1MZZ | pdb_00001mzz

Crystal Structure of Mutant (M182T)of Nitrite Reductase

PDB DOI: https://doi.org/10.2210/pdb1MZZ/pdb

Classification: OXIDOREDUCTASE
Organism(s): Cereibacter sphaeroides
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2002-10-10 Released: 2004-09-28
Deposition Author(s): Guo, H., Olesen, K., Xue, Y., Shapliegh, J., Sjolin, L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.218 (Depositor)
R-Value Work:
0.170 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 1MZZ

This is version 1.4 of the entry. See complete history.

Literature

The High resolution Crystal Structures of Nitrite Reductase and its mutant Met182Thr from Rhodobacter Sphaeroides Reveal a Gating Mechanism for the Electron Transfer to the Type 1 Copper Center

Guo, H., Olesen, K., Xue, Y., Shapliegh, J., Sjolin, L.

To be published.

Macromolecule Content

Total Structure Weight: 109.65 kDa
Atom Count: 8,561
Modeled Residue Count: 1,002
Deposited Residue Count: 1,002
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Copper-containing nitrite reductase	A, B, C	334	Cereibacter sphaeroides	Mutation(s): 1 EC: 1.7.99.3 (PDB Primary Data), 1.7.2.1 (UniProt)
UniProt
Find proteins for Q53239 (Cereibacter sphaeroides (strain ATCC 17025 / ATH 2.4.3)) Explore Q53239 Go to UniProtKB: Q53239
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q53239
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
CU Query on CU Download:Ideal Coordinates CCD File SDF format, chain I [auth C] SDF format, chain H [auth C] SDF format, chain G [auth B] SDF format, chain F [auth B] SDF format, chain E [auth A] SDF format, chain D [auth A] MOL2 format, chain I [auth C] MOL2 format, chain H [auth C] MOL2 format, chain G [auth B] MOL2 format, chain F [auth B] MOL2 format, chain E [auth A] MOL2 format, chain D [auth A] mmCIF format, chain I [auth C] mmCIF format, chain H [auth C] mmCIF format, chain G [auth B] mmCIF format, chain F [auth B] mmCIF format, chain E [auth A] mmCIF format, chain D [auth A]	D [auth A] E [auth A] F [auth B] G [auth B] H [auth C] D [auth A], E [auth A], F [auth B], G [auth B], H [auth C], I [auth C]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain E [auth A] Focus chain F [auth B] Focus chain G [auth B] Focus chain H [auth C] Focus chain I [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.218 (Depositor)
R-Value Work: 0.170 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 92.495	α = 90
b = 123.729	β = 90
c = 130.173	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

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Entry History

Deposition Data

Released Date: 2004-09-28

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2004-09-28
Type: Initial release
Version 1.1: 2008-04-28
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2021-10-27
Changes: Database references, Derived calculations
Version 1.4: 2024-02-14
Changes: Data collection

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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.