4JJC | pdb_00004jjc

Crystal structure of the Abl-SH3 domain at pH5

PDB DOI: https://doi.org/10.2210/pdb4JJC/pdb

Classification: TRANSFERASE
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2013-03-07 Released: 2014-03-12
Deposition Author(s): Camara-Artigas, A., Martin-Garcia, J.M.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free:
0.218 (Depositor), 0.222 (DCC)
R-Value Work:
0.174 (Depositor), 0.185 (DCC)
R-Value Observed:
0.176 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 4JJC

This is version 1.1 of the entry. See complete history.

Literature

Crystal structure of the Abl-SH3 domain at pH5

Camara-Artigas, A., Martin-Garcia, J.M.

To be published.

Macromolecule Content

Total Structure Weight: 7.12 kDa
Atom Count: 536
Modeled Residue Count: 58
Deposited Residue Count: 63
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Tyrosine-protein kinase ABL1	A	63	Homo sapiens	Mutation(s): 0 Gene Names: ABL, ABL1, JTK7 EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for P00519 (Homo sapiens) Explore P00519 Go to UniProtKB: P00519
PHAROS: P00519 GTEx: ENSG00000097007
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P00519
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.60 Å
R-Value Free: 0.218 (Depositor), 0.222 (DCC)
R-Value Work: 0.174 (Depositor), 0.185 (DCC)
R-Value Observed: 0.176 (Depositor)

Space Group: P 3₂ 1 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.288	α = 90
b = 50.288	β = 90
c = 45.167	γ = 120

Software Package:

Software Name	Purpose
SAINT	data scaling
SCALA	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
ADSC	data collection
HKL-2000	data reduction

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2014-03-12

Deposition Author(s):

Camara-Artigas, A.

Martin-Garcia, J.M.

Revision History (Full details and data files)

Version 1.0: 2014-03-12
Type: Initial release
Version 1.1: 2023-11-08
Changes: Data collection, Database references, Derived calculations, Refinement description

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.