6GMT | pdb_00006gmt

MamM CTD - Cadmium form

• PDB DOI: https://doi.org/10.2210/pdb6GMT/pdb

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


• Deposited: 2018-05-28 Released: 2019-06-19 
• Deposition Author(s): Barber-Zucker, S., Zarivach, R.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.59 Å
• R-Value Free: 
  0.239 (Depositor), 0.251 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.202 (DCC) 
• R-Value Observed: 
  0.189 (Depositor) 

Starting Model: experimental

Literature

MamM CTD - Cadmium 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: 12.41 kDa 
• Atom Count: 696 
• Modeled Residue Count: 80 
• Deposited Residue Count: 108 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Magnetosome protein MamM	A	108	Magnetospirillum gryphiswaldense	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 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CD	D [auth A], E [auth A]	CADMIUM ION Cd WLZRMCYVCSSEQC-UHFFFAOYSA-N
SO4	B [auth A], C [auth A]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
BME	F [auth A]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.59 Å
• R-Value Free:  0.239 (Depositor), 0.251 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.202 (DCC) 
• R-Value Observed: 0.189 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 36.534	α = 90
b = 94.246	β = 90
c = 53.32	γ = 90

Software Package:

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

Structure Validation

Entry History 

& Funding Information

Deposition Data

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

---

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