3HJP | pdb_00003hjp

The crystal structure of Bcp4 from Sulfolobus Solfataricus

PDB DOI: https://doi.org/10.2210/pdb3HJP/pdb

Classification: OXIDOREDUCTASE
Organism(s): Saccharolobus solfataricus
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2009-05-22 Released: 2010-05-26
Deposition Author(s): D'Ambrosio, K., De Simone, G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.55 Å
R-Value Free:
0.263 (Depositor), 0.261 (DCC)
R-Value Work:
0.204 (Depositor), 0.202 (DCC)
R-Value Observed:
0.204 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 3HJP

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

Literature

Exploring the catalytic mechanism of the first dimeric Bcp: functional, structural and docking analysis

Limauro, D., D'Ambrosio, K., Pedone, E., Langella, E., Galdi, I., Pedone, C., De Simone, G., Bartolucci, S.

To be published.

Macromolecule Content

Total Structure Weight: 74.23 kDa
Atom Count: 5,194
Modeled Residue Count: 632
Deposited Residue Count: 656
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peroxiredoxin, bacterioferritin comigratory protein homolog (Bcp-4)	A, B, C, D	164	Saccharolobus solfataricus	Mutation(s): 2 Gene Names: bcp4 EC: 1.11.1.15
UniProt
Find proteins for Q97VL0 (Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)) Explore Q97VL0 Go to UniProtKB: Q97VL0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q97VL0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CL Query on CL Download:Ideal Coordinates CCD File SDF format, chain H [auth D] SDF format, chain G [auth C] SDF format, chain F [auth B] SDF format, chain E [auth A] MOL2 format, chain H [auth D] MOL2 format, chain G [auth C] MOL2 format, chain F [auth B] MOL2 format, chain E [auth A] mmCIF format, chain H [auth D] mmCIF format, chain G [auth C] mmCIF format, chain F [auth B] mmCIF format, chain E [auth A]	E [auth A], F [auth B], G [auth C], H [auth D]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D] Interactions & Density Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.55 Å
R-Value Free: 0.263 (Depositor), 0.261 (DCC)
R-Value Work: 0.204 (Depositor), 0.202 (DCC)
R-Value Observed: 0.204 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 74.227	α = 90
b = 64.142	β = 114.76
c = 76.692	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
CNS	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2010-05-26

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2010-05-26
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.3: 2025-05-28
Changes: 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.