8GSM | pdb_00008gsm

Crystal Structure of VibMO1

• PDB DOI: https://doi.org/10.2210/pdb8GSM/pdb

• Classification: BIOSYNTHETIC PROTEIN
• Organism(s): Boreostereum vibrans
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-09-06 Released: 2023-09-13 
• Deposition Author(s): Ying, Z., Feng, K.N.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.88 Å
• R-Value Free: 
  0.293 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.234 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.236 (Depositor) 

Literature

Crystal Structure of VibMO1

Ying, Z., Feng, K.N.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Biological Assembly 3  

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

Biological assembly 3 assigned by authors.

Biological Assembly 4  

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

Biological assembly 4 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 208.14 kDa 
• Atom Count: 13,940 
• Modeled Residue Count: 1,759 
• Deposited Residue Count: 1,860 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
4-hydroxybenzoate decarboxylase	A [auth G], B [auth H], C [auth I], D [auth J]	465	Boreostereum vibrans	Mutation(s): 0  Gene Names: MO1
UniProt
Find proteins for A0A167KUL3 (Boreostereum vibrans) Explore A0A167KUL3  Go to UniProtKB:  A0A167KUL3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FAD	E [auth G], F [auth I]	FLAVIN-ADENINE DINUCLEOTIDE C27 H33 N9 O15 P2 VWWQXMAJTJZDQX-UYBVJOGSSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.88 Å
• R-Value Free:  0.293 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.234 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.236 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 120.43	α = 90
b = 127.78	β = 90
c = 146.45	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-09-13 
Deposition Author(s): Ying, Z., Feng, K.N.

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

Revision History  

• Version 1.0: 2023-09-13
  Type: Initial release