6FCA | pdb_00006fca

Catalytic subunit HisG from Psychrobacter arcticus ATP phosphoribosyltransferase (HisZG ATPPRT) in complex with PRPP

PDB DOI: https://doi.org/10.2210/pdb6FCA/pdb

Classification: TRANSFERASE
Organism(s): Psychrobacter arcticus 273-4
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2017-12-20 Released: 2018-10-24
Deposition Author(s): Alphey, M.S., Ge, Y., Fisher, G., Czekster, C.M., Naismith, J.H., da Silva, R.G.
Funding Organization(s): Biotechnology and Biological Sciences Research Council

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.09 Å
R-Value Free:
0.234 (Depositor), 0.244 (DCC)
R-Value Work:
0.191 (Depositor), 0.199 (DCC)
R-Value Observed:
0.194 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Catalytic and Anticatalytic Snapshots of a Short-Form ATP Phosphoribosyltransferase

Alphey, M.S., Fisher, G., Hirschi, J.S., Stroek, R., Ge, Y., Gould, E.R., Czekster, C.M., Liu, H., Florence, G.J., Vetticatt, M.J., Naismith, J.H., da Silva, R.G.

(2018) ACS Catal

DOI: https://doi.org/10.1021/acscatal.8b00867

Macromolecule Content

Total Structure Weight: 25.63 kDa
Atom Count: 1,737
Modeled Residue Count: 209
Deposited Residue Count: 232
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP phosphoribosyltransferase	A	232	Psychrobacter arcticus 273-4	Mutation(s): 0 Gene Names: hisG, Psyc_1903 EC: 2.4.2.17
UniProt
Find proteins for Q4FQF7 (Psychrobacter arcticus (strain DSM 17307 / VKM B-2377 / 273-4)) Explore Q4FQF7 Go to UniProtKB: Q4FQF7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q4FQF7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PRP Query on PRP Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose C₅ H₁₃ O₁₄ P₃ PQGCEDQWHSBAJP-TXICZTDVSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.09 Å
R-Value Free: 0.234 (Depositor), 0.244 (DCC)
R-Value Work: 0.191 (Depositor), 0.199 (DCC)
R-Value Observed: 0.194 (Depositor)

Space Group: I 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 70.57	α = 90
b = 33.9	β = 105.17
c = 90.769	γ = 90

Software Package:

Software Name	Purpose
MOSFLM	data reduction
Aimless	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

& Funding Information

Deposition Data

Released Date: 2018-10-24

Deposition Author(s):

Funding Organization	Location	Grant Number
Biotechnology and Biological Sciences Research Council	United Kingdom	BB/M010996/1

Revision History (Full details and data files)

Version 1.0: 2018-10-24
Type: Initial release
Version 1.1: 2020-07-29
Type: Remediation
Reason: Carbohydrate remediation
Changes: Data collection, Derived calculations, Structure summary
Version 1.2: 2024-01-17
Changes: Data collection, Database references, Refinement description, Structure summary