2AMY

X-Ray Structure of Human Phosphomannomutase 2 (PMM2)

• PDB DOI: https://doi.org/10.2210/pdb2AMY/pdb

• Classification: ISOMERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2005-08-10 Released: 2005-08-23 
• Deposition Author(s): Wesenberg, G.E., Phillips Jr., G.N., McCoy, J.G., Bitto, E., Bingman, C.A., Allard, S.T.M., Center for Eukaryotic Structural Genomics (CESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.09 Å
• R-Value Free: 0.272 
• R-Value Work: 0.199 
• R-Value Observed: 0.202 

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 2Q4R

Literature

X-Ray Structure of Human Phosphomannomutase 2 (PMM2)

Center for Eukaryotic Structural Genomics (CESG)

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 28.55 kDa 
• Atom Count: 2,109 
• Modelled Residue Count: 240 
• Deposited Residue Count: 246 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphomannomutase 2	A	246	Homo sapiens	Mutation(s): 4  Gene Names: HS.459855 EC: 5.4.2.8
UniProt & NIH Common Fund Data Resources
Find proteins for O15305 (Homo sapiens) Explore O15305  Go to UniProtKB:  O15305
PHAROS:  O15305 GTEx:  ENSG00000140650

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GLY	C [auth A], D [auth A], E [auth A]	GLYCINE C2 H5 N O2 DHMQDGOQFOQNFH-UHFFFAOYSA-N
EDO	B [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

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: 2.09 Å
• R-Value Free: 0.272 
• R-Value Work: 0.199 
• R-Value Observed: 0.202 
• Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.622	α = 90
b = 70.622	β = 90
c = 100.15	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
DM	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
SOLOMON	phasing
ARP/wARP	model building

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-08-23 
Deposition Author(s): Wesenberg, G.E., Phillips Jr., G.N., McCoy, J.G., Bitto, E., Bingman, C.A., Allard, S.T.M., Center for Eukaryotic Structural Genomics (CESG)

Revision History  

• Version 1.0: 2005-08-23
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2018-01-24
  Changes: Database references
• Version 1.5: 2024-12-25
  Changes: Advisory, Data collection, Database references, Derived calculations, Structure summary