Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Hetero 4-mer - A2B2 

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

Macromolecule Content

• Total Structure Weight: 257.23 kDa 
• Atom Count: 17386 
• Residue Count: 2238 
• Unique protein chains: 2

3TUI

Inward facing conformations of the MetNI methionine ABC transporter: CY5 native crystal form

• DOI: 10.2210/pdb3TUI/pdb

• Classification: HYDROLASE/TRANSPORT PROTEIN
• Organism(s): Escherichia coli K-12
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2011-09-16 Released: 2011-11-30 
• Deposition Author(s): Johnson, E., Nguyen, P.T., Rees, D.C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.303 
• R-Value Work: 0.240 
• R-Value Observed: 0.243 

Literature

Inward facing conformations of the MetNI methionine ABC transporter: Implications for the mechanism of transinhibition.

Johnson, E., Nguyen, P.T., Yeates, T.O., Rees, D.C.

(2012) Protein Sci 21: 84-96

• PubMed: 22095702 
• DOI: 10.1002/pro.765
• Primary Citation of Related Structures:  
  3TUI, 3TUJ, 3TUZ


• PubMed Abstract: 
  

Two new crystal structures of the Escherichia coli high affinity methionine uptake ATP Binding Cassette (ABC) transporter MetNI, purified in the detergents cyclohexyl-pentyl-β-D-maltoside (CY5) and n-decyl-β-D-maltopyranoside (DM), have been solved in inward facing conformations to resolutions of 2.9 and 4.0 Å, respectively. Compared to the previously reported 3.7 Å resolution structure of MetNI purified in n-dodecyl-β-D-maltopyranoside (DDM), the higher resolution of the CY5 data enabled significant improvements to the structural model in several regions, including corrections to the sequence registry, and identification of ADP in the nucleotide binding site. CY5 crystals soaked with selenomethionine established details of the methionine binding site in the C2 regulatory domain of the ABC subunit, including the displacement of the side chain of MetN residue methionine 301 by the exogenous ligand. When compared to the CY5 or DDM structures, the DM structure exhibits a significant repositioning of the dimeric C2 domains, including an unexpected register shift in the intermolecular β-sheet hydrogen bonding between monomers, and a narrowing of the nucleotide binding space. The immediate proximity of the exogenous methionine binding site to the conformationally variable dimeric interface provides an indication of how methionine binding to the regulatory domains might mediate the phenomenon of transinhibition.

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Organizational Affiliation: 

Division of Chemistry and Chemical Engineering 114-96, California Institute of Technology, Pasadena, CA 91125, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
D-methionine transport system permease protein metI	A, B, E, F	217	Escherichia coli K-12	Mutation(s): 0  Gene Names: b0198, JW0194, metI, yaeE
Find proteins for P31547 (Escherichia coli (strain K12)) Explore P31547  Go to UniProtKB:  P31547

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Methionine import ATP-binding protein MetN	C, D, G, H	366	Escherichia coli K-12	Mutation(s): 1  Gene Names: abc, b0199, JW0195, metN EC: 3.6.3 (PDB Primary Data), 7.4.2.11 (UniProt)
Find proteins for P30750 (Escherichia coli (strain K12)) Explore P30750  Go to UniProtKB:  P30750

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ADP	C, D, G, H	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.303 
• R-Value Work: 0.240 
• R-Value Observed: 0.243 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.43	α = 90
b = 140.08	β = 96.39
c = 150.07	γ = 90

Software Package:

Software Name	Purpose
SCALA	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
Blu-Ice	data collection
XDS	data reduction
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2011-09-16 
• Released Date: 2011-11-30 
Deposition Author(s): Johnson, E., Nguyen, P.T., Rees, D.C.

Revision History 

• Version 1.0: 2011-11-30
  Type: Initial release
  
• Version 1.1: 2011-12-28
  Changes: Database references