1XV8 | pdb_00001xv8

Crystal Structure of Human Salivary Alpha-Amylase Dimer

• PDB DOI: https://doi.org/10.2210/pdb1XV8/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2004-10-27 Released: 2005-10-11 
• Deposition Author(s): Fisher, S.Z., Govindasamy, L., Tu, C.K., Silverman, D.N., Rajaniemi, H., McKenna, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free: 
  0.271 (Depositor) 
• R-Value Work: 
  0.228 (Depositor), 0.280 (DCC) 

Starting Model: experimental

Literature

Crystal Structure of Human Salivary Alpha-Amylase Dimer

Fisher, S.Z., Govindasamy, L., Tu, C.K., Silverman, D.N., Rajaniemi, H., McKenna, R.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 112.06 kDa 
• Atom Count: 8,024 
• Modeled Residue Count: 992 
• Deposited Residue Count: 992 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-amylase	A, B	496	Homo sapiens	Mutation(s): 0  EC: 3.2.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for P0DUB6 (Homo sapiens) Explore P0DUB6  Go to UniProtKB:  P0DUB6
GTEx:  ENSG00000237763

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CA	C [auth A], E [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N
CL	D [auth A], F [auth B]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
PCA	A, B	L-PEPTIDE LINKING	C5 H7 N O3		GLN

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.00 Å
• R-Value Free:  0.271 (Depositor) 
• R-Value Work:  0.228 (Depositor), 0.280 (DCC) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 150.812	α = 90
b = 72.27	β = 102.8
c = 91.106	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
MOLREP	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-10-11 
Deposition Author(s): Fisher, S.Z., Govindasamy, L., Tu, C.K., Silverman, D.N., Rajaniemi, H., McKenna, R.

Revision History  

• Version 1.0: 2005-10-11
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-11
  Changes: Refinement description
• Version 1.4: 2018-01-31
  Changes: Experimental preparation
• Version 1.5: 2018-04-04
  Changes: Data collection
• Version 2.0: 2019-12-25
  Changes: Database references, Derived calculations, Polymer sequence
• Version 2.1: 2023-08-23
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 2.2: 2024-10-09
  Changes: Structure summary