2PIL

Crystallographic Structure of Phosphorylated Pilin from Neisseria: Phosphoserine Sites Modify Type IV Pilus Surface Chemistry

• PDB DOI: https://doi.org/10.2210/pdb2PIL/pdb

• Classification: CELL ADHESION
• Organism(s): Neisseria gonorrhoeae
• Mutation(s): Yes 
• Membrane Protein: Yes  OPMMemProtMD


• Deposited: 1998-03-02 Released: 1998-05-27 
• Deposition Author(s): Forest, K.T., Dunham, S.A., Koomey, M., Tainer, J.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Work: 0.187 
• R-Value Observed: 0.187 

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 18.01 kDa 
• Atom Count: 1,375 
• 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): 1  Membrane Entity: Yes
UniProt
Find proteins for P02974 (Neisseria gonorrhoeae) Explore P02974  Go to UniProtKB:  P02974

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

Modified Residues  2 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MEA	A	L-PEPTIDE LINKING	C10 H13 N O2		PHE
SEP	A	L-PEPTIDE LINKING	C3 H8 N O6 P		SER

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.60 Å
• R-Value Work: 0.187 
• R-Value Observed: 0.187 
• 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/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: 1998-05-27 
Deposition Author(s): Forest, K.T., Dunham, S.A., Koomey, M., Tainer, J.A.

Revision History  

• Version 1.0: 1998-05-27
  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, Database references, Derived calculations, Refinement description, Structure summary