9cqu

Human OxyHb (C1 symmetry) obtained using the SPT Labtech chameleon In the presence of 20 mM sodium dithionite under Al's oil

Method: ELECTRON MICROSCOPY Dmax: 70.3 Å Quality: EXCELLENT

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

Hemoglobin subunit alpha

OrganismNot specified

UniProt P69905

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 3–141 Chain C; UniProt 3–141 Not recorded Hemoglobin subunit beta × 2 (P68871) HEM PROTOPORPHYRIN IX CONTAINING FE × 4 OXY OXYGEN MOLECULE × 2 ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 cryo-EM vitrification conditions:Cryogen ETHANE;Samples were frozen with the SPT Labtech chameleon Resolution 2.72 Å

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.

348 other PDB entries and 412 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name HBA_HUMAN
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–139; UniProt 3–141 Author chain C; PDBConstruct 1–139; UniProt 3–141

Hemoglobin subunit beta

OrganismNot specified

UniProt P68871

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 3–147 Chain D; UniProt 3–147 Not recorded Hemoglobin subunit alpha × 2 (P69905) HEM PROTOPORPHYRIN IX CONTAINING FE × 4 OXY OXYGEN MOLECULE × 2 ELECTRON MICROSCOPY cryo-EM buffer:pH 7.5 cryo-EM vitrification conditions:Cryogen ETHANE;Samples were frozen with the SPT Labtech chameleon Resolution 2.72 Å

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.

343 other PDB entries and 399 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name HBB_HUMAN
Isoform
PDB entities 2
Chains and sequence ranges Author chain B; PDBConstruct 1–145; UniProt 3–147 Author chain D; PDBConstruct 1–145; UniProt 3–147

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 9cqu

P(r) Distance Distribution P(r) Distribution

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

Entry ID entry_id9cqu
Deposition date deposition_date2024-07-19
Structure title titleHuman OxyHb (C1 symmetry) obtained using the SPT Labtech chameleon In the presence of 20 mM sodium dithionite under Al's oil
Keywords keywordsHemoglobin, anaerobic, oxygen, heme, OXYGEN BINDING; OXYGEN BINDING
Experimental Method methodELECTRON MICROSCOPY

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

Radius of gyration Rg (Guinier) rg_guinier24.67
Radius of gyration Rg (electron density) rg_electron23.43
Forward intensity I(0) i061708300.00
Molecular weight molecular_weight63612.0 kDa
Excluded volume excluded_volume80442 ų
Envelope volume envelope_volume94129 ų
Hydration-shell volume shell_volume32342 ų
Envelope diameter envelope_diameter71.3
Shell Rg shell_rg31.37
Envelope Rg envelope_rg23.17
Shape Rg shape_rg23.42
Total Rg total_rg24.34
Total atoms total_atoms4496
Residues n_residues568
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 dmax70.3
Rg (real space) rg_real24.44
Rg uncertainty (real space) rg_real_error0.27
I(0) (real space) i0_real6.1710e+07
I(0) uncertainty (real space) i0_real_error7.9360e+05
Rg (reciprocal space) rg_reciprocal24.49
I(0) (reciprocal space) i0_reciprocal61710000.0000
Solution quality estimate total_estimate0.9142
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary32.4
Skewness Skewness skewness0.044
Kurtosis Kurtosis kurtosis-0.547
Angular range angular_range— – 0.3200 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha15420000.0000
Real-space data points n_real_points64
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.972; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.973; Smooth: 0.991

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (5)

8. Citations (1)

9. Files and Curves (10)