4O9K

Crystal structure of the CBS pair of a putative D-arabinose 5-phosphate isomerase from Methylococcus capsulatus in complex with CMP-Kdo


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.189 
  • R-Value Work: 0.148 
  • R-Value Observed: 0.150 

wwPDB Validation 3D Report Full Report



Literature

Crystal structure and kinetic properties of D-arabinose 5-phosphate isomerase from Methylococcus capsulatus

Shabalin, I.G.Cooper, D.R.Shumilin, I.A.Zimmerman, M.D.Majorek, K.A.Hammonds, J.Hillerich, B.S.Nawar, A.Bonanno, J.Seidel, R.Almo, S.C.Minor, W.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Arabinose 5-phosphate isomeraseAB130Methylococcus capsulatus str. BathMutation(s): 0 
Gene Names: Locus tag MCA0746MCA0746
EC: 5.3.1.13
Find proteins for Q60AU8 (Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath))
Explore Q60AU8 
Go to UniProtKB:  Q60AU8
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CMK
Query on CMK

Download CCD File 
A, B
CYTIDINE 5'-MONOPHOSPHATE 3-DEOXY-BETA-D-GULO-OCT-2-ULO-PYRANOSONIC ACID
C17 H26 N3 O15 P
YWWJKULNWGRYAS-UOVSKDHASA-N
 Ligand Interaction
GOL
Query on GOL

Download CCD File 
B
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A,BL-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

Unit Cell:
Length ( Å )Angle ( ˚ )
a = 45.151α = 90
b = 62.408β = 90
c = 75.664γ = 90
Software Package:
Software NamePurpose
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-3000data collection
HKL-3000data reduction
HKL-3000data scaling
SHELXphasing
MLPHAREphasing
HKL-3000phasing

Structure Validation

View Full Validation Report



Entry History 

Revision History 

  • Version 1.0: 2014-01-22
    Type: Initial release