5HJF

The apo form of Dps4 from Nostoc punctiforme

PDB DOI: https://doi.org/10.2210/pdb5HJF/pdb

Classification: METAL BINDING PROTEIN
Organism(s): Nostoc punctiforme
Expression System: Escherichia coli BL21
Mutation(s): Yes

Deposited: 2016-01-13 Released: 2017-01-25
Deposition Author(s): Howe, C., Moparthi, V.K., Persson, K., Stensjo, K.
Funding Organization(s): Swedish Energy Agency

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.59 Å
R-Value Free: 0.146
R-Value Work: 0.130
R-Value Observed: 0.131

wwPDB Validation 3D Report Full Report

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

Literature

On the trail of iron and zinc bindning to Dps4 from N. punctiforme

Howe, C., Moparthi, V.K., Persson, K., Stensjo, K.

To be published.

Macromolecule Content

Total Structure Weight: 83.79 kDa
Atom Count: 6,517
Modelled Residue Count: 722
Deposited Residue Count: 740
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ferritin, Dps family protein	A, B, C, D	185	Nostoc punctiforme	Mutation(s): 1 Gene Names: Npun_R5799
UniProt
Find proteins for B2J981 (Nostoc punctiforme (strain ATCC 29133 / PCC 73102)) Explore B2J981 Go to UniProtKB: B2J981
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B2J981
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.59 Å
R-Value Free: 0.146
R-Value Work: 0.130
R-Value Observed: 0.131
Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.884	α = 90
b = 101.884	β = 90
c = 146.25	γ = 120

Software Package:

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

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2017-01-25

Deposition Author(s):

Funding Organization	Location	Grant Number
Swedish Energy Agency	Sweden	11674-5

Revision History (Full details and data files)

Version 1.0: 2017-01-25
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.