8XL9 | pdb_00008xl9

Structure of human pyruvate carboxylase

PDB DOI: https://doi.org/10.2210/pdb8XL9/pdb
EM Map EMD-38442: EMDB EMDataResource

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

Deposited: 2023-12-25 Released: 2024-11-13
Deposition Author(s): Zhou, F.Y., Zhang, Y.Y., Zhou, Q., Hu, Q.
Funding Organization(s): Westlake Education Foundation

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.61 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8XL9

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

Literature

Structural insights into human propionyl-CoA carboxylase (PCC) and 3-methylcrotonyl-CoA carboxylase (MCC).

Zhou, F.Y., Zhang, Y.Y., Zhu, Y., Zhou, Q., Shi, Y., Hu, Q.

(2024) Elife

DOI: https://doi.org/10.7554/eLife.98885.2

Macromolecule Content

Total Structure Weight: 520.17 kDa
Atom Count: 21,044
Modeled Residue Count: 2,732
Deposited Residue Count: 4,712
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Pyruvate carboxylase, mitochondrial	A, B, C, D	1,178	Homo sapiens	Mutation(s): 0 EC: 6.4.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for P11498 (Homo sapiens) Explore P11498 Go to UniProtKB: P11498
PHAROS: P11498 GTEx: ENSG00000173599
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P11498
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
BTN (Subject of Investigation/LOI) Query on BTN Download:Ideal Coordinates CCD File SDF format, chain H [auth D] SDF format, chain G [auth C] SDF format, chain F [auth B] SDF format, chain E [auth A] MOL2 format, chain H [auth D] MOL2 format, chain G [auth C] MOL2 format, chain F [auth B] MOL2 format, chain E [auth A] mmCIF format, chain H [auth D] mmCIF format, chain G [auth C] mmCIF format, chain F [auth B] mmCIF format, chain E [auth A]	E [auth A], F [auth B], G [auth C], H [auth D]	BIOTIN C₁₀ H₁₆ N₂ O₃ S YBJHBAHKTGYVGT-ZKWXMUAHSA-N		Interactions Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D] Interactions & Density Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth C] Focus chain H [auth D]

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.61 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2024-11-13

Deposition Author(s):

Funding Organization	Location	Grant Number
Westlake Education Foundation	China	101256021901

Revision History (Full details and data files)

Version 1.0: 2024-11-13
Type: Initial release
Version 1.1: 2024-11-27
Changes: Data collection

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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.