3MGF | pdb_00003mgf

Crystal Structure of Monomeric Kusabira-Orange (MKO), Orange-Emitting GFP-like Protein, at pH 7.5

PDB DOI: https://doi.org/10.2210/pdb3MGF/pdb

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

Deposited: 2010-04-06 Released: 2011-03-16
Deposition Author(s): Ebisawa, T., Yamamura, A., Ohtsuka, J., Kameda, Y., Hayakawa, K., Nagata, K., Tanokura, M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.213 (Depositor), 0.212 (DCC)
R-Value Work:
0.166 (Depositor), 0.165 (DCC)
R-Value Observed:
0.169 (Depositor)

Starting Model: experimental
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This is version 3.0 of the entry. See complete history.

Literature

Crystal Structure of Monomeric Kusabira-Orange (MKO), Orange-Emitting GFP-like Protein, at pH 7.5

Ebisawa, T., Yamamura, A., Ohtsuka, J., Kameda, Y., Hayakawa, K., Nagata, K., Tanokura, M.

To be published.

Macromolecule Content

Total Structure Weight: 98.93 kDa
Atom Count: 7,638
Modeled Residue Count: 849
Deposited Residue Count: 872
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fluorescent protein	A, B, C, D	218	Lithophyllon concinna	Mutation(s): 1 Gene Names: mKO
UniProt
Find proteins for Q6I7B2 (Lithophyllon concinna) Explore Q6I7B2 Go to UniProtKB: Q6I7B2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6I7B2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CFY Query on CFY	A, B, C, D	L-PEPTIDE LINKING	C₂₃ H₂₂ N₄ O₅ S		PHE, CYS, TYR, GLY

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.213 (Depositor), 0.212 (DCC)
R-Value Work: 0.166 (Depositor), 0.165 (DCC)
R-Value Observed: 0.169 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.52	α = 90
b = 83.76	β = 110.75
c = 82.18	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
XDS	data reduction
XDS	data scaling
MOLREP	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2011-03-16

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2011-03-16
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 2.0: 2023-11-15
Changes: Advisory, Atomic model, Data collection, Derived calculations
Version 2.1: 2024-11-13
Changes: Structure summary
Version 3.0: 2026-03-18
Changes: Polymer sequence

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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.