5MM3

Unstructured MamC magnetite-binding protein located between two helices.

• PDB DOI: https://doi.org/10.2210/pdb5MM3/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Methanosarcina mazei, Magnetospirillum sp. XM-1
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2016-12-08 Released: 2017-10-25 
• Deposition Author(s): Nudelman, H., Zarivach, R.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.228 
• R-Value Work: 0.182 
• R-Value Observed: 0.184 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 91.07 kDa 
• Atom Count: 5,970 
• Modelled Residue Count: 723 
• Deposited Residue Count: 824 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sugar ABC transporter substrate-binding protein,Magnetosome protein MamC,Sugar ABC transporter substrate-binding protein	A, B	412	Methanosarcina mazei, Magnetospirillum sp. XM-1	Mutation(s): 0  Gene Names: malE, DU73_08550, mamC, XM1_2330
UniProt
Find proteins for P0AEX9 (Escherichia coli (strain K12)) Explore P0AEX9  Go to UniProtKB:  P0AEX9
Find proteins for Q2W8S0 (Magnetospirillum magneticum (strain AMB-1 / ATCC 700264)) Explore Q2W8S0  Go to UniProtKB:  Q2W8S0
UniProt Groups	Q2W8S0P0AEX9

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose	C, D	2		N/A
Glycosylation Resources
GlyTouCan:  G07411ON GlyCosmos:  G07411ON

Biologically Interesting Molecules (External Reference) 1 Unique

Entity ID: 2
ID	Chains	Name	Type/Class	2D Diagram	3D Interactions
PRD_900001	C, D	alpha-maltose	Oligosaccharide / Nutrient

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.228 
• R-Value Work: 0.182 
• R-Value Observed: 0.184 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 115.285	α = 90
b = 115.285	β = 90
c = 117.171	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
Coot	model building
HKL-2000	data scaling
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-10-25 
Deposition Author(s): Nudelman, H., Zarivach, R.

Revision History  

• Version 1.0: 2017-10-25
  Type: Initial release
  
• Version 1.1: 2018-01-03
  Changes: Database references
• Version 1.2: 2018-02-07
  Changes: Database references
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Non-polymer description, Structure summary
• Version 2.1: 2024-01-17
  Changes: Data collection, Database references, Refinement description, Structure summary