3GLK | pdb_00003glk

The biotin carboxylase (BC) domain of human Acetyl-CoA Carboxylase 2 (ACC2)

PDB DOI: https://doi.org/10.2210/pdb3GLK/pdb

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

Deposited: 2009-03-12 Released: 2009-03-24
Deposition Author(s): Price, A., Kulathila, R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free:
0.247 (Depositor), 0.237 (DCC)
R-Value Work:
0.212 (Depositor), 0.205 (DCC)
R-Value Observed:
0.212 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3GLK

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

Literature

Synthesis and characterization of a BODIPY-labeled derivative of Soraphen A that binds to acetyl-CoA carboxylase.

Raymer, B., Kavana, M., Price, A., Wang, B., Corcoran, L., Kulathila, R., Groarke, J., Mann, T.

(2009) Bioorg Med Chem Lett 19: 2804-2807

PubMed: 19359168 Search on PubMed
DOI: https://doi.org/10.1016/j.bmcl.2009.03.107
Primary Citation Related Structures:
3GID, 3GLK

PubMed Abstract:
BODIPY-labeled Soraphen A derivative 4 was synthesized and characterized as an acetyl-CoA carboxylase (ACC) binder. Biophysical measurements indicate that the molecule binds in the biotin carboxylase domain where Soraphen A has been shown to bind. The fluorescent label of the BODIPY can be used to biophysically identify a compound that binds to the Soraphen A site of the biotin carboxylase domain versus the carboxytransferase domain of ACC.

Organizational Affiliation

Novartis Institutes for BioMedical Research, Cambridge, MA 02139, United States. brian.raymer@novartis.com

Macromolecule Content

Total Structure Weight: 60.09 kDa
Atom Count: 3,935
Modeled Residue Count: 465
Deposited Residue Count: 540
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acetyl-CoA carboxylase 2	A	540	Homo sapiens	Mutation(s): 0 Gene Names: ACACB, ACC2, ACCB EC: 6.4.1.2 (PDB Primary Data), 6.3.4.14 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for O00763 (Homo sapiens) Explore O00763 Go to UniProtKB: O00763
PHAROS: O00763 GTEx: ENSG00000076555
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O00763
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.247 (Depositor), 0.237 (DCC)
R-Value Work: 0.212 (Depositor), 0.205 (DCC)
R-Value Observed: 0.212 (Depositor)

Space Group: P 4₃ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 97.536	α = 90
b = 97.536	β = 90
c = 127.157	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
PHASER	phasing
CNX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2009-03-24

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2009-03-24
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2014-12-10
Changes: Database references
Version 1.3: 2024-02-21
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.