8B16 | pdb_00008b16

A hexameric barrel state of a de novo coiled-coil assembly: CC-Pent2-I17Q

PDB DOI: https://doi.org/10.2210/pdb8B16/pdb

Classification: DE NOVO PROTEIN
Organism(s): synthetic construct
Mutation(s): No

Deposited: 2022-09-09 Released: 2023-09-20
Deposition Author(s): Martin, F.J.O., Dawson, W.M., Woolfson, D.N.
Funding Organization(s): European Research Council (ERC), Biotechnology and Biological Sciences Research Council (BBSRC), Engineering and Physical Sciences Research Council

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free:
0.259 (Depositor), 0.263 (DCC)
R-Value Work:
0.219 (Depositor), 0.228 (DCC)
R-Value Observed:
0.221 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 8B16

This is version 1.1 of the entry. See complete history.

Literature

Exchange, promiscuity, and orthogonality in a set of de novo coiled-coil assemblies

Martin, F.J.O., Orr-Ewing, A.J., Dawson, W.M., Woolfson, D.N.

To be published.

Macromolecule Content

Total Structure Weight: 40.5 kDa
Atom Count: 2,894
Modeled Residue Count: 366
Deposited Residue Count: 384
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CC-Pent2-I17Q	A [auth E] B [auth A] C [auth B] D [auth L] E [auth F] A [auth E], B [auth A], C [auth B], D [auth L], E [auth F], F [auth D], G [auth K], H, I [auth G], J [auth I], K [auth C], L [auth J]	32	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain M [auth J] MOL2 format, chain M [auth J] mmCIF format, chain M [auth J]	M [auth J]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain M [auth J] Interactions & Density Focus chain M [auth J]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.259 (Depositor), 0.263 (DCC)
R-Value Work: 0.219 (Depositor), 0.228 (DCC)
R-Value Observed: 0.221 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.885	α = 74.45
b = 43.292	β = 88.71
c = 57.216	γ = 86.99

Software Package:

Software Name	Purpose
Aimless	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
xia2	data reduction
Arcimboldo	phasing

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2023-09-20

Deposition Author(s):

Funding Organization	Location	Grant Number
European Research Council (ERC)	European Union	340764
Biotechnology and Biological Sciences Research Council (BBSRC)	United Kingdom	BB/L01386X/1
Engineering and Physical Sciences Research Council	United Kingdom	EP/G036764

Revision History (Full details and data files)

Version 1.0: 2023-09-20
Type: Initial release
Version 1.1: 2024-10-23
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.