5LSM | pdb_00005lsm

Crystal structure of nitronate monooxygenase (SO_0471) from Shewanella oneidensis MR-1

PDB DOI: https://doi.org/10.2210/pdb5LSM/pdb

Classification: OXIDOREDUCTASE
Organism(s): Shewanella oneidensis MR-1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2016-09-04 Released: 2016-09-14
Deposition Author(s): Baker, G.E., Race, P.R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.50 Å
R-Value Free:
0.256 (Depositor), 0.260 (DCC)
R-Value Work:
0.185 (Depositor), 0.190 (DCC)
R-Value Observed:
0.189 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal structure of nitronate monooxygenase (SO_0471) from Shewanella oneidensis MR-1

Baker, G.E., Race, P.R.

To be published.

Macromolecule Content

Total Structure Weight: 308.17 kDa
Atom Count: 19,985
Modeled Residue Count: 2,680
Deposited Residue Count: 2,872
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
FMN-dependent nitronate monooxygenase	A, B, C, D, E A, B, C, D, E, F, G, H	359	Shewanella oneidensis MR-1	Mutation(s): 0 Gene Names: SO_0471 EC: 1.13.12.16
UniProt
Find proteins for Q8EJJ2 (Shewanella oneidensis (strain ATCC 700550 / JCM 31522 / CIP 106686 / LMG 19005 / NCIMB 14063 / MR-1)) Explore Q8EJJ2 Go to UniProtKB: Q8EJJ2
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q8EJJ2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FMN Query on FMN Download Ideal Coordinates CCD File SDF format, chain T [auth H] SDF format, chain R [auth G] SDF format, chain P [auth F] SDF format, chain N [auth E] SDF format, chain M [auth D] SDF format, chain L [auth C] SDF format, chain K [auth B] SDF format, chain I [auth A] MOL2 format, chain T [auth H] MOL2 format, chain R [auth G] MOL2 format, chain P [auth F] MOL2 format, chain N [auth E] MOL2 format, chain M [auth D] MOL2 format, chain L [auth C] MOL2 format, chain K [auth B] MOL2 format, chain I [auth A] mmCIF format, chain T [auth H] mmCIF format, chain R [auth G] mmCIF format, chain P [auth F] mmCIF format, chain N [auth E] mmCIF format, chain M [auth D] mmCIF format, chain L [auth C] mmCIF format, chain K [auth B] mmCIF format, chain I [auth A]	I [auth A] K [auth B] L [auth C] M [auth D] N [auth E] I [auth A], K [auth B], L [auth C], M [auth D], N [auth E], P [auth F], R [auth G], T [auth H]	FLAVIN MONONUCLEOTIDE C₁₇ H₂₁ N₄ O₉ P FVTCRASFADXXNN-SCRDCRAPSA-N		Interactions Focus chain I [auth A] Focus chain K [auth B] Focus chain L [auth C] Focus chain M [auth D] Focus chain N [auth E] Focus chain P [auth F] Focus chain R [auth G] Focus chain T [auth H] Interactions & Density Focus chain I [auth A] Focus chain K [auth B] Focus chain L [auth C] Focus chain M [auth D] Focus chain N [auth E] Focus chain P [auth F] Focus chain R [auth G] Focus chain T [auth H]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain S [auth G] SDF format, chain Q [auth F] SDF format, chain O [auth E] SDF format, chain J [auth A] MOL2 format, chain S [auth G] MOL2 format, chain Q [auth F] MOL2 format, chain O [auth E] MOL2 format, chain J [auth A] mmCIF format, chain S [auth G] mmCIF format, chain Q [auth F] mmCIF format, chain O [auth E] mmCIF format, chain J [auth A]	J [auth A], O [auth E], Q [auth F], S [auth G]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain J [auth A] Focus chain O [auth E] Focus chain Q [auth F] Focus chain S [auth G] Interactions & Density Focus chain J [auth A] Focus chain O [auth E] Focus chain Q [auth F] Focus chain S [auth G]