9FSC | pdb_00009fsc

The structure of ornithine decarboxylase from Leishmania infantum

PDB DOI: https://doi.org/10.2210/pdb9FSC/pdb

Classification: LYASE
Organism(s): Leishmania infantum
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2024-06-20 Released: 2025-07-02
Deposition Author(s): Fiorillo, A., Ilari, A., Antonelli, L.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.27 Å
R-Value Free:
0.273 (Depositor), 0.255 (DCC)
R-Value Work:
0.235 (Depositor), 0.224 (DCC)
R-Value Observed:
0.237 (Depositor)

Starting Model: experimental
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This is version 1.0 of the entry. See complete history.

Literature

The structure of ornithine decarboxylase from Leishmania infantum

Fiorillo, A., Ilari, A., Antonelli, L.

To be published.

Macromolecule Content

Total Structure Weight: 79.67 kDa
Atom Count: 3,580
Modeled Residue Count: 442
Deposited Residue Count: 727
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ornithine decarboxylase	A	727	Leishmania infantum	Mutation(s): 0 Gene Names: LINJ.12.0100 EC: 4.1.1.17
UniProt
Find proteins for E9AGB5 (Leishmania infantum) Explore E9AGB5 Go to UniProtKB: E9AGB5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	E9AGB5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PO4 Query on PO4 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]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.27 Å
R-Value Free: 0.273 (Depositor), 0.255 (DCC)
R-Value Work: 0.235 (Depositor), 0.224 (DCC)
R-Value Observed: 0.237 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 119.22	α = 90
b = 119.22	β = 90
c = 85.47	γ = 120

Software Package:

Software Name	Purpose
BUSTER	refinement
XDS	data reduction
STARANISO	data scaling
MOLREP	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2025-07-02

Deposition Author(s):

Funding Organization	Location	Grant Number
Other government	Italy	--

Revision History (Full details and data files)

Version 1.0: 2025-07-02
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.