6TPC | pdb_00006tpc

Crystal structure of Endoglucanase N194A from Penicillium verruculosum

• PDB DOI: https://doi.org/10.2210/pdb6TPC/pdb

• Classification: HYDROLASE
• Organism(s): Talaromyces verruculosus
• Expression System: Penicillium canescens
• Mutation(s): Yes 


• Deposited: 2019-12-13 Released: 2021-01-13 
• Deposition Author(s): Nemashkalov, V., Kravchenko, O., Gabdulkhakov, A., Tischenko, S., Rozhkova, A., Sinitsyn, A.
• Funding Organization(s): Russian Science Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free: 
  0.222 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.175 (Depositor), 0.180 (DCC) 
• R-Value Observed: 
  0.178 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Endoglucanase N194A from Penicillium verruculosum

Nemashkalov, V., Kravchenko, O., Gabdulkhakov, A., Tischenko, S., Rozhkova, A., Sinitsyn, A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 70.25 kDa 
• Atom Count: 5,259 
• Modeled Residue Count: 610 
• Deposited Residue Count: 628 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Endoglucanase	A, B [auth C]	314	Talaromyces verruculosus	Mutation(s): 1  EC: 3.2.1.4
UniProt
Find proteins for A0A1U7Q1U3 (Talaromyces verruculosus) Explore A0A1U7Q1U3  Go to UniProtKB:  A0A1U7Q1U3
Glycosylation
Glycosylation Sites: 1

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	C [auth B], D	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	E [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
PO4	F [auth C]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.52 Å
• R-Value Free:  0.222 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.175 (Depositor), 0.180 (DCC) 
• R-Value Observed: 0.178 (Depositor) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.372	α = 90
b = 82.551	β = 90
c = 90.935	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2021-01-13 
Deposition Author(s): Nemashkalov, V., Kravchenko, O., Gabdulkhakov, A., Tischenko, S., Rozhkova, A., Sinitsyn, A.

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Funding Organization	Location	Grant Number
Russian Science Foundation	Russian Federation	--

Revision History  

• Version 1.0: 2021-01-13
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-11-06
  Changes: Structure summary