2QH5 | pdb_00002qh5

Crystal structure of mannose-6-phosphate isomerase from Helicobacter pylori

• PDB DOI: https://doi.org/10.2210/pdb2QH5/pdb

• Classification: ISOMERASE
• Organism(s): Helicobacter pylori 26695
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2007-06-29 Released: 2007-07-17 
• Deposition Author(s): Patskovsky, Y., Ramagopal, U., Toro, R., Sauder, J.M., Dickey, M., Iizuka, M., Maletic, M., Wasserman, S.R., Koss, J., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.289 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.234 (Depositor), 0.232 (DCC) 
• R-Value Observed: 
  0.235 (Depositor) 

Literature

Crystal structure of Mannose-6-phosphate isomerase from Helicobacter pylori.

Patskovsky, Y., Ramagopal, U., Toro, R., Sauder, J.M., Iizuka, M., Dickey, M., Maletic, M., Wasserman, S.R., Koss, J., Burley, S.K., Almo, S.C.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

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

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 70 kDa 
• Atom Count: 4,195 
• Modeled Residue Count: 509 
• Deposited Residue Count: 616 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mannose-6-phosphate isomerase	A, B	308	Helicobacter pylori 26695	Mutation(s): 0  Gene Names: HP_0043 EC: 2.7.7.13
UniProt
Find proteins for O24884 (Helicobacter pylori (strain ATCC 700392 / 26695)) Explore O24884  Go to UniProtKB:  O24884

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.289 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.234 (Depositor), 0.232 (DCC) 
• R-Value Observed: 0.235 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.829	α = 90
b = 66.415	β = 90
c = 163.959	γ = 90

Software Package:

Software Name	Purpose
SHELX	model building
REFMAC	refinement
MAR345	data collection
HKL-2000	data reduction
HKL-2000	data scaling
SHELX	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-07-17 
Deposition Author(s): Patskovsky, Y., Ramagopal, U., Toro, R., Sauder, J.M., Dickey, M., Iizuka, M., Maletic, M., Wasserman, S.R., Koss, J., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2007-07-17
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2017-10-18
  Changes: Refinement description
• Version 1.4: 2018-11-14
  Changes: Data collection, Structure summary
• Version 1.5: 2021-02-03
  Changes: Database references, Structure summary
• Version 1.6: 2024-02-21
  Changes: Data collection, Database references, Refinement description