7BBM | pdb_00007bbm

Mutant nitrobindin M75L/H76L/Q96C/M148L (NB4H) from Arabidopsis thaliana with cofactor MnPPIX

PDB DOI: https://doi.org/10.2210/pdb7BBM/pdb

Classification: TRANSPORT PROTEIN
Organism(s): Arabidopsis thaliana
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2020-12-18 Released: 2021-05-26
Deposition Author(s): Minges, A., Sauer, D.F., Wittwer, M., Markel, U., Spiertz, M., Schiffels, J., Davari, M.D., Okuda, J., Schwaneberg, U., Groth, G.
Funding Organization(s): German Federal Ministry for Education and Research

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.14 Å
R-Value Free:
0.158 (Depositor), 0.159 (DCC)
R-Value Work:
0.144 (Depositor), 0.145 (DCC)
R-Value Observed:
0.145 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Chemogenetic engineering of nitrobindin toward an artificial epoxygenase

Sauer, D.F., Wittwer, M., Markel, U., Minges, A., Spiertz, M., Schiffels, J., Davari, M.D., Groth, G., Okuda, J., Schwaneberg, U.

(2021) Catal Sci Technol

DOI: https://doi.org/10.1039/d1cy00609f

Macromolecule Content

Total Structure Weight: 19.41 kDa
Atom Count: 1,620
Modeled Residue Count: 153
Deposited Residue Count: 166
Unique protein chains: 1

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UPF0678 fatty acid-binding protein-like protein At1g79260	A	166	Arabidopsis thaliana	Mutation(s): 4 Gene Names: At1g79260, YUP8H12R.14 EC: 5.99
UniProt
Find proteins for O64527 (Arabidopsis thaliana) Explore O64527 Go to UniProtKB: O64527
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O64527
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MNH (Subject of Investigation/LOI) Query on MNH Download:Ideal Coordinates CCD File SDF format, chain H [auth A] MOL2 format, chain H [auth A] mmCIF format, chain H [auth A]	H [auth A]	MANGANESE PROTOPORPHYRIN IX C₃₄ H₃₂ Mn N₄ O₄ UIBYYPDLEONCGQ-RGGAHWMASA-L		Interactions Focus chain H [auth A] Interactions & Density Focus chain H [auth A]
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain F [auth A] SDF format, chain E [auth A] SDF format, chain D [auth A] SDF format, chain C [auth A] SDF format, chain B [auth A] MOL2 format, chain G [auth A] MOL2 format, chain F [auth A] MOL2 format, chain E [auth A] MOL2 format, chain D [auth A] MOL2 format, chain C [auth A] MOL2 format, chain B [auth A] mmCIF format, chain G [auth A] mmCIF format, chain F [auth A] mmCIF format, chain E [auth A] mmCIF format, chain D [auth A] mmCIF format, chain C [auth A] mmCIF format, chain B [auth A]	B [auth A] C [auth A] D [auth A] E [auth A] F [auth A] B [auth A], C [auth A], D [auth A], E [auth A], F [auth A], G [auth A]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A] Interactions & Density Focus chain B [auth A] Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth A] Focus chain G [auth A]