6E0W | pdb_00006e0w

Crystal structure of the colanidase tailspike protein gp150 of Phage Phi92 complexed with one repeating unit of colanic acid

• PDB DOI: https://doi.org/10.2210/pdb6E0W/pdb

• Classification: HYDROLASE
• Organism(s): Escherichia phage phi92
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-07-07 Released: 2019-07-17 
• Deposition Author(s): Plattner, M., Browning, C., Gerardy-Schahn, R., Shneider, M.M., Leiman, P.G., Schwarzer, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.176 (Depositor), 0.180 (DCC) 
• R-Value Work: 
  0.153 (Depositor), 0.159 (DCC) 
• R-Value Observed: 
  0.153 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of the colanidase tailspike protein gp150 of Phage Phi92 complexed with one repeating unit of colanic acid

Browning, C., Plattner, M., Shneider, M.M., Gerardy-Schahn, R., Leiman, P.G., Schwarzer, D.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content 

• Total Structure Weight: 138.14 kDa 
• Atom Count: 10,586 
• Modeled Residue Count: 1,204 
• Deposited Residue Count: 1,252 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bacteriophage Phi92 gp150	A, B	626	Escherichia phage phi92	Mutation(s): 0  Gene Names: PHI92_gene_150, PHI92_150
UniProt
Find proteins for I7I026 (Escherichia phage phi92) Explore I7I026  Go to UniProtKB:  I7I026

Oligosaccharides

Help  

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	D Interactions
4,6-O-[(1R)-1-carboxyethylidene]-D-galactopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-3)-alpha-D-galactopyranose-(1-3)-alpha-L-fucopyranose-(1-4)-alpha-L-fucopyranose-(1-3)-beta-D-glucopyranose	C, D	6		N/A
Glycosylation Resources
GlyTouCan: G45627VW GlyCosmos: G45627VW

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PG4	S [auth B]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N
SO4	E [auth A], F [auth A], G [auth A], H [auth A], J [auth B], K [auth B], L [auth B], M [auth B], N [auth B], O [auth B]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
EDO	R [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
MG	I [auth A], P [auth B], Q [auth B]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.176 (Depositor), 0.180 (DCC) 
• R-Value Work:  0.153 (Depositor), 0.159 (DCC) 
• R-Value Observed: 0.153 (Depositor) 

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 117.623	α = 90
b = 117.623	β = 90
c = 308.282	γ = 120

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2019-07-17 
Deposition Author(s): Plattner, M., Browning, C., Gerardy-Schahn, R., Shneider, M.M., Leiman, P.G., Schwarzer, D.

Revision History  

• Version 1.0: 2019-07-17
  Type: Initial release
  
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2023-10-11
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary
• Version 3.0: 2025-04-16
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Non-polymer description, Other, Structure summary