1FZ7 | pdb_00001fz7

METHANE MONOOXYGENASE HYDROXYLASE, FORM III SOAKED IN 0.9 M ETHANOL

PDB DOI: https://doi.org/10.2210/pdb1FZ7/pdb

Classification: OXIDOREDUCTASE
Organism(s): Methylococcus capsulatus
Mutation(s): No

Deposited: 2000-10-03 Released: 2001-02-28
Deposition Author(s): Whittington, D.A., Sazinsky, M.H., Lippard, S.J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.96 Å
R-Value Free:
0.255 (Depositor), 0.254 (DCC)
R-Value Work:
0.214 (Depositor), 0.214 (DCC)
R-Value Observed:
0.214 (Depositor)

wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

X-ray crystal structure of alcohol products bound at the active site of soluble methane monooxygenase hydroxylase.

Whittington, D.A., Sazinsky, M.H., Lippard, S.J.

(2001) J Am Chem Soc 123: 1794-1795

PubMed: 11456795 Search on PubMed
DOI: https://doi.org/10.1021/ja0031725
Primary Citation Related Structures:
1FZ6, 1FZ7

Organizational Affiliation

Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA.

Macromolecule Content

Total Structure Weight: 252 kDa
Atom Count: 18,582
Modeled Residue Count: 2,129
Deposited Residue Count: 2,172
Unique protein chains: 3

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
METHANE MONOOXYGENASE COMPONENT A, ALPHA CHAIN	A, B	527	Methylococcus capsulatus	Mutation(s): 0 EC: 1.14.13.25
UniProt
Find proteins for P22869 (Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)) Explore P22869 Go to UniProtKB: P22869
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P22869
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
METHANE MONOOXYGENASE COMPONENT A, BETA CHAIN	C, D	389	Methylococcus capsulatus	Mutation(s): 0 EC: 1.14.13.25
UniProt
Find proteins for P18798 (Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)) Explore P18798 Go to UniProtKB: P18798
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P18798
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
METHANE MONOOXYGENASE COMPONENT A, GAMMA CHAIN	E, F	170	Methylococcus capsulatus	Mutation(s): 0 EC: 1.14.13.25
UniProt
Find proteins for P11987 (Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)) Explore P11987 Go to UniProtKB: P11987
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P11987
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FE Query on FE Download:Ideal Coordinates CCD File SDF format, chain L [auth B] SDF format, chain K [auth B] SDF format, chain H [auth A] SDF format, chain G [auth A] MOL2 format, chain L [auth B] MOL2 format, chain K [auth B] MOL2 format, chain H [auth A] MOL2 format, chain G [auth A] mmCIF format, chain L [auth B] mmCIF format, chain K [auth B] mmCIF format, chain H [auth A] mmCIF format, chain G [auth A]	G [auth A], H [auth A], K [auth B], L [auth B]	FE (III) ION Fe VTLYFUHAOXGGBS-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain H [auth A] Focus chain K [auth B] Focus chain L [auth B] Interactions & Density Focus chain G [auth A] Focus chain H [auth A] Focus chain K [auth B] Focus chain L [auth B]
EOH Query on EOH Download:Ideal Coordinates CCD File SDF format, chain M [auth B] MOL2 format, chain M [auth B] mmCIF format, chain M [auth B]	M [auth B]	ETHANOL C₂ H₆ O LFQSCWFLJHTTHZ-UHFFFAOYSA-N		Interactions Focus chain M [auth B] Interactions & Density Focus chain M [auth B]
FMT Query on FMT Download:Ideal Coordinates CCD File SDF format, chain J [auth A] MOL2 format, chain J [auth A] mmCIF format, chain J [auth A]	J [auth A]	FORMIC ACID C H₂ O₂ BDAGIHXWWSANSR-UHFFFAOYSA-N		Interactions Focus chain J [auth A] Interactions & Density Focus chain J [auth A]
CA Query on CA Download:Ideal Coordinates CCD File SDF format, chain O [auth C] SDF format, chain N [auth C] SDF format, chain I [auth A] MOL2 format, chain O [auth C] MOL2 format, chain N [auth C] MOL2 format, chain I [auth A] mmCIF format, chain O [auth C] mmCIF format, chain N [auth C] mmCIF format, chain I [auth A]	I [auth A], N [auth C], O [auth C]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain N [auth C] Focus chain O [auth C] Interactions & Density Focus chain I [auth A] Focus chain N [auth C] Focus chain O [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.96 Å
R-Value Free: 0.255 (Depositor), 0.254 (DCC)
R-Value Work: 0.214 (Depositor), 0.214 (DCC)
R-Value Observed: 0.214 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.4	α = 90
b = 172.37	β = 90
c = 221.13	γ = 90

Software Package:

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

Structure Validation

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Entry History

Deposition Data

Released Date: 2001-02-28

Deposition Author(s):

Whittington, D.A.

Sazinsky, M.H.

Lippard, S.J.

Revision History (Full details and data files)

Version 1.0: 2001-02-28
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Version format compliance
Version 1.3: 2024-02-07
Changes: Data collection, Database references, Derived calculations