6EX6

The GH127, Beta-arabinofuranosidase, BT3674

PDB DOI: https://doi.org/10.2210/pdb6EX6/pdb

Classification: HYDROLASE
Organism(s): Bacteroides thetaiotaomicron VPI-5482
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2017-11-07 Released: 2018-11-21
Deposition Author(s): Munoz-Munoz, J., Gilbert, H.J.
Funding Organization(s): European Research Council

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.16 Å
R-Value Free: 0.221
R-Value Work: 0.176
R-Value Observed: 0.178

wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

The cellular location of endo-acting galactanases confers keystone or recipient status to arabinogalactan degrading organisms of the human gut microbiota

Munoz-Munoz, J., Cartmell, A., Ndeh, D., Lowe, E.C., Briggs, J., Basle, A., Terrapon, N., Stott, K., Dupree, P., Fernnandes, P.Z., Shah, S., Williams, S.J., Labourel, A., Henrissat, B., Gilbert, H.J.

To be published.

Macromolecule Content

Total Structure Weight: 146.25 kDa
Atom Count: 10,524
Modelled Residue Count: 1,267
Deposited Residue Count: 1,296
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Six-hairpin glycosidase	A [auth B], B [auth A]	648	Bacteroides thetaiotaomicron VPI-5482	Mutation(s): 0 Gene Names: BT_3674
UniProt
Find proteins for Q8A1I7 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50)) Explore Q8A1I7 Go to UniProtKB: Q8A1I7
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8A1I7
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.16 Å
R-Value Free: 0.221
R-Value Work: 0.176
R-Value Observed: 0.178
Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 136.821	α = 90
b = 136.821	β = 90
c = 135.582	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
xia2	data reduction
pointless	data scaling
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2018-11-21

Deposition Author(s):

Munoz-Munoz, J.

Funding Organization	Location	Grant Number
European Research Council	United Kingdom	322820

Revision History (Full details and data files)

Version 1.0: 2018-11-21
Type: Initial release
Version 1.1: 2024-01-17
Changes: Data collection, Database references, Refinement description

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.