7WUZ | pdb_00007wuz

Structural study of the complex of cblC methylmalonic aciduria and homocysteinuria-related protein MMACHC with cyanocobalamin

• PDB DOI: https://doi.org/10.2210/pdb7WUZ/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-02-09 Released: 2023-02-15 
• Deposition Author(s): Feng, Y., Qin, X.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.93 Å
• R-Value Free: 
  0.207 (Depositor), 0.206 (DCC) 
• R-Value Work: 
  0.165 (Depositor), 0.165 (DCC) 
• R-Value Observed: 
  0.167 (Depositor) 

Literature

Structural study of the complex of cblC methylmalonic aciduria and homocysteinuria-related protein MMACHC with cyanocobalamin

Feng, Y., Qin, X.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 29.19 kDa 
• Atom Count: 2,277 
• Modeled Residue Count: 241 
• Deposited Residue Count: 241 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cyanocobalamin reductase / alkylcobalamin dealkylase	A	241	Homo sapiens	Mutation(s): 0  Gene Names: MMACHC EC: 2.5.1.151 (PDB Primary Data), 1.16.1.6 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y4U1 (Homo sapiens) Explore Q9Y4U1  Go to UniProtKB:  Q9Y4U1
PHAROS:  Q9Y4U1 GTEx:  ENSG00000132763

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CNC (Subject of Investigation/LOI)	B [auth A]	CYANOCOBALAMIN C63 H89 Co N14 O14 P SYZBZQWSWIJYAR-UVKKECPRSA-M
TLA (Subject of Investigation/LOI)	C [auth A]	L(+)-TARTARIC ACID C4 H6 O6 FEWJPZIEWOKRBE-JCYAYHJZSA-N
SO4 (Subject of Investigation/LOI)	D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.93 Å
• R-Value Free:  0.207 (Depositor), 0.206 (DCC) 
• R-Value Work:  0.165 (Depositor), 0.165 (DCC) 
• R-Value Observed: 0.167 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.968	α = 90
b = 96.327	β = 111.06
c = 47.257	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
HKL-2000	data reduction
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-02-15 
Deposition Author(s): Feng, Y., Qin, X.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	31100529

Revision History  

• Version 1.0: 2023-02-15
  Type: Initial release
  
• Version 1.1: 2024-05-29
  Changes: Data collection