6Z1X

Crystal structure of human steroid carrier protein SL (SCP-2L) mutant V83C

• PDB DOI: https://doi.org/10.2210/pdb6Z1X/pdb

• Classification: OXIDOREDUCTASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2020-05-14 Released: 2021-03-03 
• Deposition Author(s): Rozeboom, H.J., Janssen, D.B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 0.237 
• R-Value Work: 0.181 
• R-Value Observed: 0.183 

Starting Model: experimental

Literature

Engineering Thermostability in Artificial Metalloenzymes to Increase Catalytic Activity

Doble, M.V., Obrecht, L., Joosten, H.J., Lee, M., Rozeboom, H.J., Branigan, E., Naismith, J.H., Janssen, D.B., Jarvis, A.G., Kamer, P.C.J.

(2021) ACS Catal 11: 3620-3627

• DOI: https://doi.org/10.1021/acscatal.0c05413

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 14.66 kDa 
• Atom Count: 1,017 
• Modelled Residue Count: 115 
• Deposited Residue Count: 120 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Peroxisomal multifunctional enzyme type 2	A	120	Homo sapiens	Mutation(s): 1  Gene Names: HSD17B4, EDH17B4, SDR8C1 EC: 1.1.1 (PDB Primary Data), 4.2.1.107 (PDB Primary Data), 4.2.1.119 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P51659 (Homo sapiens) Explore P51659  Go to UniProtKB:  P51659
PHAROS:  P51659 GTEx:  ENSG00000133835

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
OXN	B [auth A], C [auth A]	OXTOXYNOL-10 C34 H62 O11 IVKNZCBNXPYYKL-UHFFFAOYSA-N
SO4	D [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 0.237 
• R-Value Work: 0.181 
• R-Value Observed: 0.183 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 35.69	α = 90
b = 48.85	β = 90
c = 63.74	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data reduction
Aimless	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-03-03 
Deposition Author(s): Rozeboom, H.J., Janssen, D.B.

Revision History  

• Version 1.0: 2021-03-03
  Type: Initial release
  
• Version 1.1: 2021-09-15
  Changes: Database references
• Version 1.2: 2024-01-24
  Changes: Data collection, Refinement description