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), 0.264 (DCC)
R-Value Work:
0.232 (Depositor), 0.237 (DCC)
R-Value Observed:
0.233 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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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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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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P56552
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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), 0.264 (DCC)
R-Value Work: 0.232 (Depositor), 0.237 (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

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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

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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.