5HBD | pdb_00005hbd

Filamentous Assembly of Green Fluorescent Protein Supported by a C-terminal fusion of 18-residues, viewed in space group C2

PDB DOI: https://doi.org/10.2210/pdb5HBD/pdb

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

Deposited: 2015-12-31 Released: 2017-01-04
Deposition Author(s): Sawaya, M.R., Hochschild, A., Heller, D.M., McPartland, L., Eisenberg, D.S.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free:
0.205 (Depositor), 0.214 (DCC)
R-Value Work:
0.173 (Depositor), 0.185 (DCC)
R-Value Observed:
0.176 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 5HBD

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

Literature

Green Fluorescent Protein Fusion that Self Assembles as Polar Filaments

Sawaya, M.R., Hochschild, A., Heller, D.M., McPartland, L., Eisenberg, D.S.

To be published.

Macromolecule Content

Total Structure Weight: 28.95 kDa
Atom Count: 2,250
Modeled Residue Count: 240
Deposited Residue Count: 254
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Green fluorescent protein	A	254	Aequorea victoria	Mutation(s): 2 Gene Names: GFP
UniProt
Find proteins for P42212 (Aequorea victoria) Explore P42212 Go to UniProtKB: P42212
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P42212
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PIA Query on PIA	A	L-PEPTIDE LINKING	C₁₄ H₁₅ N₃ O₄		ALA, TYR, GLY

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free: 0.205 (Depositor), 0.214 (DCC)
R-Value Work: 0.173 (Depositor), 0.185 (DCC)
R-Value Observed: 0.176 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 112.7	α = 90
b = 51.34	β = 99.64
c = 55.06	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XSCALE	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction
autoPROC	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2017-01-04

Deposition Author(s):

Eisenberg, D.S.

Revision History (Full details and data files)

Version 1.0: 2017-01-04
Type: Initial release
Version 1.1: 2017-09-27
Changes: Author supporting evidence, Refinement description
Version 1.2: 2024-03-06
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 2.0: 2026-03-18
Changes: Polymer sequence, 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.