1f4i

SOLUTION STRUCTURE OF THE HHR23A UBA(2) MUTANT P333E, DEFICIENT IN BINDING THE HIV-1 ACCESSORY PROTEIN VPR

Method: SOLUTION NMR Dmax: 29.2 Å Quality: REASONABLE

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

UV EXCISION REPAIR PROTEIN PROTEIN RAD23 HOMOLOG A

OrganismNot specified

UniProt P54725

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 monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 319–363 Fragment:C-TERMINAL UBA DOMAIN Mutation:P333E No other associated polymer SOLUTION NMR NMR measurement conditions:pH 6.5;300 K;Ionic strength (raw mmCIF value) 50mM sodium phosphate, 150mM sodium chloride;Pressure ambient NMR sample composition:2mM UBA(2) domain mutant P333E; 50mM phosphate buffer, 150mM sodium chloride; 90% H2O, 10% D2O | 90% H2O/10% D2O Resolution not provided

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.

16 other PDB entries and 19 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name RD23A_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–45; UniProt 319–363

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 1f4i

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 1f4i
Download Download

2. Structure Basics 2. Structure Basics

Entry ID entry_id1f4i
Deposition date deposition_date2000-06-07
Structure title titleSOLUTION STRUCTURE OF THE HHR23A UBA(2) MUTANT P333E, DEFICIENT IN BINDING THE HIV-1 ACCESSORY PROTEIN VPR
Keywords keywordsalpha helical bundle, DNA BINDING PROTEIN, TRANSCRIPTION; DNA BINDING PROTEIN,TRANSCRIPTION
Experimental Method methodSOLUTION NMR

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

Radius of gyration Rg (Guinier) rg_guinier11.02
Radius of gyration Rg (electron density) rg_electron10.47
Forward intensity I(0) i0170185000.00
Molecular weight molecular_weight108650.0 kDa
Excluded volume excluded_volume135180 ų
Envelope volume envelope_volume15050 ų
Hydration-shell volume shell_volume9781 ų
Envelope diameter envelope_diameter48.5
Shell Rg shell_rg18.88
Envelope Rg envelope_rg14.71
Shape Rg shape_rg10.47
Total Rg total_rg10.74
Total atoms total_atoms14973
Residues n_residues945
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 dmax29.2
Rg (real space) rg_real10.45
Rg uncertainty (real space) rg_real_error0.03
I(0) (real space) i0_real1.6270e+08
I(0) uncertainty (real space) i0_real_error9.3720e+05
Rg (reciprocal space) rg_reciprocal11.09
I(0) (reciprocal space) i0_reciprocal170200000.0000
Solution quality estimate total_estimate0.6658
Solution quality rating solution_quality REASONABLE a REASONABLE solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary13.7
Skewness Skewness skewness0.206
Kurtosis Kurtosis kurtosis-0.219
Angular range angular_range— – 0.5000 −1
Current regularization parameter α current_alpha4.5340
Highest regularization parameter α highest_alpha37310.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.001; Oscil: 0.915; Stabil: 0.972; Sysdev: 0.000; Positv: 1.000; Valcen: 0.996; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (1)

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd1f4ia_
Class classa — All alpha proteins
Fold Fold folda.5 — RuvA C-terminal domain-like
Superfamily Superfamily superfamilya.5.2 — UBA-like
Family Family familya.5.2.1 — UBA domain

CATH v4.4 (1 domains)

Domain ID domain_id1f4iA00
Class class1 — Mainly Alpha
Architecture architecture10 — Orthogonal Bundle
Topology topology8 — Helicase, Ruva Protein; domain 3
Homologous superfamily homologous superfamily10 — Ubiquitin-associated (UBA) domain

8. Citations (2)

9. Files and Curves (10)