8GTX | pdb_00008gtx

Crystal Structure of human Spindlin1-HBx complex

• PDB DOI: https://doi.org/10.2210/pdb8GTX/pdb

• Classification: STRUCTURAL PROTEIN
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2022-09-09 Released: 2023-09-13 
• Deposition Author(s): Li, H., Liu, W.
• Funding Organization(s): National Natural Science Foundation of China (NSFC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.197 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.163 (Depositor), 0.160 (DCC) 
• R-Value Observed: 
  0.165 (Depositor) 

Literature

Crystal Structure of human Spindlin1-HBx complex

Liu, W., Li, H.T.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 27.25 kDa 
• Atom Count: 2,085 
• Modeled Residue Count: 220 
• Deposited Residue Count: 238 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Spindlin-1	A	218	Homo sapiens	Mutation(s): 0  Gene Names: SPIN1, OCR, SPIN
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y657 (Homo sapiens) Explore Q9Y657  Go to UniProtKB:  Q9Y657
PHAROS:  Q9Y657 GTEx:  ENSG00000106723

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
HBx	B	20	synthetic construct	Mutation(s): 0
UniProt
Find proteins for Q69607 (Hepatitis B virus genotype F2 subtype adw4q (isolate Senegal/9203)) Explore Q69607  Go to UniProtKB:  Q69607

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL (Subject of Investigation/LOI)	C [auth A], D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.197 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.163 (Depositor), 0.160 (DCC) 
• R-Value Observed: 0.165 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 47.788	α = 90
b = 67.096	β = 90
c = 93.695	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data scaling
PHENIX	refinement
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-09-13 
Deposition Author(s): Li, H., Liu, W.

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Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	92153302

Revision History  

• Version 1.0: 2023-09-13
  Type: Initial release