7E22 | pdb_00007e22

Crystal structure of two pericyclases catalyzing [4+2] cycloaddition

PDB DOI: https://doi.org/10.2210/pdb7E22/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): Fusarium sp. FN080326
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2021-02-04 Released: 2022-02-09
Deposition Author(s): Chi, C.B., Wang, Z.D.
Funding Organization(s): Ministry of Science and Technology (MoST, China)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.63 Å
R-Value Free:
0.207 (Depositor), 0.216 (DCC)
R-Value Work:
0.172 (Depositor), 0.190 (DCC)
R-Value Observed:
0.174 (Depositor)

Starting Model: experimental
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Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of two pericyclases catalyzing [4+2] cycloaddition

Chi, C.B., Wang, Z.D., Liu, T., Zhang, Z.Y., Ma, M.

To be published.

Macromolecule Content

Total Structure Weight: 41.49 kDa
Atom Count: 2,920
Modeled Residue Count: 366
Deposited Residue Count: 377
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Diels-Alderase fsa2	A	377	Fusarium sp. FN080326	Mutation(s): 0 Gene Names: fsa2 EC: 5.5.1
UniProt
Find proteins for A0A0E4AYE7 (Fusarium sp. (strain FN080326)) Explore A0A0E4AYE7 Go to UniProtKB: A0A0E4AYE7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A0E4AYE7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
HVF (Subject of Investigation/LOI) Query on HVF 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]	Equisetin C₂₂ H₃₁ N O₄ YHKYFYCSTJGMID-OIKIKICYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.63 Å
R-Value Free: 0.207 (Depositor), 0.216 (DCC)
R-Value Work: 0.172 (Depositor), 0.190 (DCC)
R-Value Observed: 0.174 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.761	α = 90
b = 83.06	β = 90
c = 83.788	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

& Funding Information

Deposition Data

Released Date: 2022-02-09

Deposition Author(s):

Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, China)	China	2019YFC0312502

Revision History (Full details and data files)

Version 1.0: 2022-02-09
Type: Initial release
Version 1.1: 2023-11-29
Changes: Data collection, Database references, Refinement description

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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.