4ZIO | pdb_00004zio

Irradiated state of mCherry143azF

PDB DOI: https://doi.org/10.2210/pdb4ZIO/pdb

Classification: FLUORESCENT PROTEIN
Organism(s): Discosoma
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2015-04-28 Released: 2015-09-16
Deposition Author(s): Reddington, S.C., Driezis, S., Hartley, A.M., Watson, P.D., Rizkallah, P.J., Jones, D.D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.262 (Depositor), 0.262 (DCC)
R-Value Work:
0.198 (Depositor), 0.207 (DCC)
R-Value Observed:
0.201 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 2.0 of the entry. See complete history.

Literature

Genetically encoded phenyl azide photochemistry drives positive and negative functional modulation of a red fluorescent protein

Reddington, S.C., Driezis, S., Hartley, A.M., Watson, P.D., Rizkallah, P.J., Jones, D.D.

(2015) RSC Adv 5: 77734-77738

DOI: https://doi.org/10.1039/c5ra13552d

Macromolecule Content

Total Structure Weight: 75.13 kDa
Atom Count: 5,477
Modeled Residue Count: 651
Deposited Residue Count: 651
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
mCherry	A, B, C	217	Discosoma	Mutation(s): 1 Gene Names: mCherry

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain F [auth A] SDF format, chain G [auth B] SDF format, chain H [auth B] SDF format, chain I [auth B] SDF format, chain J [auth B] SDF format, chain K [auth C] SDF format, chain L [auth C] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth A] MOL2 format, chain G [auth B] MOL2 format, chain H [auth B] MOL2 format, chain I [auth B] MOL2 format, chain J [auth B] MOL2 format, chain K [auth C] MOL2 format, chain L [auth C] mmCIF format, chain D [auth A] mmCIF format, chain E [auth A] mmCIF format, chain F [auth A] mmCIF format, chain G [auth B] mmCIF format, chain H [auth B] mmCIF format, chain I [auth B] mmCIF format, chain J [auth B] mmCIF format, chain K [auth C] mmCIF format, chain L [auth C]	D [auth A] E [auth A] F [auth A] G [auth B] H [auth B] D [auth A], E [auth A], F [auth A], G [auth B], H [auth B], I [auth B], J [auth B], K [auth C], L [auth C]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth B] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain K [auth C] Focus chain L [auth C] Interactions & Density Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth B] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth B] Focus chain K [auth C] Focus chain L [auth C]

Modified Residues 2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CH6 Query on CH6	A, B, C	L-PEPTIDE LINKING	C₁₆ H₁₉ N₃ O₄ S		MET, TYR, GLY
HOX Query on HOX	A, B, C	L-PEPTIDE LINKING	C₉ H₁₂ N₂ O₂		PHE

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.262 (Depositor), 0.262 (DCC)
R-Value Work: 0.198 (Depositor), 0.207 (DCC)
R-Value Observed: 0.201 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.11	α = 90
b = 103.17	β = 90
c = 149.94	γ = 90

Software Package:

Software Name	Purpose
Aimless	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
xia2	data reduction

Structure Validation

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Entry History

Deposition Data

Released Date: 2015-09-16

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2015-09-16
Type: Initial release
Version 1.1: 2018-02-07
Changes: Database references
Version 1.2: 2025-04-09
Changes: Data collection, Database references, Structure summary
Version 2.0: 2026-03-18
Changes: Polymer sequence