6BZX | pdb_00006bzx

Structure of the artificial complex alpha-Rep/Octarellin V.1 crystallized by counter diffusion in a capillary

PDB DOI: https://doi.org/10.2210/pdb6BZX/pdb

Classification: DE NOVO PROTEIN
Organism(s): synthetic construct
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2017-12-26 Released: 2019-01-09
Deposition Author(s): Aedo, F., Contreras-Martel, C., Martinez-Oyanedel, J., Bunster, M., Minard, P., Van de Weerdt, C., Figueroa, M.
Funding Organization(s): Universidad de Concepcion

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.11 Å
R-Value Free:
0.304 (Depositor), 0.305 (DCC)
R-Value Work:
0.245 (Depositor), 0.246 (DCC)
R-Value Observed:
0.251 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

Crystallization of the artificial complex alpha-Rep/Octarellin V.1 by counter diffusion allowed to have a most complete structure

Aedo, F., Figueroa, M.

To be published.

Macromolecule Content

Total Structure Weight: 57.25 kDa
Atom Count: 3,716
Modeled Residue Count: 475
Deposited Residue Count: 511
Unique protein chains: 2

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
alpha-Rep	A	294	synthetic construct	Mutation(s): 0

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Octarellin V.1	B	217	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain C [auth B] MOL2 format, chain C [auth B] mmCIF format, chain C [auth B]	C [auth B]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 3.11 Å
R-Value Free: 0.304 (Depositor), 0.305 (DCC)
R-Value Work: 0.245 (Depositor), 0.246 (DCC)
R-Value Observed: 0.251 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.562	α = 90
b = 41.108	β = 106.57
c = 81.409	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2019-01-09

Deposition Author(s):

Contreras-Martel, C.

Martinez-Oyanedel, J.

Van de Weerdt, C.

Funding Organization	Location	Grant Number
Universidad de Concepcion	Chile	VRID 217.037.023-1.OIN

Revision History (Full details and data files)

Version 1.0: 2019-01-09
Type: Initial release
Version 1.1: 2023-10-04
Changes: Data collection, Database references, Refinement description

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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.