6WNZ | pdb_00006wnz

Structure of a dimer of the Sulfolobus solfataricus MCM N-terminal domain reveals potential role in MCM ring opening

PDB DOI: https://doi.org/10.2210/pdb6WNZ/pdb

Classification: REPLICATION, HYDROLASE
Organism(s): Saccharolobus solfataricus P2
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2020-04-23 Released: 2021-06-16
Deposition Author(s): Meagher, M., Spence, M.N., Enemark, E.J.
Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.255 (Depositor), 0.260 (DCC)
R-Value Work:
0.233 (Depositor), 0.240 (DCC)
R-Value Observed:
0.234 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Structure of a dimer of the Sulfolobus solfataricus MCM N-terminal domain reveals a potential role in MCM ring opening

Meagher, M., Spence, M.N., Enemark, E.J.

(2021) Acta Crystallogr F Struct Biol Commun 77: 177-186

DOI: https://doi.org/10.1107/S2053230X21005331

Macromolecule Content

Total Structure Weight: 62.82 kDa
Atom Count: 4,311
Modeled Residue Count: 519
Deposited Residue Count: 540
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Minichromosome maintenance protein MCM	A [auth B], B [auth A]	270	Saccharolobus solfataricus P2	Mutation(s): 0 Gene Names: MCM, SSO0774 EC: 3.6.4.12
UniProt
Find proteins for Q9UXG1 (Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)) Explore Q9UXG1 Go to UniProtKB: Q9UXG1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9UXG1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain D [auth A] SDF format, chain C [auth B] MOL2 format, chain D [auth A] MOL2 format, chain C [auth B] mmCIF format, chain D [auth A] mmCIF format, chain C [auth B]	C [auth B], D [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain C [auth B] Focus chain D [auth A] Interactions & Density Focus chain C [auth B] Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.255 (Depositor), 0.260 (DCC)
R-Value Work: 0.233 (Depositor), 0.240 (DCC)
R-Value Observed: 0.234 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.227	α = 90
b = 102.448	β = 90
c = 128.178	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
PHASER	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2021-06-16

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	R01GM098771

Revision History (Full details and data files)

Version 1.0: 2021-06-16
Type: Initial release
Version 1.1: 2023-10-18
Changes: Data collection, Database references, Refinement description

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.