8K2V

3-Methylcrotonyl-CoA Carboxylase in MCCD state with Acetyl CoA

PDB DOI: https://doi.org/10.2210/pdb8K2V/pdb
EM Map EMD-36840: EMDB EMDataResource

Classification: CYTOSOLIC PROTEIN
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2023-07-13 Released: 2024-07-10
Deposition Author(s): Liu, D.S., Su, J.Y., Tian, X.Y.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.52 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

3-Methylcrotonyl-CoA Carboxylase in BCCP-CTS-CoA state

Liu, D.S., Su, J.Y.

To be published.

Macromolecule Content

Total Structure Weight: 858.17 kDa
Atom Count: 35,202
Modelled Residue Count: 4,530
Deposited Residue Count: 7,728
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Methylcrotonoyl-CoA carboxylase subunit alpha, mitochondrial	A, B, C, D, E A, B, C, D, E, F	725	Homo sapiens	Mutation(s): 0 Gene Names: MCCC1, MCCA EC: 6.4.1.4
UniProt & NIH Common Fund Data Resources
Find proteins for Q96RQ3 (Homo sapiens) Explore Q96RQ3 Go to UniProtKB: Q96RQ3
GTEx: ENSG00000078070
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q96RQ3
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Methylcrotonoyl-CoA carboxylase beta chain, mitochondrial	G H [auth I] I [auth J] J [auth K] K [auth L] G, H [auth I], I [auth J], J [auth K], K [auth L], L [auth H]	563	Homo sapiens	Mutation(s): 0 Gene Names: MCCC2, MCCB EC: 6.4.1.4
UniProt & NIH Common Fund Data Resources
Find proteins for Q9HCC0 (Homo sapiens) Explore Q9HCC0 Go to UniProtKB: Q9HCC0
PHAROS: Q9HCC0 GTEx: ENSG00000131844
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9HCC0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ACO (Subject of Investigation/LOI) Query on ACO Download Ideal Coordinates CCD File SDF format, chain S [auth G] SDF format, chain T [auth I] SDF format, chain U [auth J] SDF format, chain V [auth K] SDF format, chain W [auth L] SDF format, chain X [auth H] MOL2 format, chain S [auth G] MOL2 format, chain T [auth I] MOL2 format, chain U [auth J] MOL2 format, chain V [auth K] MOL2 format, chain W [auth L] MOL2 format, chain X [auth H]	S [auth G] T [auth I] U [auth J] V [auth K] W [auth L] S [auth G], T [auth I], U [auth J], V [auth K], W [auth L], X [auth H]	*ACETYL COENZYME A** C₂₃ H₃₈ N₇ O₁₇ P₃ S ZSLZBFCDCINBPY-ZSJPKINUSA-N		Interactions Focus chain S [auth G] Focus chain T [auth I] Focus chain U [auth J] Focus chain V [auth K] Focus chain W [auth L] Focus chain X [auth H] Interactions & Density Focus chain S [auth G] Focus chain T [auth I] Focus chain U [auth J] Focus chain V [auth K] Focus chain W [auth L] Focus chain X [auth H]
BTI (Subject of Investigation/LOI) Query on BTI Download Ideal Coordinates CCD File SDF format, chain M [auth A] SDF format, chain N [auth B] SDF format, chain O [auth C] SDF format, chain P [auth D] SDF format, chain Q [auth E] SDF format, chain R [auth F] MOL2 format, chain M [auth A] MOL2 format, chain N [auth B] MOL2 format, chain O [auth C] MOL2 format, chain P [auth D] MOL2 format, chain Q [auth E] MOL2 format, chain R [auth F]	M [auth A] N [auth B] O [auth C] P [auth D] Q [auth E] M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F]	5-(HEXAHYDRO-2-OXO-1H-THIENO[3,4-D]IMIDAZOL-6-YL)PENTANAL C₁₀ H₁₆ N₂ O₂ S ARDNWGMSCXSPBF-CIUDSAMLSA-N		Interactions Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R [auth F] Interactions & Density Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R [auth F]