9xpi

Crystal Structure of Redesigned HasAsm Variant (48-mutation) with Heme

Method: X-RAY DIFFRACTION Dmax: 52.5 Å Quality: EXCELLENT

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

Hemophore HasA

Serratia marcescens

UniProt Q54450

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 1–176 Mutation:;F11L, G12A, G13N, Y14L, S15T, I16L, H17A, D18E, Y19F, L20F, G21N, Q22E, T26Y, N41S, S58T, A61K, N62D, Q63G, N79S, E80P, Q88T, S91A, S93T, D96N, T103S, S104T, Q109V, V110N, D112E, S114T, G116S, L120W, S121T, L123E, A125E, Q126E, Q134K, V136I, G145T, E148L, T149Q, G153S, I154L, D156K, D157Q, V162I, Q168E, V169I ; HEM PROTOPORPHYRIN IX CONTAINING FE × 1 ACT ACETATE ION × 3 ZN ZINC ION × 6 X-RAY DIFFRACTION X-ray crystallization conditions:VAPOR DIFFUSION, SITTING DROP;pH 8;293 K;0.1M imidazole-HCl, 2.5M NaCl, 0.2M Zinc acetate Resolution 2.16 Å R-free 0.255

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 20 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name HASA_SERMA
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–176; UniProt 1–176

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 9xpi

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9xpi
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2. Structure Basics 2. Structure Basics

Entry ID entry_id9xpi
Deposition date deposition_date2025-11-16
最后修订 last_revision2026-03-04
Structure title titleCrystal Structure of Redesigned HasAsm Variant (48-mutation) with Heme
Keywords keywordsHeme transport protein, TRANSPORT PROTEIN; TRANSPORT PROTEIN
Experimental Method methodX-RAY DIFFRACTION

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

Radius of gyration Rg (Guinier) rg_guinier16.92
Radius of gyration Rg (electron density) rg_electron15.55
Forward intensity I(0) i07522070.00
Molecular weight molecular_weight19482.0 kDa
Excluded volume excluded_volume23943 ų
Envelope volume envelope_volume26299 ų
Hydration-shell volume shell_volume14357 ų
Envelope diameter envelope_diameter52.5
Shell Rg shell_rg21.34
Envelope Rg envelope_rg15.77
Shape Rg shape_rg15.47
Total Rg total_rg16.74
Total atoms total_atoms2604
Residues n_residues175
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 dmax52.5
Rg (real space) rg_real16.81
Rg uncertainty (real space) rg_real_error0.23
I(0) (real space) i0_real7.5220e+06
I(0) uncertainty (real space) i0_real_error8.9450e+04
Rg (reciprocal space) rg_reciprocal16.82
I(0) (reciprocal space) i0_reciprocal7522000.0000
Solution quality estimate total_estimate0.9009
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary22.1
Skewness Skewness skewness0.104
Kurtosis Kurtosis kurtosis-0.437
Angular range angular_range— – 0.4700 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha892700.0000
Real-space data points n_real_points77
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.915; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.990; Smooth: 0.971

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

8. Citations (1)

9. Files and Curves (10)