2B45

Crystal structure of an engineered uninhibited Bacillus subtilis xylanase in free state

PDB DOI: https://doi.org/10.2210/pdb2B45/pdb

Classification: HYDROLASE
Organism(s): Bacillus subtilis
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2005-09-22 Released: 2006-09-19
Deposition Author(s): Sansen, S., Dewilde, M., De Ranter, C.J., Sorensen, J.F., Sibbesen, O., Gebruers, K., Brijs, K., Courtin, C.M., Delcour, J.A., Rabijns, A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.195
R-Value Work: 0.158
R-Value Observed: 0.162

wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

Literature

Crystal structure of the Triticum xylanse inhibitor-I in complex with bacillus subtilis xylanase

Sansen, S., Dewilde, M., De Ranter, C.J., Gebruers, K., Brijs, K., Courtin, C.M., Delcour, J.A., Rabijns, A.

To be published.

Macromolecule Content

Total Structure Weight: 20.64 kDa
Atom Count: 1,610
Modelled Residue Count: 185
Deposited Residue Count: 185
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Endo-1,4-beta-xylanase A	A [auth X]	185	Bacillus subtilis	Mutation(s): 3 Gene Names: xynA EC: 3.2.1.8
UniProt
Find proteins for P18429 (Bacillus subtilis (strain 168)) Explore P18429 Go to UniProtKB: P18429
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P18429
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EPE Query on EPE Download Ideal Coordinates CCD File SDF format, chain B [auth X] MOL2 format, chain B [auth X] mmCIF format, chain B [auth X]	B [auth X]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C₈ H₁₈ N₂ O₄ S JKMHFZQWWAIEOD-UHFFFAOYSA-N		Interactions Focus chain B [auth X]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.195
R-Value Work: 0.158
R-Value Observed: 0.162
Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 60.8	α = 90
b = 60.8	β = 90
c = 95.8	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
SCALA	data scaling
CNS	refinement
MOSFLM	data reduction
CCP4	data scaling
CNS	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2006-09-19

Deposition Author(s):

De Ranter, C.J.

Revision History (Full details and data files)

Version 1.0: 2006-09-19
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2019-07-24
Changes: Data collection, Refinement description
Version 1.4: 2021-10-20
Changes: Database references, Derived calculations
Version 1.5: 2024-02-14
Changes: Data collection

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.