6GP6 | pdb_00006gp6

MamM CTD - Copper form

• PDB DOI: https://doi.org/10.2210/pdb6GP6/pdb

• Classification: METAL TRANSPORT
• Organism(s): Magnetospirillum gryphiswaldense MSR-1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2018-06-05 Released: 2019-06-19 
• Deposition Author(s): Barber-Zucker, S., Zarivach, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 
  0.275 (Depositor), 0.281 (DCC) 
• R-Value Work: 
  0.220 (Depositor), 0.224 (DCC) 
• R-Value Observed: 
  0.223 (Depositor) 

Starting Model: experimental

Literature

MamM CTD - Copper form

Barber-Zucker, S., Zarivach, R.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 24.09 kDa 
• Atom Count: 1,538 
• Modeled Residue Count: 194 
• Deposited Residue Count: 216 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Magnetosome protein MamM	A, B	108	Magnetospirillum gryphiswaldense MSR-1	Mutation(s): 0  Gene Names: mamM, mgI491, MGR_4095
UniProt
Find proteins for V6F235 (Magnetospirillum gryphiswaldense (strain DSM 6361 / JCM 21280 / NBRC 15271 / MSR-1)) Explore V6F235  Go to UniProtKB:  V6F235

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BME	E [auth A]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N
CU (Subject of Investigation/LOI)	C [auth A], D [auth A], F [auth B]	COPPER (II) ION Cu JPVYNHNXODAKFH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free:  0.275 (Depositor), 0.281 (DCC) 
• R-Value Work:  0.220 (Depositor), 0.224 (DCC) 
• R-Value Observed: 0.223 (Depositor) 

Space Group: P 2 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 28.93	α = 90
b = 73.75	β = 90
c = 89.41	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PDB_EXTRACT	data extraction
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2019-06-19 
Deposition Author(s): Barber-Zucker, S., Zarivach, R.

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Funding Organization	Location	Grant Number
	Israel	Israel Science Foundation 167/16
	Israel	Israel Ministry of Science, Technology and Space

Revision History  

• Version 1.0: 2019-06-19
  Type: Initial release
  
• Version 1.1: 2024-01-17
  Changes: Data collection, Database references, Derived calculations, Refinement description