2MSD

NMR data-driven model of GTPase KRas-GNP tethered to a lipid-bilayer nanodisc


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 3000
  • Conformers Submitted: 10
  • Selection Criteria: Structures with the Lowest Energy

Literature

Macromolecules
Sequence Display for 2MSD

Classification: LIPID BINDING PROTEIN

Total Structure Weight: 131259.77

Macromolecule Entities
Molecule Chains Length Organism Details
Apolipoprotein A-I A, C 200 Homo sapiens Fragment: UNP RESIDUES 68-265
Gene Name(s): APOA1 Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
V-Ki-ras2 Kirsten rat sarcoma viral oncogene homolog, isoform CRA_b B 187 Homo sapiens Fragment: UNP RESIDUES 1-185
Gene Name(s): KRAS Gene View hCG_14731
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
17F
Query on 17F

A O-[(S)-({(2R)-2,3-bis[(9Z)-octadec-9-enoyloxy]propyl}oxy)(hydroxy)phosphoryl]- L-serine
1,2-Dioleoyl-sn-glycero-3-phospho-L-serine (Synonym)
C42 H78 N O10 P
WTBFLCSPLLEDEM-JIDRGYQWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PCW
Query on PCW

A 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE
N, (Synonym)
C44 H85 N O8 P
SNKAWJBJQDLSFF-NVKMUCNASA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GNP
Query on GNP

B PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER
C10 H17 N6 O13 P3
UQABYHGXWYXDTK-UUOKFMHZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

B MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 3000
  • Conformers Submitted: 10
  • Selection Criteria: structures with the lowest energy

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-07-29
  • Released Date: 2015-06-03
  • Deposition author(s): Mazhab-Jafari, M., Stathopoulos, P., Marshall, C., Ikura, M.

Revision History

  • Version 1_0: 2015-06-03

    Type: Initial release

  • Version 1_1: 2015-06-10

    Type: Database references