3R6F | pdb_00003r6f

Crystal structure of a zinc-containing HIT family protein from Encephalitozoon cuniculi

• PDB DOI: https://doi.org/10.2210/pdb3R6F/pdb

• Classification: HYDROLASE
• Organism(s): Encephalitozoon cuniculi GB-M1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-03-21 Released: 2011-03-30 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free: 
  0.243 (Depositor), 0.223 (DCC) 
• R-Value Work: 
  0.207 (Depositor), 0.207 (DCC) 
• R-Value Observed: 
  0.208 (Depositor) 

Literature

Crystal structure of a zinc-containing HIT family protein from Encephalitozoon cuniculi

Edwards, T.E., Abendroth, J., Leonard, J., Seattle Structural Genomics Center for Infectious Disease (SSGCID)

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 16.04 kDa 
• Atom Count: 1,136 
• Modeled Residue Count: 130 
• Deposited Residue Count: 135 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HIT family protein	A	135	Encephalitozoon cuniculi GB-M1	Mutation(s): 0  Gene Names: ECU08_0390
UniProt
Find proteins for Q8SRE4 (Encephalitozoon cuniculi (strain GB-M1)) Explore Q8SRE4  Go to UniProtKB:  Q8SRE4

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MPD	D [auth A]	(4S)-2-METHYL-2,4-PENTANEDIOL C6 H14 O2 SVTBMSDMJJWYQN-YFKPBYRVSA-N
SO4	C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
ZN	B [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.85 Å
• R-Value Free:  0.243 (Depositor), 0.223 (DCC) 
• R-Value Work:  0.207 (Depositor), 0.207 (DCC) 
• R-Value Observed: 0.208 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M33R6F

Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 44.57	α = 90
b = 44.57	β = 90
c = 233.31	γ = 120

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
StructureStudio	data collection
XDS	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-03-30 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2011-03-30
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-02-21
  Changes: Data collection, Database references, Derived calculations