3HRL

Crystal structure of a putative endonuclease-like protein (ngo0050) from neisseria gonorrhoeae

• PDB DOI: https://doi.org/10.2210/pdb3HRL/pdb

• Classification: structural genomics, unknown function
• Organism(s): Neisseria gonorrhoeae FA 1090
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2009-06-09 Released: 2009-06-30 
• Deposition Author(s): Filippova, E.V., Minasov, G., Shuvalova, L., Kiryukhina, O., Cobb, G., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.226 
• R-Value Work: 0.183 
• R-Value Observed: 0.185 

Literature

Crystal Structure of a Putative Endonuclease-Like Protein (Ngo0050) from Neisseria Gonorrhoeae

Filippova, E.V., Minasov, G., Shuvalova, L., Kiryukhina, O., Cobb, G., Joachimiak, A., Anderson, W.F.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 12.25 kDa 
• Atom Count: 881 
• Modelled Residue Count: 94 
• Deposited Residue Count: 104 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Endonuclease-Like Protein	A	104	Neisseria gonorrhoeae FA 1090	Mutation(s): 0  Gene Names: NGO0050
UniProt
Find proteins for Q5FAH0 (Neisseria gonorrhoeae (strain ATCC 700825 / FA 1090)) Explore Q5FAH0  Go to UniProtKB:  Q5FAH0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.95 Å
• R-Value Free: 0.226 
• R-Value Work: 0.183 
• R-Value Observed: 0.185 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.922	α = 90
b = 52.922	β = 90
c = 102.295	γ = 120

Software Package:

Software Name	Purpose
Blu-Ice	data collection
HKL-3000	phasing
MLPHARE	phasing
DM	model building
SHELXD	phasing
ARP/wARP	model building
Coot	model building
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
DM	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-06-30 
Deposition Author(s): Filippova, E.V., Minasov, G., Shuvalova, L., Kiryukhina, O., Cobb, G., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2009-06-30
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2017-11-01
  Changes: Refinement description