3CIU | pdb_00003ciu

Site-Selective Glycosylation of Cysteine-93 beta on the Surface of Bovine Hemoglobin and its Application as a Novel Oxygen Therapeutic

• PDB DOI: https://doi.org/10.2210/pdb3CIU/pdb

• Classification: OXYGEN BINDING
• Organism(s): Bos taurus
• Mutation(s): No 


• Deposited: 2008-03-11 Released: 2008-04-15 
• Deposition Author(s): Bhatt, V.S., Zhang, Y., Sun, G., Wang, P.G., Palmer, A.F.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free: 
  0.332 (Depositor), 0.300 (DCC) 
• R-Value Work: 
  0.268 (Depositor), 0.250 (DCC) 
• R-Value Observed: 
  0.271 (Depositor) 

Starting Model: experimental

Literature

Site-Selective Glycosylation of Cysteine-93 beta on the Surface of Bovine Hemoglobin and its Application as a Novel Oxygen Therapeutic

Bhatt, V.S., Zhang, Y., Sun, G., Wang, P.G., Palmer, A.F.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Hetero 4-mer - A2B2 Pseudo Symmetry: Dihedral - D2  (Explore in 3D)
Pseudo Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 65.29 kDa 
• Atom Count: 4,579 
• Modeled Residue Count: 571 
• Deposited Residue Count: 572 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemoglobin subunit alpha	A, C	141	Bos taurus	Mutation(s): 0  Gene Names: HBA
UniProt
Find proteins for P01966 (Bos taurus) Explore P01966  Go to UniProtKB:  P01966

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemoglobin subunit beta	B, D	145	Bos taurus	Mutation(s): 0  Gene Names: HBB
UniProt
Find proteins for P02070 (Bos taurus) Explore P02070  Go to UniProtKB:  P02070

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
5DP	I [auth B]	5-(2,5-dioxopyrrolidin-1-yl)-N-[2-(2-{2-[(4-O-alpha-D-idopyranosyl-alpha-D-mannopyranosyl)oxy]ethoxy}ethoxy)ethyl]pentanamide C27 H46 N2 O16 GIIWJKKPIBKANP-SLHLUNFVSA-N
HEM	E [auth A], G [auth B], J [auth C], L [auth D]	PROTOPORPHYRIN IX CONTAINING FE C34 H32 Fe N4 O4 KABFMIBPWCXCRK-RGGAHWMASA-L
O	F [auth A], H [auth B], K [auth C], M [auth D]	OXYGEN ATOM O XLYOFNOQVPJJNP-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.50 Å
• R-Value Free:  0.332 (Depositor), 0.300 (DCC) 
• R-Value Work:  0.268 (Depositor), 0.250 (DCC) 
• R-Value Observed: 0.271 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.604	α = 90
b = 73.982	β = 90
c = 129.796	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
CrystalClear	data collection
CrystalClear	data reduction
CrystalClear	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-04-15 
Deposition Author(s): Bhatt, V.S., Zhang, Y., Sun, G., Wang, P.G., Palmer, A.F.

Revision History  

• Version 1.0: 2008-04-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2023-08-30
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.3: 2024-10-16
  Changes: Structure summary