1NXZ

X-Ray Crystal Structure of Protein yggj_haein of Haemophilus influenzae. Northeast Structural Genomics Consortium Target IR73.

• PDB DOI: https://doi.org/10.2210/pdb1NXZ/pdb

• Classification: STRUCTURAL GENOMICS, Unknown function
• Organism(s): Haemophilus influenzae
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2003-02-11 Released: 2003-03-11 
• Deposition Author(s): Forouhar, F., Shen, J., Xiao, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.264 
• R-Value Work: 0.214 
• R-Value Observed: 0.214 

Literature

Functional assignment based on structural analysis: crystal structure of the yggJ protein (HI0303) of Haemophilus influenzae reveals an RNA methyltransferase with a deep trefoil knot.

Forouhar, F., Shen, J., Xiao, R., Acton, T.B., Montelione, G.T., Tong, L.

(2003) Proteins 53: 329-332

• PubMed: 14517985 
• DOI: https://doi.org/10.1002/prot.10510
• Primary Citation of Related Structures:  
  1NXZ

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Organizational Affiliation: 

Department of Biological Sciences, Northeast Structural Genomics Consortium, Columbia University, New York, New York 10027, USA.

Biological Assembly 1  

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

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

Macromolecule Content

• Total Structure Weight: 55.22 kDa 
• Atom Count: 4,155 
• Modelled Residue Count: 491 
• Deposited Residue Count: 492 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein HI0303	A, B	246	Haemophilus influenzae	Mutation(s): 4  Gene Names: HI0303 EC: 2.1.1.193
UniProt
Find proteins for P44627 (Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)) Explore P44627  Go to UniProtKB:  P44627

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 0.264 
• R-Value Work: 0.214 
• R-Value Observed: 0.214 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.305	α = 90
b = 73.517	β = 90
c = 109.471	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-03-11 
Deposition Author(s): Forouhar, F., Shen, J., Xiao, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2003-03-11
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2024-11-06
  Changes: Data collection, Database references, Derived calculations, Structure summary