5T7N

X-ray crystal structure of AA13 LPMO

• PDB DOI: https://doi.org/10.2210/pdb5T7N/pdb

• Classification: METAL BINDING PROTEIN
• Organism(s): Aspergillus oryzae RIB40
• Expression System: Aspergillus oryzae
• Mutation(s): No 


• Deposited: 2016-09-05 Released: 2017-01-11 
• Deposition Author(s): Frandsen, K.E.H., Poulsen, J.-C.N., Tovborg, M., Johansen, K.S., Lo Leggio, L.
• Funding Organization(s): The Danish Council for Strategic Research

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.172 
• R-Value Work: 0.106 
• R-Value Observed: 0.108 

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 26.84 kDa 
• Atom Count: 2,291 
• Modelled Residue Count: 233 
• Deposited Residue Count: 233 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AoAA13	A	233	Aspergillus oryzae RIB40	Mutation(s): 0  Gene Names: AO090701000246
UniProt
Find proteins for Q2U8Y3 (Aspergillus oryzae (strain ATCC 42149 / RIB 40)) Explore Q2U8Y3  Go to UniProtKB:  Q2U8Y3

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-glucopyranose-(1-6)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose	B	4		N/A
Glycosylation Resources
GlyTouCan:  G36781FI GlyCosmos:  G36781FI GlyGen:  G36781FI

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
ZN	D [auth A], E [auth A], F [auth A], G [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HIC	A	L-PEPTIDE LINKING	C7 H11 N3 O2		HIS

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 0.172 
• R-Value Work: 0.106 
• R-Value Observed: 0.108 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.67	α = 90
b = 59	β = 90
c = 72.15	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2017-01-11 
Deposition Author(s): Frandsen, K.E.H., Poulsen, J.-C.N., Tovborg, M., Johansen, K.S., Lo Leggio, L.

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Funding Organization	Location	Grant Number
The Danish Council for Strategic Research	Denmark	12-134923

Revision History  

• Version 1.0: 2017-01-11
  Type: Initial release
  
• Version 1.1: 2017-01-18
  Changes: Database references
• Version 1.2: 2018-01-17
  Changes: Data collection
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2024-01-17
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary