8X2A | pdb_00008x2a

The Crystal Structure of BMX from Biortus.

• PDB DOI: https://doi.org/10.2210/pdb8X2A/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2023-11-09 Released: 2023-12-27 
• Deposition Author(s): Wang, F., Cheng, W., Yuan, Z., Lin, D., Pan, W.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free: 
  0.161 (Depositor), 0.170 (DCC) 
• R-Value Work: 
  0.128 (Depositor), 0.130 (DCC) 

Starting Model: experimental

Literature

The Crystal Structure of BMX from Biortus.

Wang, F., Cheng, W., Yuan, Z., Lin, D., Pan, W.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 31.61 kDa 
• Atom Count: 2,628 
• Modeled Residue Count: 259 
• Deposited Residue Count: 266 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytoplasmic tyrosine-protein kinase BMX	A	266	Homo sapiens	Mutation(s): 0  Gene Names: BMX EC: 2.7.10.2
UniProt & NIH Common Fund Data Resources
Find proteins for P51813 (Homo sapiens) Explore P51813  Go to UniProtKB:  P51813
PHAROS:  P51813 GTEx:  ENSG00000102010

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
LTJ	B [auth A]	4-[(3S)-3-{[(2E)-but-2-enoyl]amino}piperidin-1-yl]-5-fluoro-2,3-dimethyl-1H-indole-7-carboxamide C20 H25 F N4 O2 BCSXUDNOTSZTNK-BPJJOFIESA-N
IMD (Subject of Investigation/LOI)	C [auth A]	IMIDAZOLE C3 H5 N2 RAXXELZNTBOGNW-UHFFFAOYSA-O
EDO (Subject of Investigation/LOI)	D [auth A], E [auth A], F [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL (Subject of Investigation/LOI)	G [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.30 Å
• R-Value Free:  0.161 (Depositor), 0.170 (DCC) 
• R-Value Work:  0.128 (Depositor), 0.130 (DCC) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.372	α = 90
b = 67.475	β = 90
c = 76.519	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-12-27 
Deposition Author(s): Wang, F., Cheng, W., Yuan, Z., Lin, D., Pan, W.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2023-12-27
  Type: Initial release
  
• Version 1.1: 2024-10-30
  Changes: Structure summary