2MUM | pdb_00002mum

Solution structure of the PHD domain of Yeast YNG2

PDB DOI: https://doi.org/10.2210/pdb2MUM/pdb
BMRB: 25221

Classification: Transcription Regulator
Organism(s): Saccharomyces cerevisiae S288C
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-09-12 Released: 2014-12-24
Deposition Author(s): Taeb, S., Kaustov, L., Lemak, A., Farhadi, S., Sheng, Y.

Experimental Data Snapshot

Method: SOLUTION NMR
Conformers Calculated: 100
Conformers Submitted: 20
Selection Criteria: structures with the lowest energy

wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history.

Literature

Solution structure of the PHD domain of Yeast YNG2

Taeb, S., Kaustov, L., Lemak, A., Farhadi, S., Sheng, Y.

To be published.

Macromolecule Content

Total Structure Weight: 6.07 kDa
Atom Count: 415
Modeled Residue Count: 50
Deposited Residue Count: 50
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Chromatin modification-related protein YNG2	A	50	Saccharomyces cerevisiae S288C	Mutation(s): 0 Gene Names: YNG2, EAF4, NBN1, YHR090C
UniProt
Find proteins for P38806 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P38806 Go to UniProtKB: P38806
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P38806
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: SOLUTION NMR
Conformers Calculated: 100
Conformers Submitted: 20
Selection Criteria: structures with the lowest energy

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2014-12-24

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-12-24
Type: Initial release
Version 1.1: 2023-06-14
Changes: Data collection, Database references, Derived calculations, Other
Version 1.2: 2024-05-15
Changes: Data collection, Database references

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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.