7UVE | pdb_00007uve

Drosophila melanogaster setdb1-tuor domain with peptide H3K9me2K14ac

PDB DOI: https://doi.org/10.2210/pdb7UVE/pdb

Classification: TRANSFERASE
Organism(s): Drosophila melanogaster, Drosophila sechellia
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2022-05-01 Released: 2022-08-10
Deposition Author(s): Zhou, M., Dong, A., Liu, K., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)
Funding Organization(s): Other private

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free:
0.289 (Depositor), 0.300 (DCC)
R-Value Work:
0.246 (Depositor), 0.240 (DCC)
R-Value Observed:
0.249 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

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

Literature

Drosophila melanogaster setdb1-tuor domain with peptide H3K9me2K14ac

Zhou, M., Dong, A., Liu, K., Arrowsmith, C.H., Edwards, A.M., Min, J., Structural Genomics Consortium (SGC)

To be published.

Macromolecule Content

Total Structure Weight: 31.45 kDa
Atom Count: 1,886
Modeled Residue Count: 236
Deposited Residue Count: 274
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Histone-lysine N-methyltransferase eggless	A	257	Drosophila melanogaster	Mutation(s): 0 Gene Names: egg, CG12196 EC: 2.1.1.355
UniProt
Find proteins for Q32KD2 (Drosophila melanogaster) Explore Q32KD2 Go to UniProtKB: Q32KD2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q32KD2
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
peptide H3K9me2K14ac	B	17	Drosophila sechellia	Mutation(s): 0
UniProt
Find proteins for B4I1C5 (Drosophila sechellia) Explore B4I1C5 Go to UniProtKB: B4I1C5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B4I1C5
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
ALY Query on ALY	B	L-PEPTIDE LINKING	C₈ H₁₆ N₂ O₃		LYS
MLZ Query on MLZ	B	L-PEPTIDE LINKING	C₇ H₁₆ N₂ O₂		LYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.289 (Depositor), 0.300 (DCC)
R-Value Work: 0.246 (Depositor), 0.240 (DCC)
R-Value Observed: 0.249 (Depositor)

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.269	α = 90
b = 111.134	β = 90
c = 112.149	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
HKL-2000	data scaling
PHASER	phasing
PDB_EXTRACT	data extraction
HKL-3000	data reduction

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2022-08-10

Deposition Author(s):

Arrowsmith, C.H.

Structural Genomics Consortium (SGC)

Funding Organization	Location	Grant Number
Other private		--

Revision History (Full details and data files)

Version 1.0: 2022-08-10
Type: Initial release
Version 1.1: 2023-10-18
Changes: Data collection, Refinement description
Version 1.2: 2023-11-15
Changes: Data collection

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.