1MKY

Structural Analysis of the Domain Interactions in Der, a Switch Protein Containing Two GTPase Domains

Structural Biology Knowledgebase: 1MKY SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.204

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1MKY

Classification: LIGAND BINDING PROTEIN

Total Structure Weight: 51455.76

Macromolecule Entities
Molecule Chains Length Organism Details
Probable GTP-binding protein engA A 439 Thermotoga maritima Fragment: two GTPase domains
Mutation: E306V, L388V
Details: probable GTPase
Gene Name(s): der engA TM_1446

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

A GUANOSINE-5'-DIPHOSPHATE
C10 H15 N5 O11 P2
QGWNDRXFNXRZMB-UUOKFMHZSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PO4
Query on PO4

A PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.224
  • R-Value Work: 0.204
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 62.14 α = 90.00
b = 77.99 β = 90.00
c = 96.60 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-08-29
  • Released Date: 2003-01-14
  • Deposition author(s): Robinson, V.L., Hwang, J., Fox, E., Inouye, M., Stock, A.M.

Revision History

  • 2015-02-04
    Type: Citation | Details: Citation update
  • 2015-02-04
    Type: Other | Details: diffraction protocol update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4