6Y43 | pdb_00006y43

Fibrinogen-like globe domain of human ANGPTL6

• PDB DOI: https://doi.org/10.2210/pdb6Y43/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2020-02-19 Released: 2020-03-04 
• Deposition Author(s): Coker, J.A., Krojer, T., Mutisya, J.M., Arrowsmith, C.H., Bountra, C., Midwood, K.S., Yue, W.W., Marsden, B.D., Structural Genomics Consortium (SGC)
• Funding Organization(s): Innovative Medicines Initiative

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.208 (Depositor), 0.210 (DCC) 
• R-Value Work: 
  0.172 (Depositor), 0.174 (DCC) 
• R-Value Observed: 
  0.174 (Depositor) 

Starting Model: experimental

Literature

Fibrinogen-like globe domain of human ANGPTL6

Coker, J.A., Krojer, T., Mutisya, J.M., Arrowsmith, C.H., Bountra, C., Midwood, K.S., Yue, W.W., Marsden, B.D., Structural Genomics Consortium (SGC)

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 25.98 kDa 
• Atom Count: 2,005 
• Modeled Residue Count: 222 
• Deposited Residue Count: 222 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Angiopoietin-related protein 6	A	222	Homo sapiens	Mutation(s): 0  Gene Names: ANGPTL6, AGF, ARP5, UNQ152/PRO178
UniProt & NIH Common Fund Data Resources
Find proteins for Q8NI99 (Homo sapiens) Explore Q8NI99  Go to UniProtKB:  Q8NI99
PHAROS:  Q8NI99 GTEx:  ENSG00000130812

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EPE	F [auth A]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C8 H18 N2 O4 S JKMHFZQWWAIEOD-UHFFFAOYSA-N
EDO	C [auth A], D [auth A], E [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CA	B [auth A]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.208 (Depositor), 0.210 (DCC) 
• R-Value Work:  0.172 (Depositor), 0.174 (DCC) 
• R-Value Observed: 0.174 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 39.382	α = 90
b = 65.111	β = 90
c = 76.306	γ = 90

Software Package:

Software Name	Purpose
xia2	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
DIALS	data processing
DIALS	data reduction

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2020-03-04 
Deposition Author(s): Coker, J.A., Krojer, T., Mutisya, J.M., Arrowsmith, C.H., Bountra, C., Midwood, K.S., Yue, W.W., Marsden, B.D., Structural Genomics Consortium (SGC)

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Funding Organization	Location	Grant Number
Innovative Medicines Initiative	United Kingdom	115766

Revision History  

• Version 1.0: 2020-03-04
  Type: Initial release
  
• Version 1.1: 2024-01-24
  Changes: Data collection, Database references, Refinement description
• Version 1.2: 2024-10-16
  Changes: Structure summary