8CQU | pdb_00008cqu

Flavin mononucleotide-dependent nitroreductase B.thetaiotaomicron (BT_1680)

PDB DOI: https://doi.org/10.2210/pdb8CQU/pdb

Classification: OXIDOREDUCTASE
Organism(s): Bacteroides thetaiotaomicron
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-03-07 Released: 2024-03-27
Deposition Author(s): Blaha, J., Adam, L., Beckham, K.S.H., Chojnowski, G., Wilmanns, M., Zimmermann, M.
Funding Organization(s): Other government

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free:
0.199 (Depositor), 0.199 (DCC)
R-Value Work:
0.166 (Depositor), 0.166 (DCC)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

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This is version 1.0 of the entry. See complete history.

Literature

Structural insights into the diversity of nitroreductase enzymes in Bacteroides thetaiotaomicron

Blaha, J., Adam, L., Gratzl, S., Chojnowski, G., Litz, C., Mortensen, S.A., Zimmermann, M., Beckham, K.S.H., Wilmanns, M.

To be published.

Macromolecule Content

Total Structure Weight: 40.8 kDa
Atom Count: 2,775
Modeled Residue Count: 334
Deposited Residue Count: 360
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative NADH dehydrogenase/NAD(P)H nitroreductase	A, B	180	Bacteroides thetaiotaomicron	Mutation(s): 0 Gene Names: BT_1680
UniProt
Find proteins for Q8A745 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50)) Explore Q8A745 Go to UniProtKB: Q8A745
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8A745
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CIT Query on CIT Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	CITRIC ACID C₆ H₈ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]
TBU Query on TBU Download:Ideal Coordinates CCD File SDF format, chain D [auth B] MOL2 format, chain D [auth B] mmCIF format, chain D [auth B]	D [auth B]	TERTIARY-BUTYL ALCOHOL C₄ H₁₀ O DKGAVHZHDRPRBM-UHFFFAOYSA-N		Interactions Focus chain D [auth B] Interactions & Density Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.80 Å
R-Value Free: 0.199 (Depositor), 0.199 (DCC)
R-Value Work: 0.166 (Depositor), 0.166 (DCC)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 46.009	α = 90
b = 69.426	β = 98.734
c = 47.79	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2024-03-27

Deposition Author(s):

Beckham, K.S.H.

Funding Organization	Location	Grant Number
Other government		--

Revision History (Full details and data files)

Version 1.0: 2024-03-27
Type: Initial release

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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.