4W7U | pdb_00004w7u

Crystal structure of XacCel5A in the native form

PDB DOI: https://doi.org/10.2210/pdb4W7U/pdb

Classification: HYDROLASE
Organism(s): Xanthomonas citri subsp. citri 306
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2014-08-22 Released: 2015-10-21
Deposition Author(s): Paiva, J.H., Murakami, M.T.
Funding Organization(s): Sao Paulo Research Foundation (FAPESP)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.48 Å
R-Value Free:
0.193 (Depositor), 0.196 (DCC)
R-Value Work:
0.144 (Depositor), 0.143 (DCC)
R-Value Observed:
0.146 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.6 of the entry. See complete history.

Literature

Crystal structure of XacCel5A in the native form

Paiva, J.H., Murakami, M.T.

To be published.

Macromolecule Content

Total Structure Weight: 36.96 kDa
Atom Count: 2,680
Modeled Residue Count: 313
Deposited Residue Count: 332
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cellulase	A	332	Xanthomonas citri subsp. citri 306	Mutation(s): 0 Gene Names: egl, XAC0030

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CAC Query on CAC Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A], C [auth A]	CACODYLATE ION C₂ H₆ As O₂ OGGXGZAMXPVRFZ-UHFFFAOYSA-M		Interactions Focus chain B [auth A] Focus chain C [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.48 Å
R-Value Free: 0.193 (Depositor), 0.196 (DCC)
R-Value Work: 0.144 (Depositor), 0.143 (DCC)
R-Value Observed: 0.146 (Depositor)

Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.367	α = 90
b = 81.73	β = 90
c = 48.232	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
XSCALE	data scaling

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2015-10-21

Deposition Author(s):

Funding Organization	Location	Grant Number
Sao Paulo Research Foundation (FAPESP)	Brazil	2013/13309-0 and 2014/07135-1

Revision History (Full details and data files)

Version 1.0: 2015-10-21
Type: Initial release
Version 1.1: 2017-11-22
Changes: Derived calculations, Refinement description
Version 1.2: 2019-02-13
Changes: Data collection, Source and taxonomy
Version 1.3: 2019-04-17
Changes: Author supporting evidence, Data collection
Version 1.4: 2020-01-01
Changes: Author supporting evidence
Version 1.5: 2023-09-27
Changes: Data collection, Database references, Refinement description
Version 1.6: 2024-10-16
Changes: Structure summary

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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.