6L02

Crystal Structure of sfYFP66BPAC203Y

PDB DOI: https://doi.org/10.2210/pdb6L02/pdb

Classification: FLUORESCENT PROTEIN
Organism(s): Aequorea victoria
Expression System: Escherichia coli BL21
Mutation(s): Yes

Deposited: 2019-09-25 Released: 2021-01-13
Deposition Author(s): Zheng, D., Yu, L.-J., Liu, X., Wang, J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.197
R-Value Work: 0.173
R-Value Observed: 0.175

wwPDB Validation 3D Report Full Report

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

Literature

Ultrafast Photoinduced Electron Transfer in a Photosensitizer Protein

Zheng, D., Tao, M., Yu, L.J., Liu, X., Xia, A., Wang, J.

(2021) CC Chem 3: 1580-1586

DOI: https://doi.org/10.31635/ccschem.021.202100823

Macromolecule Content

Total Structure Weight: 27 kDa
Atom Count: 1,970
Modelled Residue Count: 228
Deposited Residue Count: 238
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Yellow fluorescent protein	A	238	Aequorea victoria	Mutation(s): 15 Gene Names: yfp
UniProt
Find proteins for A0A059PIR9 (Aequorea victoria) Explore A0A059PIR9 Go to UniProtKB: A0A059PIR9
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A059PIR9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
BF6 Query on BF6	A	L-PEPTIDE LINKING	C₂₀ H₁₇ N₃ O₄		GLY, TYR, GLY

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.197
R-Value Work: 0.173
R-Value Observed: 0.175
Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 51.604	α = 90
b = 51.604	β = 90
c = 179.053	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-3000	data reduction
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2021-01-13

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2021-01-13
Type: Initial release
Version 1.1: 2022-01-26
Changes: Database references
Version 1.2: 2023-11-22
Changes: Data collection, Refinement description

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 R01GM133198.