5AXC

Crystal structure of mouse SAHH complexed with 3'-keto aristeromycin

PDB DOI: https://doi.org/10.2210/pdb5AXC/pdb

Classification: HYDROLASE
Organism(s): Mus musculus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-07-24 Released: 2016-07-27
Deposition Author(s): Kusakabe, Y., Ishihara, M., Tanaka, N.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.210
R-Value Work: 0.179
R-Value Observed: 0.181

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Ligand Structure Quality Assessment

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of mouse SAHH complexed with 3'-keto aristeromycin

Kusakabe, Y., Ishihara, M., Tanaka, N.

To be published.

Macromolecule Content

Total Structure Weight: 97.39 kDa
Atom Count: 7,721
Modelled Residue Count: 859
Deposited Residue Count: 864
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Adenosylhomocysteinase	A, B [auth C]	432	Mus musculus	Mutation(s): 0 Gene Names: Ahcy EC: 3.3.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for P50247 (Mus musculus) Explore P50247 Go to UniProtKB: P50247
IMPC: MGI:87968
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P50247
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAD Query on NAD Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain F [auth C] MOL2 format, chain C [auth A] MOL2 format, chain F [auth C]	C [auth A], F [auth C]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C₂₁ H₂₇ N₇ O₁₄ P₂ BAWFJGJZGIEFAR-NNYOXOHSSA-N		Interactions Focus chain C [auth A] Focus chain F [auth C] Interactions & Density Focus chain C [auth A] Focus chain F [auth C]
ARJ Query on ARJ Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain H [auth C] MOL2 format, chain E [auth A] MOL2 format, chain H [auth C]	E [auth A], H [auth C]	(2S,3R,5R)-3-(6-amino-9H-purin-9-yl)-2-hydroxy-5-(hydroxymethyl)cyclopentanone C₁₁ H₁₃ N₅ O₃ CWNCBQJCRSRXGI-KCRUCZTKSA-N		Interactions Focus chain E [auth A] Focus chain H [auth C] Interactions & Density Focus chain E [auth A] Focus chain H [auth C]
NA Query on NA Download Ideal Coordinates CCD File SDF format, chain G [auth C] SDF format, chain D [auth A] MOL2 format, chain G [auth C] MOL2 format, chain D [auth A]	D [auth A], G [auth C]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain D [auth A] Focus chain G [auth C] Interactions & Density Focus chain D [auth A] Focus chain G [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.210
R-Value Work: 0.179
R-Value Observed: 0.181
Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 98.202	α = 90
b = 102.881	β = 90
c = 174.827	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2016-07-27

Deposition Author(s):

Kusakabe, Y.

Ishihara, M.

Tanaka, N.

Revision History (Full details and data files)

Version 1.0: 2016-07-27
Type: Initial release
Version 1.1: 2020-02-26
Changes: Data collection, Derived calculations
Version 1.2: 2024-03-20
Changes: Data collection, Database references, Derived calculations

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5AXC

Crystal structure of mouse SAHH complexed with 3'-keto aristeromycin

Crystal structure of mouse SAHH complexed with 3'-keto aristeromycin

Entity ID: 1

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

Expand

Experimental Data

Structure Validation

Ligand Structure Quality Assessment

Deposition Data

Revision History (Full details and data files)