1AY2

STRUCTURE OF THE FIBER-FORMING PROTEIN PILIN AT 2.6 ANGSTROMS RESOLUTION

• PDB DOI: https://doi.org/10.2210/pdb1AY2/pdb

• Classification: CELL ADHESION
• Organism(s): Neisseria gonorrhoeae
• Mutation(s): No 
• Membrane Protein: Yes  MemProtMD


• Deposited: 1997-11-13 Released: 1998-04-29 
• Deposition Author(s): Forest, K.T., Parge, H.E., Tainer, J.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Work: 0.194 
• R-Value Observed: 0.194 

Literature

Structure of the fibre-forming protein pilin at 2.6 A resolution.

Parge, H.E., Forest, K.T., Hickey, M.J., Christensen, D.A., Getzoff, E.D., Tainer, J.A.

(1995) Nature 378: 32-38

• PubMed: 7477282 
• DOI: https://doi.org/10.1038/378032a0
• Primary Citation of Related Structures:  
  1AY2


• PubMed Abstract: 
  

  The crystallographic structure of Neisseria gonorrhoeae pilin, which assembles into the multifunctional pilus adhesion and virulence factor, reveals an alpha-beta roll fold with a striking 85 A alpha-helical spine and an O-linked disaccharide. Key residues stabilize interactions that allow sequence hypervariability, responsible for pilin's celebrated antigenic variation, within disulphide region beta-strands and connections. Pilin surface shape, hydrophobicity and sequence variation constrain pilus assembly to the packing of flat subunit faces against alpha 1 helices. Helical fibre assembly is postulated to form a core of coiled alpha 1 helices banded by beta-sheet, leaving carbohydrate and hypervariable sequence regions exposed to solvent.

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Organizational Affiliation: 

Department of Molecular Biology, Scripps Research Institute, La Jolla, California 92037, USA.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 17.92 kDa 
• Atom Count: 1,373 
• Modelled Residue Count: 158 
• Deposited Residue Count: 158 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TYPE 4 PILIN	A	158	Neisseria gonorrhoeae	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for P02974 (Neisseria gonorrhoeae) Explore P02974  Go to UniProtKB:  P02974
Glycosylation
Glycosylation Sites: 1

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose	B	2		O-Glycosylation
Glycosylation Resources
GlyTouCan:  G15031WB GlyCosmos:  G15031WB GlyGen:  G15031WB

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PT	C [auth A]	PLATINUM (II) ION Pt HRGDZIGMBDGFTC-UHFFFAOYSA-N
HTO	D [auth A]	HEPTANE-1,2,3-TRIOL C7 H16 O3 HXYCHJFUBNTKQR-RNFRBKRXSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Work: 0.194 
• R-Value Observed: 0.194 
• Space Group: C 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 127.58	α = 90
b = 121.08	β = 90
c = 26.86	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
ROTAVATA	data reduction
Agrovata	data reduction
X-PLOR	model building
X-PLOR	refinement
CCP4	data scaling
ROTAVATA	data scaling
X-PLOR	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 1998-04-29 
Deposition Author(s): Forest, K.T., Parge, H.E., Tainer, J.A.

Revision History  

• Version 1.0: 1998-04-29
  Type: Initial release
  
• Version 1.1: 2008-03-24
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Refinement description, Structure summary
• Version 3.0: 2023-02-15
  Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Non-polymer description, Polymer sequence, Structure summary