8B5U | pdb_00008b5u

Crystal structure of Quinonoid dihydropteridine reductase from Leishmania donovani

PDB DOI: https://doi.org/10.2210/pdb8B5U/pdb

Classification: OXIDOREDUCTASE
Organism(s): Leishmania donovani
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-09-24 Released: 2022-10-19
Deposition Author(s): Robinson, D.A., Fairlamb, A.H.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.222 (Depositor), 0.233 (DCC)
R-Value Work:
0.198 (Depositor), 0.209 (DCC)
R-Value Observed:
0.199 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 8B5U

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of Quinonoid dihydropteridine reductase from Leishmania donovani

Robinson, D.A., Fairlamb, A.H.

To be published.

Macromolecule Content

Total Structure Weight: 25.85 kDa
Atom Count: 1,792
Modeled Residue Count: 227
Deposited Residue Count: 250
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Quinonoid dihydropteridine reductase	A	250	Leishmania donovani	Mutation(s): 0 Gene Names: CGC21_27355, LdCL_340051200, LdCL_340051500, LDHU3_34.6510 EC: 1.5.1.34
UniProt
Find proteins for A0A3S5H7Y1 (Leishmania donovani) Explore A0A3S5H7Y1 Go to UniProtKB: A0A3S5H7Y1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A3S5H7Y1
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.222 (Depositor), 0.233 (DCC)
R-Value Work: 0.198 (Depositor), 0.209 (DCC)
R-Value Observed: 0.199 (Depositor)

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 66.762	α = 90
b = 66.762	β = 90
c = 242.92	γ = 120

Software Package:

Software Name	Purpose
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
MOLREP	phasing

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2022-10-19

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2022-10-19
Type: Initial release
Version 1.1: 2024-01-31
Changes: Data collection, Refinement description
Version 1.2: 2024-10-16
Changes: Structure summary

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.