7DS7 | pdb_00007ds7

The Crystal Structure of Leaf-branch compost cutinase from Biortus.

• PDB DOI: https://doi.org/10.2210/pdb7DS7/pdb

• Classification: HYDROLASE
• Organism(s): unidentified prokaryotic organism
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2020-12-30 Released: 2021-01-13 
• Deposition Author(s): Wang, F., Lv, Z., Cheng, W., Lin, D., Chu, F., Xu, X., Tan, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 
  0.227 (Depositor), 0.234 (DCC) 
• R-Value Work: 
  0.180 (Depositor), 0.191 (DCC) 

Starting Model: experimental

Literature

The Crystal Structure of Leaf-branch compost cutinase from Biortus.

Wang, F., Lv, Z., Cheng, W., Lin, D., Chu, F., Xu, X., Tan, J.

To be published.

Biological Assembly 1  

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

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 30.16 kDa 
• Atom Count: 2,101 
• Modeled Residue Count: 258 
• Deposited Residue Count: 277 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Leaf-branch compost cutinase	A	277	unidentified prokaryotic organism	Mutation(s): 5  EC: 3.1.1.74 (PDB Primary Data), 3.1.1.101 (PDB Primary Data)
UniProt
Find proteins for G9BY57 (Unknown prokaryotic organism) Explore G9BY57  Go to UniProtKB:  G9BY57

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CIT	D [auth A]	CITRIC ACID C6 H8 O7 KRKNYBCHXYNGOX-UHFFFAOYSA-N
GOL	C [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
IMD	B [auth A]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free:  0.227 (Depositor), 0.234 (DCC) 
• R-Value Work:  0.180 (Depositor), 0.191 (DCC) 

Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 109.412	α = 90
b = 109.412	β = 90
c = 35.137	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-01-13 
Deposition Author(s): Wang, F., Lv, Z., Cheng, W., Lin, D., Chu, F., Xu, X., Tan, J.

Revision History  

• Version 1.0: 2021-01-13
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.2: 2024-10-23
  Changes: Structure summary