5AXA

Crystal structure of mouse SAHH complexed with adenosine

PDB DOI: https://doi.org/10.2210/pdb5AXA/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: 0.229
R-Value Work: 0.188
R-Value Observed: 0.190

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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 adenosine

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

To be published.

Macromolecule Content

Total Structure Weight: 97.4 kDa
Atom Count: 8,019
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]
ADN Query on ADN Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain G [auth C] MOL2 format, chain D [auth A] MOL2 format, chain G [auth C]	D [auth A], G [auth C]	ADENOSINE C₁₀ H₁₃ N₅ O₄ OIRDTQYFTABQOQ-KQYNXXCUSA-N		Interactions Focus chain D [auth A] Focus chain G [auth C] Interactions & Density Focus chain D [auth A] Focus chain G [auth C]
NA Query on NA 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]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain H [auth C] Interactions & Density Focus chain E [auth A] Focus chain H [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.55 Å
R-Value Free: 0.229
R-Value Work: 0.188
R-Value Observed: 0.190
Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 100.644	α = 90
b = 104.443	β = 90
c = 177.309	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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5AXA

Crystal structure of mouse SAHH complexed with adenosine

Crystal structure of mouse SAHH complexed with adenosine

Entity ID: 1

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

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Experimental Data

Structure Validation

Ligand Structure Quality Assessment

Deposition Data

Revision History (Full details and data files)