5W7C

Human acyloxyacyl hydrolase (AOAH), proteolytically processed, S263A mutant, with LPS

• PDB DOI: https://doi.org/10.2210/pdb5W7C/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): Yes 
• Membrane Protein: Yes  OPM


• Deposited: 2017-06-19 Released: 2018-01-03 
• Deposition Author(s): Gorelik, A., Illes, K., Nagar, B.
• Funding Organization(s): Canadian Institutes of Health Research (CIHR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free: 0.245 
• R-Value Work: 0.211 
• R-Value Observed: 0.213 

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 132.69 kDa 
• Atom Count: 9,075 
• Modelled Residue Count: 1,061 
• Deposited Residue Count: 1,124 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acyloxyacyl hydrolase	A, C [auth B]	139	Homo sapiens	Mutation(s): 0  Gene Names: AOAH EC: 3.1.1.77 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P28039 (Homo sapiens) Explore P28039  Go to UniProtKB:  P28039
PHAROS:  P28039 GTEx:  ENSG00000136250

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Acyloxyacyl hydrolase	B [auth C], D	423	Homo sapiens	Mutation(s): 1  Gene Names: AOAH EC: 3.1.1.77 Membrane Entity: Yes
UniProt & NIH Common Fund Data Resources
Find proteins for P28039 (Homo sapiens) Explore P28039  Go to UniProtKB:  P28039
PHAROS:  P28039 GTEx:  ENSG00000136250

Oligosaccharides

Help

Entity ID: 3
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	E, F, G, H	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
FTT	J [auth A], P [auth C], Q [auth C], S [auth B], Y [auth D], Z [auth D]	3-HYDROXY-TETRADECANOIC ACID C14 H28 O3 ATRNZOYKSNPPBF-CYBMUJFWSA-N
NAG	I [auth A], N [auth C], R [auth B], W [auth D]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
DAO	O [auth C], X [auth D]	LAURIC ACID C12 H24 O2 POULHZVOKOAJMA-UHFFFAOYSA-N
CA	K [auth C], L [auth C], M [auth C], T [auth D], U [auth D], V [auth D]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.23 Å
• R-Value Free: 0.245 
• R-Value Work: 0.211 
• R-Value Observed: 0.213 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.17	α = 90
b = 104.08	β = 90
c = 145.28	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2018-01-03 
Deposition Author(s): Gorelik, A., Illes, K., Nagar, B.

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Funding Organization	Location	Grant Number
Canadian Institutes of Health Research (CIHR)	Canada	MOP-133535

Revision History  

• Version 1.0: 2018-01-03
  Type: Initial release
  
• Version 1.1: 2018-01-17
  Changes: Database references
• Version 1.2: 2018-01-31
  Changes: Database references
• Version 1.3: 2018-02-14
  Changes: Database references
• Version 1.4: 2020-01-08
  Changes: Author supporting evidence
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary