg (real space) rg_real43.63
Rg uncertainty (real space) rg_real_error1.04
I(0) (real space) i0_real3.4330e+08
I(0) uncertainty (real space) i0_real_error6.0080e+06
Rg (reciprocal space) rg_reciprocal43.53
I(0) (reciprocal space) i0_reciprocal343300000.0000
Solution quality estimate total_estimate0.8779
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary47.2
Skewness Skewness skewness0.349
Kurtosis Kurtosis kurtosis-0.549
Angular range angular_range— – 0.1800 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha23310000.0000
Real-space data points n_real_points37
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.919; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.982; Smooth: 0.670

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

8. Citations (1)

9. Files and Curves (10)