3M48 | pdb_00003m48

GCN4 Leucine Zipper Peptide Mutant

PDB DOI: https://doi.org/10.2210/pdb3M48/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Saccharomyces cerevisiae
Mutation(s): Yes

Deposited: 2010-03-10 Released: 2011-02-16
Deposition Author(s): Du, S., Kettering, R.D., Alvarado, J.J., Tortajada, A., Yeh, J.I.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.45 Å
R-Value Free:
0.225 (Depositor), 0.231 (DCC)
R-Value Work:
0.209 (Depositor), 0.206 (DCC)
R-Value Observed:
0.210 (Depositor)

Starting Model: experimental
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This is version 1.3 of the entry. See complete history.

Literature

GCN4 Leucine Zipper Peptide Mutant

Du, S., Kettering, R.D., Alvarado, J.J., Tortajada, A., Yeh, J.I.

To be published.

Macromolecule Content

Total Structure Weight: 3.95 kDa
Atom Count: 319
Modeled Residue Count: 30
Deposited Residue Count: 33
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
General control protein GCN4	A	33	Saccharomyces cerevisiae	Mutation(s): 4
UniProt
Find proteins for P03069 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P03069 Go to UniProtKB: P03069
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P03069
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain B [auth A] SDF format, chain C [auth A] MOL2 format, chain B [auth A] MOL2 format, chain C [auth A] mmCIF format, chain B [auth A] mmCIF format, chain C [auth A]	B [auth A], C [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.45 Å
R-Value Free: 0.225 (Depositor), 0.231 (DCC)
R-Value Work: 0.209 (Depositor), 0.206 (DCC)
R-Value Observed: 0.210 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.275	α = 90
b = 31.275	β = 90
c = 57.507	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2011-02-16

Deposition Author(s):

Kettering, R.D.

Revision History (Full details and data files)

Version 1.0: 2011-02-16
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2021-10-06
Changes: Database references, Derived calculations
Version 1.3: 2023-09-06
Changes: Data collection, Refinement description

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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.