1MV5 | pdb_00001mv5

Crystal structure of LmrA ATP-binding domain

• PDB DOI: https://doi.org/10.2210/pdb1MV5/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Lactococcus lactis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2002-09-24 Released: 2003-12-02 
• Deposition Author(s): Yuan, Y., Chen, H., Patel, D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free: 
  0.283 (Depositor), 0.302 (DCC) 
• R-Value Work: 
  0.251 (Depositor), 0.270 (DCC) 
• R-Value Observed: 
  0.244 (Depositor) 

Literature

Crystal structure of LmrA ATP-binding domain reveals the two-site alternating mechanism at molecular level

Yuan, Y., Chen, H., Patel, D.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 109.49 kDa 
• Atom Count: 7,671 
• Modeled Residue Count: 967 
• Deposited Residue Count: 972 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Multidrug resistance ABC transporter ATP-binding and permease protein	A, B, C, D	243	Lactococcus lactis	Mutation(s): 0  EC: 7.6.2.2
UniProt
Find proteins for Q9CHL8 (Lactococcus lactis subsp. lactis (strain IL1403)) Explore Q9CHL8  Go to UniProtKB:  Q9CHL8

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP	E [auth A], H [auth C]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N
ADP	F [auth B], J [auth D]	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG	G [auth C], I [auth D]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.10 Å
• R-Value Free:  0.283 (Depositor), 0.302 (DCC) 
• R-Value Work:  0.251 (Depositor), 0.270 (DCC) 
• R-Value Observed: 0.244 (Depositor) 

Space Group: P 6₃

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 141.866	α = 90
b = 141.866	β = 90
c = 120.965	γ = 120

Software Package:

Software Name	Purpose
X-PLOR	refinement
SCALEPACK	data scaling
CNS	refinement
HKL-2000	data collection
HKL-2000	data reduction
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-12-02 
Deposition Author(s): Yuan, Y., Chen, H., Patel, D.

Revision History  

• Version 1.0: 2003-12-02
  Type: Initial release
  
• Version 1.1: 2008-04-28
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-07-24
  Changes: Data collection, Refinement description
• Version 1.4: 2022-12-21
  Changes: Database references, Derived calculations
• Version 1.5: 2024-05-22
  Changes: Data collection