6L02 | pdb_00006l02

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 (Depositor), 0.198 (DCC)
R-Value Work:
0.173 (Depositor), 0.174 (DCC)
R-Value Observed:
0.175 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 6L02

This is version 1.3 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
Modeled Residue Count: 228
Deposited Residue Count: 238
Unique protein chains: 1

Macromolecules

Find similar proteins by:

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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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 (Depositor), 0.198 (DCC)
R-Value Work: 0.173 (Depositor), 0.174 (DCC)
R-Value Observed: 0.175 (Depositor)

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

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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
Version 1.3: 2026-03-18
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.