4Z14 | pdb_00004z14

Recombinantly expressed latent aurone synthase (polyphenol oxidase)

PDB DOI: https://doi.org/10.2210/pdb4Z14/pdb

Classification: OXIDOREDUCTASE
Organism(s): Coreopsis grandiflora
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-03-26 Released: 2016-06-29
Deposition Author(s): Molitor, C., Mauracher, S.G., Rompel, A.
Funding Organization(s): Austrian Science Fund

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.53 Å
R-Value Free:
0.253 (Depositor), 0.256 (DCC)
R-Value Work:
0.208 (Depositor), 0.214 (DCC)
R-Value Observed:
0.210 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Recombinantly expressed latent aurone synthase (polyphenol oxidase)

Molitor, C., Mauracher, S.G., Rompel, A.

To be published.

Macromolecule Content

Total Structure Weight: 475.65 kDa
Atom Count: 32,368
Modeled Residue Count: 4,007
Deposited Residue Count: 4,160
Unique protein chains: 1

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Aurone synthase	A [auth D] B C [auth H] D [auth F] E [auth C] A [auth D], B, C [auth H], D [auth F], E [auth C], F [auth E], G, H [auth A]	520	Coreopsis grandiflora	Mutation(s): 0
UniProt
Find proteins for A0A075DN54 (Coreopsis grandiflora) Explore A0A075DN54 Go to UniProtKB: A0A075DN54
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A075DN54
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CU Query on CU Download:Ideal Coordinates CCD File SDF format, chain X [auth A] SDF format, chain W [auth A] SDF format, chain V [auth G] SDF format, chain U [auth G] SDF format, chain T [auth E] SDF format, chain S [auth E] SDF format, chain R [auth C] SDF format, chain Q [auth C] SDF format, chain P [auth F] SDF format, chain O [auth F] SDF format, chain N [auth H] SDF format, chain M [auth H] SDF format, chain L [auth B] SDF format, chain K [auth B] SDF format, chain J [auth D] SDF format, chain I [auth D] MOL2 format, chain X [auth A] MOL2 format, chain W [auth A] MOL2 format, chain V [auth G] MOL2 format, chain U [auth G] MOL2 format, chain T [auth E] MOL2 format, chain S [auth E] MOL2 format, chain R [auth C] MOL2 format, chain Q [auth C] MOL2 format, chain P [auth F] MOL2 format, chain O [auth F] MOL2 format, chain N [auth H] MOL2 format, chain M [auth H] MOL2 format, chain L [auth B] MOL2 format, chain K [auth B] MOL2 format, chain J [auth D] MOL2 format, chain I [auth D] mmCIF format, chain X [auth A] mmCIF format, chain W [auth A] mmCIF format, chain V [auth G] mmCIF format, chain U [auth G] mmCIF format, chain T [auth E] mmCIF format, chain S [auth E] mmCIF format, chain R [auth C] mmCIF format, chain Q [auth C] mmCIF format, chain P [auth F] mmCIF format, chain O [auth F] mmCIF format, chain N [auth H] mmCIF format, chain M [auth H] mmCIF format, chain L [auth B] mmCIF format, chain K [auth B] mmCIF format, chain J [auth D] mmCIF format, chain I [auth D]	I [auth D] J [auth D] K [auth B] L [auth B] M [auth H] I [auth D], J [auth D], K [auth B], L [auth B], M [auth H], N [auth H], O [auth F], P [auth F], Q [auth C], R [auth C], S [auth E], T [auth E], U [auth G], V [auth G], W [auth A], X [auth A]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N		Interactions Focus chain I [auth D] Focus chain J [auth D] Focus chain K [auth B] Focus chain L [auth B] Focus chain M [auth H] Focus chain N [auth H] Focus chain O [auth F] Focus chain P [auth F] Focus chain Q [auth C] Focus chain R [auth C] Focus chain S [auth E] Focus chain T [auth E] Focus chain U [auth G] Focus chain V [auth G] Focus chain W [auth A] Focus chain X [auth A] Interactions & Density Focus chain I [auth D] Focus chain J [auth D] Focus chain K [auth B] Focus chain L [auth B] Focus chain M [auth H] Focus chain N [auth H] Focus chain O [auth F] Focus chain P [auth F] Focus chain Q [auth C] Focus chain R [auth C] Focus chain S [auth E] Focus chain T [auth E] Focus chain U [auth G] Focus chain V [auth G] Focus chain W [auth A] Focus chain X [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.53 Å
R-Value Free: 0.253 (Depositor), 0.256 (DCC)
R-Value Work: 0.208 (Depositor), 0.214 (DCC)
R-Value Observed: 0.210 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.85	α = 100.69
b = 103.79	β = 91.9
c = 175.56	γ = 105.18

Software Package:

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

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2016-06-29

Deposition Author(s):

Molitor, C.

Mauracher, S.G.

Rompel, A.

Funding Organization	Location	Grant Number
Austrian Science Fund	Austria	P25217-N28

Revision History (Full details and data files)

Version 1.0: 2016-06-29
Type: Initial release
Version 1.1: 2018-11-21
Changes: Advisory, Data collection, Derived calculations
Version 1.2: 2024-01-10
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.3: 2024-11-13
Changes: Structure summary