5I70 | pdb_00005i70

Crystal Structure of plasmepsin IV

PDB DOI: https://doi.org/10.2210/pdb5I70/pdb

Classification: HYDROLASE/HYDROLASE INHIBITOR
Organism(s): Plasmodium falciparum 7G8, Actinomyces
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2016-02-16 Released: 2016-03-09
Deposition Author(s): Asojo, O.A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free:
0.294 (Depositor), 0.292 (DCC)
R-Value Work:
0.248 (Depositor), 0.247 (DCC)
R-Value Observed:
0.251 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5I70

This is version 1.3 of the entry. See complete history.

Literature

Crystal Structure of plasmepsin IV

Asojo, O.A.

To be published.

Macromolecule Content

Total Structure Weight: 75.34 kDa
Atom Count: 5,054
Modeled Residue Count: 648
Deposited Residue Count: 668
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Plasmepsin IV	A [auth B], B [auth A]	328	Plasmodium falciparum 7G8	Mutation(s): 0 Gene Names: PFBG_05102
UniProt
Find proteins for W7FF86 (Plasmodium falciparum (isolate 7G8)) Explore W7FF86 Go to UniProtKB: W7FF86
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	W7FF86
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Pepstatin A	C, D	6	Actinomyces	Mutation(s): 0

Biologically Interesting Molecules (External Reference)

1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_000557 Query on PRD_000557	C, D	Pepstatin	Oligopeptide / Enzyme inhibitor		Interactions Focus chain C Focus chain D Interactions & Density Focus chain C Focus chain D

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.294 (Depositor), 0.292 (DCC)
R-Value Work: 0.248 (Depositor), 0.247 (DCC)
R-Value Observed: 0.251 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 103.42	α = 90
b = 103.42	β = 90
c = 123.69	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
iMOSFLM	data reduction
SCALA	data scaling
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2016-03-09

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2016-03-09
Type: Initial release
Version 1.1: 2016-07-20
Changes: Data collection
Version 1.2: 2017-09-27
Changes: Data collection, Derived calculations, Structure summary
Version 1.3: 2024-11-06
Changes: Data collection, Database references, Structure summary

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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.