11WP | pdb_000011wp

SpACSA with AMPCPP, conformation 2

PDB DOI: https://doi.org/10.2210/pdb11WP/pdb
EM Map EMD-76138: EMDB EMDataResource

Classification: LIGASE
Organism(s): Schizosaccharomyces pombe
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2026-03-16 Released: 2026-07-22
Deposition Author(s): Li, M., Zhou, M., Marmorstein, R.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 11WP

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

Literature

Ligand-Dependent Interdomain Rearrangements Drive Catalysis by Acetyl-CoA Synthetases

Li, M., Zhou, M., Marmorstein, R.

To be published.

Macromolecule Content

Total Structure Weight: 75.47 kDa
Atom Count: 5,000
Modeled Residue Count: 638
Deposited Residue Count: 676
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Probable acetyl-coenzyme A synthetase	A	676	Schizosaccharomyces pombe	Mutation(s): 0 Gene Names: SPCC191.02c, SPCC417.14c EC: 6.2.1.1
UniProt
Find proteins for P78773 (Schizosaccharomyces pombe (strain 972 / ATCC 24843)) Explore P78773 Go to UniProtKB: P78773
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P78773
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
APC (Subject of Investigation/LOI) Query on APC 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]	DIPHOSPHOMETHYLPHOSPHONIC ACID ADENOSYL ESTER C₁₁ H₁₈ N₅ O₁₂ P₃ CAWZRIXWFRFUQB-IOSLPCCCSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.20 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-07-22

Deposition Author(s):

Marmorstein, R.

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	--

Revision History (Full details and data files)

Version 1.0: 2026-07-22
Type: Initial release

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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.