5TV4

3D cryo-EM reconstruction of nucleotide-free MsbA in lipid nanodisc


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.2 Å
  • Aggregation State: Particle
  • Reconstruction Method: Single Particle

Literature

Macromolecules
Sequence Display for 5TV4

Classification: HYDROLASE

Total Structure Weight: 137872.22

Macromolecule Entities
Molecule Chains Length Organism Details
Lipid A export ATP-binding/permease protein MsbA A, B 605 Escherichia coli EC#: 3.6.3 IUBMB
Gene Name(s): msbA Z1260 ECs0997
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: ATP Binding Cassette (ABC) Transporters

Protein Name: MsbA Lipid "flippase" in nano-discs with bound LPS


Small Molecules
Ligands 7 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FTT
Query on FTT

B 3-HYDROXY-TETRADECANOIC ACID
3-HYDROXY-MYRISTIC ACID (Synonym)
C14 H28 O3
ATRNZOYKSNPPBF-CYBMUJFWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
KDO
Query on KDO

A 3-DEOXY-D-MANNO-OCT-2-ULOSONIC ACID
C8 H14 O8
NNLZBVFSCVTSLA-HXUQBWEZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MYR
Query on MYR

B MYRISTIC ACID
C14 H28 O2
TUNFSRHWOTWDNC-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GMH
Query on GMH

A L-GLYCERO-D-MANNO-HEPTOPYRANOSE
C7 H14 O7
BGWQRWREUZVRGI-QQABCQGCSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DAO
Query on DAO

B LAURIC ACID
C12 H24 O2
POULHZVOKOAJMA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PA1
Query on PA1

A 2-amino-2-deoxy-alpha-D-glucopyranose
C6 H13 N O5
MSWZFWKMSRAUBD-UKFBFLRUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A, B PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.2 Å
  • Reconstruction Method: Single Particle

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2016-11-08
  • Released Date: 2017-09-20
  • Deposition author(s): Mi, W., Walz, T., Liao, M.

Revision History

  • Version 1_0: 2017-09-20

    Type: Initial release

  • Version 1_1: 2017-09-27

    Type: Database references