1opd

HISTIDINE-CONTAINING PROTEIN (HPR), MUTANT WITH SER 46 REPLACED BY ASP (S46D)

Method: X-RAY DIFFRACTION Dmax: 44.1 Å Quality: GOOD

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

HISTIDINE-CONTAINING PROTEIN

Escherichia coli

UniProt P0AA04

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 1–85 Mutation:S46D SO4 SULFATE ION × 1 X-RAY DIFFRACTION mmCIF provides none of the parsed experimental conditions Resolution 1.50 Å R-free 0.234

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.

22 other PDB entries and 28 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name PTHP_ECOLI
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–85; UniProt 1–85

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 1opd

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id1opd
Deposition date deposition_date1996-08-01
Structure title titleHISTIDINE-CONTAINING PROTEIN (HPR), MUTANT WITH SER 46 REPLACED BY ASP (S46D)
Keywords keywordsPHOSPHOTRANSFERASE, HISTIDINE; PHOSPHOTRANSFERASE
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier13.46
Radius of gyration Rg (electron density) rg_electron11.84
Forward intensity I(0) i01910360.00
Molecular weight molecular_weight9240.0 kDa
Excluded volume excluded_volume11531 ų
Envelope volume envelope_volume12868 ų
Hydration-shell volume shell_volume9444 ų
Envelope diameter envelope_diameter41.8
Shell Rg shell_rg17.40
Envelope Rg envelope_rg12.09
Shape Rg shape_rg11.83
Total Rg total_rg13.25
Total atoms total_atoms647
Residues n_residues85
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 dmax44.1
Rg (real space) rg_real13.37
Rg uncertainty (real space) rg_real_error0.29
I(0) (real space) i0_real1.9100e+06
I(0) uncertainty (real space) i0_real_error2.0510e+04
Rg (reciprocal space) rg_reciprocal13.38
I(0) (reciprocal space) i0_reciprocal1910000.0000
Solution quality estimate total_estimate0.8776
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary17.9
Skewness Skewness skewness0.128
Kurtosis Kurtosis kurtosis-0.297
Angular range angular_range— – 0.5000 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha312000.0000
Real-space data points n_real_points80
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.809; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.999; Smooth: 0.977

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 2 domains

SCOP 2.08 (1 domains)

Domain ID domain_idd1opda_
Class classd — Alpha and beta proteins (a+b)
Fold Fold foldd.94 — HPr-like
Superfamily Superfamily superfamilyd.94.1 — HPr-like
Family Family familyd.94.1.1 — HPr-like

CATH v4.4 (1 domains)

Domain ID domain_id1opdA00
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology1340 — Histidine-containing Protein; Chain: A;
Homologous superfamily homologous superfamily10 — HPr-like

8. Citations (2)

9. Files and Curves (10)