8A9E | pdb_00008a9e

Lysozyme, 9-11 fs FEL pulses as determined by XTCAV

• PDB DOI: https://doi.org/10.2210/pdb8A9E/pdb

• Classification: HYDROLASE
• Organism(s): Gallus gallus
• Mutation(s): No 


• Deposited: 2022-06-28 Released: 2023-07-12 
• Deposition Author(s): Barends, T., Nass, K., Gorel, A., Schlichting, I.
• Funding Organization(s): Max Planck Society

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free: 
  0.240 (Depositor), 0.240 (DCC) 
• R-Value Work: 
  0.201 (Depositor), 0.210 (DCC) 

Starting Model: experimental

Literature

Microcrystallization methods

Gorel, A., Nass, K., Barends, T., Schlichting, I.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 15.45 kDa 
• Atom Count: 1,102 
• Modeled Residue Count: 128 
• Deposited Residue Count: 129 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lysozyme	A [auth AAA]	129	Gallus gallus	Mutation(s): 0  EC: 3.2.1.17
UniProt
Find proteins for P00698 (Gallus gallus) Explore P00698  Go to UniProtKB:  P00698

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DO3	D [auth AAA], E [auth AAA]	10-((2R)-2-HYDROXYPROPYL)-1,4,7,10-TETRAAZACYCLODODECANE 1,4,7-TRIACETIC ACID C17 H32 N4 O7 IQUHNCOJRJBMSU-CQSZACIVSA-N
GD	B [auth AAA], C [auth AAA]	GADOLINIUM ATOM Gd UIWYJDYFSGRHKR-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.67 Å
• R-Value Free:  0.240 (Depositor), 0.240 (DCC) 
• R-Value Work:  0.201 (Depositor), 0.210 (DCC) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.75	α = 90
b = 77.75	β = 90
c = 38.9	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
CrystFEL	data reduction
CrystFEL	data scaling
REFMAC	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-07-12 
Deposition Author(s): Barends, T., Nass, K., Gorel, A., Schlichting, I.

---

Funding Organization	Location	Grant Number
Max Planck Society	Germany	--

Revision History  

• Version 1.0: 2023-07-12
  Type: Initial release
  
• Version 1.1: 2024-02-07
  Changes: Data collection, Refinement description
• Version 1.2: 2024-11-13
  Changes: Structure summary