1WZK

Thermoactinomyces vulgaris R-47 alpha-amylase II (TVA II) mutatnt D465N

PDB DOI: https://doi.org/10.2210/pdb1WZK/pdb

Classification: HYDROLASE
Organism(s): Thermoactinomyces vulgaris
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2005-03-06 Released: 2005-03-22
Deposition Author(s): Mizuno, M., Ichikawa, K., Tonozuka, T., Ohtaki, A., Shimura, Y., Kamitori, S., Nishikawa, A., Sakano, Y.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.248
R-Value Work: 0.202
R-Value Observed: 0.202

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Mutagenesis and Structural Analysis of Thermoactinomyces vulgaris R-47 alpha-Amylase II (TVA II)

Mizuno, M., Ichikawa, K., Tonozuka, T., Ohtaki, A., Shimura, Y., Kamitori, S., Nishikawa, A., Sakano, Y.

To be published.

Macromolecule Content

Total Structure Weight: 135.19 kDa
Atom Count: 10,186
Modelled Residue Count: 1,170
Deposited Residue Count: 1,170
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-amylase II	A, B	585	Thermoactinomyces vulgaris	Mutation(s): 1 EC: 3.2.1.135
UniProt
Find proteins for Q08751 (Thermoactinomyces vulgaris) Explore Q08751 Go to UniProtKB: Q08751
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q08751
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CA Query on CA Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth B]	C [auth A], D [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.30 Å
R-Value Free: 0.248
R-Value Work: 0.202
R-Value Observed: 0.202
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 112.39	α = 90
b = 117.66	β = 90
c = 112.923	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
MOSFLM	data reduction
CCP4	data scaling
MOLREP	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2005-03-22

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2005-03-22
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: 2021-11-10
Changes: Database references, Derived calculations

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.