3G5C | pdb_00003g5c

Structural and biochemical studies on the ectodomain of human ADAM22

• PDB DOI: https://doi.org/10.2210/pdb3G5C/pdb

• Classification: MEMBRANE PROTEIN
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2009-02-04 Released: 2009-08-18 
• Deposition Author(s): Liu, H., Shim, A., Chen, X., He, X.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.36 Å
• R-Value Free: 
  0.273 (Depositor), 0.260 (DCC) 
• R-Value Work: 
  0.245 (Depositor), 0.250 (DCC) 

Starting Models: experimental

Literature

Structural and biochemical studies on the ectodomain of human ADAM22

Liu, H., Shim, A., Chen, X., He, X.

(2009) J Biological Chem 

Biological Assembly 1  

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

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

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 114.06 kDa 
• Atom Count: 7,915 
• Modeled Residue Count: 972 
• Deposited Residue Count: 1,020 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ADAM 22	A, B	510	Homo sapiens	Mutation(s): 0  Gene Names: ADAM22, MDC2
UniProt & NIH Common Fund Data Resources
Find proteins for Q9P0K1 (Homo sapiens) Explore Q9P0K1  Go to UniProtKB:  Q9P0K1
PHAROS:  Q9P0K1 GTEx:  ENSG00000008277
Glycosylation
Glycosylation Sites: 3		Go to GlyGen: Q9P0K1-1

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	C [auth A], D [auth A], E [auth A], I [auth B], J [auth B], K [auth B]	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
CA	F [auth A], G [auth A], H [auth A], L [auth B], M [auth B], N [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.36 Å
• R-Value Free:  0.273 (Depositor), 0.260 (DCC) 
• R-Value Work:  0.245 (Depositor), 0.250 (DCC) 

Space Group: H 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.09	α = 90
b = 122.09	β = 90
c = 208.69	γ = 120

Software Package:

Software Name	Purpose
MAR345dtb	data collection
PHASER	phasing
SOLVE	phasing
CNS	refinement
XDS	data reduction
XDS	data scaling
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-08-18 
Deposition Author(s): Liu, H., Shim, A., Chen, X., He, X.

Revision History  

• Version 1.0: 2009-08-18
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Database references, Derived calculations, Structure summary
• Version 1.3: 2023-09-06
  Changes: Data collection, Database references, Refinement description, Structure summary
• Version 1.4: 2024-11-20
  Changes: Structure summary