6MOU

Bacteroides intestinalis feruloyl esterase, Bacint_01033

PDB DOI: https://doi.org/10.2210/pdb6MOU/pdb

Classification: HYDROLASE
Organism(s): Bacteroides intestinalis DSM 17393
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2018-10-04 Released: 2019-10-16
Deposition Author(s): Koropatkin, N.M., Pereira, G.V., Cann, I.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.24 Å
R-Value Free: 0.236
R-Value Work: 0.190
R-Value Observed: 0.192

wwPDB Validation 3D Report Full Report

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

Literature

Degradation of complex arabinoxylans by human colonic Bacteroidetes

Pereira, G.V., DAlessandro-Gabazza, C., Farris, J., Wefers, D., Mackie, R., Koropatkin, N.M., Gabazza, E.C., Cann, I.

(2021) Nat Commun

DOI: https://doi.org/10.1038/s41467-020-20737-5

Macromolecule Content

Total Structure Weight: 87.43 kDa
Atom Count: 6,163
Modelled Residue Count: 713
Deposited Residue Count: 764
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoamylase N-terminal domain protein	A, B	382	Bacteroides intestinalis DSM 17393	Mutation(s): 0 Gene Names: BACINT_01033
UniProt
Find proteins for B3C969 (Bacteroides intestinalis DSM 17393) Explore B3C969 Go to UniProtKB: B3C969
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	B3C969
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EDO Query on EDO Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain E [auth A] SDF format, chain F [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain E [auth A] MOL2 format, chain F [auth B]	C [auth A], D [auth A], E [auth A], F [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth B]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A, B	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.24 Å
R-Value Free: 0.236
R-Value Work: 0.190
R-Value Observed: 0.192
Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.206	α = 90
b = 95.206	β = 90
c = 202.609	γ = 120

Software Package:

Software Name	Purpose
d*TREK	data reduction
xia2	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
AutoSol	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2019-10-16

Deposition Author(s):

Koropatkin, N.M.

Revision History (Full details and data files)

Version 1.0: 2019-10-16
Type: Initial release
Version 1.1: 2021-01-27
Changes: Database references

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.