2B45 | pdb_00002b45

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 (Depositor), 0.203 (DCC)
R-Value Work:
0.158 (Depositor), 0.171 (DCC)
R-Value Observed:
0.162 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 2B45

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
Modeled Residue Count: 185
Deposited Residue Count: 185
Unique protein chains: 1

Macromolecules

Find similar proteins by:

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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% 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] Interactions & Density Focus chain B [auth X]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.195 (Depositor), 0.203 (DCC)
R-Value Work: 0.158 (Depositor), 0.171 (DCC)
R-Value Observed: 0.162 (Depositor)

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

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View more in-depth experimental data

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

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.