4AP8 | pdb_00004ap8

Crystal structure of human Molybdopterin synthase catalytic subunit (MOCS2B)

• PDB DOI: https://doi.org/10.2210/pdb4AP8/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2012-03-30 Released: 2012-08-29 
• Deposition Author(s): Vollmar, M., Kiyani, W., Krojer, T., Goubin, S., Allerston, C., Froese, D.S., von Delft, F., Burgess-Brown, N., Bountra, C., Arrowsmith, C.H., Edwards, A., Yue, W.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.78 Å
• R-Value Free: 
  0.199 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.172 (Depositor), 0.175 (DCC) 
• R-Value Observed: 
  0.173 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Human Molybdopterin Synthase Catalytic Subunit (Mocs2B)

Vollmar, M., Kiyani, W., Krojer, T., Goubin, S., Allerston, C., Froese, D.S., von Delft, F., Burgess-Brown, N., Bountra, C., Arrowsmith, C.H., Edwards, A., Yue, W.W.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 3 assigned by authors and generated by PISA (software)

Biological Assembly 4  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 4 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 60.87 kDa 
• Atom Count: 4,249 
• Modeled Residue Count: 535 
• Deposited Residue Count: 540 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MOLYBDOPTERIN SYNTHASE CATALYTIC SUBUNIT	A, B, C, D	135	Homo sapiens	Mutation(s): 0  EC: 2.8.1.12
UniProt & NIH Common Fund Data Resources
Find proteins for O96007 (Homo sapiens) Explore O96007  Go to UniProtKB:  O96007
PHAROS:  O96007 GTEx:  ENSG00000164172

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	E [auth A], H [auth B], I [auth C], J [auth D]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO	F [auth A], G [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.78 Å
• R-Value Free:  0.199 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.172 (Depositor), 0.175 (DCC) 
• R-Value Observed: 0.173 (Depositor) 

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 138.968	α = 90
b = 138.968	β = 90
c = 159.574	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-08-29 
Deposition Author(s): Vollmar, M., Kiyani, W., Krojer, T., Goubin, S., Allerston, C., Froese, D.S., von Delft, F., Burgess-Brown, N., Bountra, C., Arrowsmith, C.H., Edwards, A., Yue, W.W.

Revision History  

• Version 1.0: 2012-08-29
  Type: Initial release
  
• Version 1.1: 2012-10-03
  Changes: Derived calculations
• Version 1.2: 2013-06-05
  Changes: Derived calculations
• Version 1.3: 2018-01-24
  Changes: Database references
• Version 1.4: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description