7QJP | pdb_00007qjp

Crystal structure of a cutinase enzyme from Saccharopolyspora flava (611)

PDB DOI: https://doi.org/10.2210/pdb7QJP/pdb

Classification: HYDROLASE
Organism(s): Saccharopolyspora flava
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-12-17 Released: 2022-12-28
Deposition Author(s): Zahn, M., Avilan, L., Beckham, G.T., McGeehan, J.E.
Funding Organization(s): UK Research and Innovation (UKRI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.56 Å
R-Value Free:
0.165 (Depositor), 0.164 (DCC)
R-Value Work:
0.141 (Depositor), 0.139 (DCC)

Starting Model: experimental
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Ligand Structure Quality Assessment

This is version 2.1 of the entry. See complete history.

Literature

Sourcing thermotolerant poly(ethylene terephthalate) hydrolase scaffolds from natural diversity

Erickson, E., Gado, J.E., Avilan, L., Bratti, F., Brizendine, R.K., Cox, P.A., Gill, R., Graham, R., Kim, D.J., Konig, G., Michener, W.E., Poudel, S., Ramirez, K.J., Shakespeare, T.J., Zahn, M., Boyd, E.S., Payne, C.M., DuBois, J.L., Pickford, A.R., Beckham, G.T., McGeehan, J.E.

(2022) Nat Commun 13: 7850

DOI: https://doi.org/10.1038/s41467-022-35237-x

Macromolecule Content

Total Structure Weight: 29.31 kDa
Atom Count: 2,296
Modeled Residue Count: 257
Deposited Residue Count: 269
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cutinase	A	269	Saccharopolyspora flava	Mutation(s): 0 Gene Names: SAMN05660874_00127
UniProt
Find proteins for A0A1I6NU60 (Saccharopolyspora flava) Explore A0A1I6NU60 Go to UniProtKB: A0A1I6NU60
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A1I6NU60
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PG4 (Subject of Investigation/LOI) Query on PG4 Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	TETRAETHYLENE GLYCOL C₈ H₁₈ O₅ UWHCKJMYHZGTIT-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.56 Å
R-Value Free: 0.165 (Depositor), 0.164 (DCC)
R-Value Work: 0.141 (Depositor), 0.139 (DCC)

Space Group: P 3 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 89.336	α = 90
b = 89.336	β = 90
c = 74.324	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
autoPROC	data reduction
STARANISO	data scaling
MOLREP	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2022-12-28

Deposition Author(s):

Funding Organization	Location	Grant Number
UK Research and Innovation (UKRI)	United Kingdom	Research England E3 funding

Revision History (Full details and data files)

Version 1.0: 2022-12-28
Type: Initial release
Version 1.1: 2024-01-31
Changes: Data collection, Refinement description
Version 2.0: 2024-04-24
Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary
Version 2.1: 2024-10-23
Changes: Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.