2YYN

Crystal structure of human bromodomain protein

PDB DOI: https://doi.org/10.2210/pdb2YYN/pdb

Classification: TRANSCRIPTION
Organism(s): Homo sapiens
Mutation(s): No

Deposited: 2007-04-30 Released: 2008-05-06
Deposition Author(s): Kishishita, S., Uchikubo-Kamo, T., Murayama, K., Terada, T., Shirouzu, M., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free: 0.285
R-Value Work: 0.239
R-Value Observed: 0.239

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of human bromodomain protein

Kishishita, S., Uchikubo-Kamo, T., Murayama, K., Terada, T., Shirouzu, M., Yokoyama, S.

To be published.

Macromolecule Content

Total Structure Weight: 61.95 kDa
Atom Count: 3,896
Modelled Residue Count: 453
Deposited Residue Count: 540
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcription intermediary factor 1-alpha	A, B, C, D	135	Homo sapiens	Mutation(s): 0 Gene Names: TRIM24, RNF82, TIF1, TIF1A
UniProt & NIH Common Fund Data Resources
Find proteins for O15164 (Homo sapiens) Explore O15164 Go to UniProtKB: O15164
PHAROS: O15164 GTEx: ENSG00000122779
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O15164
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free: 0.285
R-Value Work: 0.239
R-Value Observed: 0.239
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 75.855	α = 90
b = 76.16	β = 90
c = 107.599	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
SOLVE	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2008-05-06

Deposition Author(s):

Uchikubo-Kamo, T.

RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History (Full details and data files)

Version 1.0: 2008-05-06
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2020-09-09
Changes: Database references, Structure summary
Version 1.3: 2022-12-21
Changes: Database references

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.