5E9N

Steccherinum murashkinskyi laccase at 0.95 resolution

• PDB DOI: https://doi.org/10.2210/pdb5E9N/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Steccherinum murashkinskyi
• Mutation(s): No 


• Deposited: 2015-10-15 Released: 2015-12-23 
• Deposition Author(s): Polyakov, K.M., Glazunova, O.A., Fedorova, T.V., Koroleva, O.V.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 0.95 Å
• R-Value Free: 0.139 
• R-Value Work: 0.121 
• R-Value Observed: 0.122 

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 58.31 kDa 
• Atom Count: 4,612 
• Modelled Residue Count: 495 
• Deposited Residue Count: 527 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Laccase 2	A	527	Steccherinum murashkinskyi	Mutation(s): 0  EC: 1.10.3.2
UniProt
Find proteins for I1VE66 (Steccherinum murashkinskyi) Explore I1VE66  Go to UniProtKB:  I1VE66

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	B, C	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PG6	I [auth A], J [auth A]	1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE C12 H26 O6 DMDPGPKXQDIQQG-UHFFFAOYSA-N
CU	D [auth A], E [auth A], F [auth A], G [auth A]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N
NA	H [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 0.95 Å
• R-Value Free: 0.139 
• R-Value Work: 0.121 
• R-Value Observed: 0.122 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.51	α = 90
b = 83.27	β = 90
c = 111.04	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2015-12-23 
Deposition Author(s): Polyakov, K.M., Glazunova, O.A., Fedorova, T.V., Koroleva, O.V.

Revision History  

• Version 1.0: 2015-12-23
  Type: Initial release
  
• Version 1.1: 2018-08-01
  Changes: Data collection, Database references
• Version 1.2: 2019-07-10
  Changes: Data collection
• Version 1.3: 2019-07-17
  Changes: Data collection
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2024-01-10
  Changes: Data collection, Database references, Refinement description, Structure summary