5HCE

Ternary complex of human Complement C5 with Ornithodoros moubata OmCI and Rhipicephalus appendiculatus RaCI1

• PDB DOI: https://doi.org/10.2210/pdb5HCE/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens, Ornithodoros moubata, Rhipicephalus appendiculatus
• Expression System: Kluyveromyces lactis, Escherichia coli K-12
• Mutation(s): Yes 


• Deposited: 2016-01-04 Released: 2016-03-30 
• Deposition Author(s): Jore, M.M., Johnson, S., Lea, S.M.
• Funding Organization(s): Wellcome Trust, Netherlands Organisation for Scientific Research

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.12 Å
• R-Value Free: 0.281 
• R-Value Work: 0.267 
• R-Value Observed: 0.268 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 

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

Macromolecule Content

• Total Structure Weight: 213.82 kDa 
• Atom Count: 14,418 
• Modelled Residue Count: 1,824 
• Deposited Residue Count: 1,900 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Complement C5	A [auth B]	656	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P01031 (Homo sapiens) Explore P01031  Go to UniProtKB:  P01031
PHAROS:  P01031 GTEx:  ENSG00000106804

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Complement C5	B [auth A]	998	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P01031 (Homo sapiens) Explore P01031  Go to UniProtKB:  P01031
PHAROS:  P01031 GTEx:  ENSG00000106804

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Complement inhibitor	C	165	Ornithodoros moubata	Mutation(s): 2  Gene Names: CI
UniProt
Find proteins for Q5YD59 (Ornithodoros moubata) Explore Q5YD59  Go to UniProtKB:  Q5YD59

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Rhipicephalus appendiculatus RaCI1	D	81	Rhipicephalus appendiculatus	Mutation(s): 0
UniProt
Find proteins for A0A141SFN4 (Rhipicephalus appendiculatus) Explore A0A141SFN4  Go to UniProtKB:  A0A141SFN4

Oligosaccharides

Help

Entity ID: 5
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	2		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G42666HT GlyCosmos:  G42666HT GlyGen:  G42666HT

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CYS	F [auth A]	CYSTEINE C3 H7 N O2 S XUJNEKJLAYXESH-REOHCLBHSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.12 Å
• R-Value Free: 0.281 
• R-Value Work: 0.267 
• R-Value Observed: 0.268 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 105.26	α = 90
b = 140.725	β = 90
c = 210.367	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
xia2	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-03-30 
Deposition Author(s): Jore, M.M., Johnson, S., Lea, S.M.

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Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	100298
Netherlands Organisation for Scientific Research	Netherlands	825.11.030

Revision History  

• Version 1.0: 2016-03-30
  Type: Initial release
  
• Version 1.1: 2016-04-06
  Changes: Database references
• Version 1.2: 2018-01-17
  Changes: Experimental preparation
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2024-01-10
  Changes: Data collection, Database references, Refinement description, Structure summary