7W8H | pdb_00007w8h

Sweet taste protein Brazzein mutant - D29K

PDB DOI: https://doi.org/10.2210/pdb7W8H/pdb

Classification: PLANT PROTEIN
Organism(s): Pentadiplandra brazzeana
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2021-12-07 Released: 2022-12-07
Deposition Author(s): Kim, T., Yoon, T.
Funding Organization(s): National Research Foundation (NRF, Korea)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free:
0.268 (Depositor), 0.260 (DCC)
R-Value Work:
0.232 (Depositor), 0.240 (DCC)
R-Value Observed:
0.233 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.2 of the entry. See complete history.

Literature

Sweet taste protein Brazzein mutant - D29K

Kim, T., Yoon, T.

To be published.

Macromolecule Content

Total Structure Weight: 52.19 kDa
Atom Count: 3,812
Modeled Residue Count: 423
Deposited Residue Count: 432
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Defensin-like protein	A, B, C, E, F A, B, C, E, F, G, H	54	Pentadiplandra brazzeana	Mutation(s): 1
UniProt
Find proteins for P56552 (Pentadiplandra brazzeana) Explore P56552 Go to UniProtKB: P56552
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P56552
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Defensin-like protein	D	54	Pentadiplandra brazzeana	Mutation(s): 0
UniProt
Find proteins for P56552 (Pentadiplandra brazzeana) Explore P56552 Go to UniProtKB: P56552
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P56552
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.50 Å
R-Value Free: 0.268 (Depositor), 0.260 (DCC)
R-Value Work: 0.232 (Depositor), 0.240 (DCC)
R-Value Observed: 0.233 (Depositor)

Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.45	α = 90
b = 55.45	β = 90
c = 159.333	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-2000	data collection
HKL-2000	data scaling
PHENIX	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2022-12-07

Deposition Author(s):

Funding Organization	Location	Grant Number
National Research Foundation (NRF, Korea)	Korea, Republic Of	--

Revision History (Full details and data files)

Version 1.0: 2022-12-07
Type: Initial release
Version 1.1: 2023-11-29
Changes: Data collection, Refinement description
Version 1.2: 2024-10-09
Changes: Structure summary

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.