1ZR3 | pdb_00001zr3

Crystal structure of the macro-domain of human core histone variant macroH2A1.1 (form B)

PDB DOI: https://doi.org/10.2210/pdb1ZR3/pdb

Classification: GENE REGULATION
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2005-05-19 Released: 2006-02-14
Deposition Author(s): Kustatscher, G., Hothorn, M., Pugieux, C., Scheffzek, K., Ladurner, A.G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.66 Å
R-Value Free:
0.232 (Depositor), 0.236 (DCC)
R-Value Work:
0.188 (Depositor), 0.195 (DCC)
R-Value Observed:
0.190 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 1ZR3

This is version 1.3 of the entry. See complete history.

Literature

Splicing regulates NAD metabolite binding to histone macroH2A.

Kustatscher, G., Hothorn, M., Pugieux, C., Scheffzek, K., Ladurner, A.G.

(2005) Nat Struct Mol Biol 12: 624-625

PubMed: 15999106 Search on PubMed
DOI: https://doi.org/10.1038/nsmb0705-560
Primary Citation Related Structures:
1ZR3

Macromolecule Content

Total Structure Weight: 89.29 kDa
Atom Count: 6,180
Modeled Residue Count: 740
Deposited Residue Count: 844
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
histone macroH2A1.1	A, B, C, D	211	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O75367 (Homo sapiens) Explore O75367 Go to UniProtKB: O75367
PHAROS: O75367 GTEx: ENSG00000113648
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O75367
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MES Query on MES Download:Ideal Coordinates CCD File SDF format, chain E [auth A] MOL2 format, chain E [auth A] mmCIF format, chain E [auth A]	E [auth A]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C₆ H₁₃ N O₄ S SXGZJKUKBWWHRA-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Interactions & Density Focus chain E [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.66 Å
R-Value Free: 0.232 (Depositor), 0.236 (DCC)
R-Value Work: 0.188 (Depositor), 0.195 (DCC)
R-Value Observed: 0.190 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 80.9	α = 90
b = 89.2	β = 90
c = 92.73	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
PHASER	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2006-02-14

Deposition Author(s):

Kustatscher, G.

Revision History (Full details and data files)

Version 1.0: 2006-02-14
Type: Initial release
Version 1.1: 2008-04-30
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.3: 2023-08-23
Changes: Data collection, Database references, Derived calculations, 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.