7Q31 | pdb_00007q31

Mutant D24G of uridine phosphorylase from E. coli

PDB DOI: https://doi.org/10.2210/pdb7Q31/pdb

Classification: TRANSFERASE
Organism(s): Escherichia coli K-12
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2021-10-26 Released: 2022-04-06
Deposition Author(s): Safonova, T., Polyakov, K.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free:
0.218 (Depositor), 0.218 (DCC)
R-Value Work:
0.163 (Depositor), 0.164 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Mutant D24G of uridine phosphorylase from E. coli

Polyakov, K., Safonova, T.

To be published.

Macromolecule Content

Total Structure Weight: 54.08 kDa
Atom Count: 4,153
Modeled Residue Count: 500
Deposited Residue Count: 500
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uridine phosphorylase	A [auth AAA], B [auth BBB]	250	Escherichia coli K-12	Mutation(s): 1 Gene Names: udp, b3831, JW3808 EC: 2.4.2.3
UniProt
Find proteins for P12758 (Escherichia coli (strain K12)) Explore P12758 Go to UniProtKB: P12758
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P12758
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 (Subject of Investigation/LOI) Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain G [auth BBB] SDF format, chain F [auth BBB] SDF format, chain E [auth AAA] SDF format, chain D [auth AAA] MOL2 format, chain G [auth BBB] MOL2 format, chain F [auth BBB] MOL2 format, chain E [auth AAA] MOL2 format, chain D [auth AAA] mmCIF format, chain G [auth BBB] mmCIF format, chain F [auth BBB] mmCIF format, chain E [auth AAA] mmCIF format, chain D [auth AAA]	D [auth AAA], E [auth AAA], F [auth BBB], G [auth BBB]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain D [auth AAA] Focus chain E [auth AAA] Focus chain F [auth BBB] Focus chain G [auth BBB] Interactions & Density Focus chain D [auth AAA] Focus chain E [auth AAA] Focus chain F [auth BBB] Focus chain G [auth BBB]
GOL (Subject of Investigation/LOI) Query on GOL Download:Ideal Coordinates CCD File SDF format, chain H [auth BBB] MOL2 format, chain H [auth BBB] mmCIF format, chain H [auth BBB]	H [auth BBB]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain H [auth BBB] Interactions & Density Focus chain H [auth BBB]
K (Subject of Investigation/LOI) Query on K Download:Ideal Coordinates CCD File SDF format, chain C [auth AAA] MOL2 format, chain C [auth AAA] mmCIF format, chain C [auth AAA]	C [auth AAA]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N		Interactions Focus chain C [auth AAA] Interactions & Density Focus chain C [auth AAA]