8H8I

Triterpenoid saponin acetyltransferase, AmAT7-3

PDB DOI: https://doi.org/10.2210/pdb8H8I/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): Astragalus membranaceus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-10-22 Released: 2023-09-13
Deposition Author(s): Wang, L.L.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.03 Å
R-Value Free: 0.245
R-Value Work: 0.209
R-Value Observed: 0.211

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Complex crystal structure of triterpene saponin acyltransferase AmAT7-3

Wang, L.L.

To be published.

Macromolecule Content

Total Structure Weight: 50.77 kDa
Atom Count: 3,568
Modelled Residue Count: 431
Deposited Residue Count: 446
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AmAT7-3	A	446	Astragalus membranaceus	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Protein Feature View Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
KZO Query on KZO Download Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A]	B [auth A]	Astragaloside IV C₄₁ H₆₈ O₁₄ QMNWISYXSJWHRY-RDWDXCDVSA-N		Ligand Interaction

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.03 Å
R-Value Free: 0.245
R-Value Work: 0.209
R-Value Observed: 0.211
Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 135.63	α = 90
b = 135.63	β = 90
c = 192.18	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
PHENIX	refinement
Coot	model building

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2023-09-13

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded	China	--

Revision History (Full details and data files)

Version 1.0: 2023-09-13
Type: Initial release

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.