1MMF

Crystal structure of substrate free form of glycerol dehydratase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.269
  • R-Value Work: 0.228

Literature

Macromolecules
Sequence Display for 1MMF

Classification: LYASE

Total Structure Weight: 199131.59

Macromolecule Entities
Molecule Chains Length Organism Details
glycerol dehydrase alpha subunit A, L 555 Klebsiella pneumoniae EC#: 4.2.1.30 IUBMB
Gene Name(s): dhaB1 dhaB gldA pduC AGG09_17405 B1727_09235 B4U21_25765 B4U22_26550 B8011_03500 BB785_03360 BCB67_16995 CRN73_07525 CS372_06150 PMK1_01006 SM57_03729 SM87_03232
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
glycerol dehydrase beta subunit B, E 194 Klebsiella pneumoniae EC#: 4.2.1.30 IUBMB
Mutation: M1V
Gene Name(s): gldB
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
glycerol dehydrase gamma subunit G, M 141 Klebsiella pneumoniae EC#: 4.2.1.30 IUBMB
Gene Name(s): dhaB3 dhaE gldC pduE_2 AGG09_17415 B1727_09245 B4U21_25775 B8011_03490 BCB67_17005 BVX91_19860 CKJ89_06590 CR230_05025 KpST82_0486 SAMEA3531778_03705 SM87_03230
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
B12
Query on B12

B, E COBALAMIN
C62 H89 Co N13 O14 P
LKVIQTCSMMVGFU-DWSMJLPVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
K
Query on K

A, L POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.269
  • R-Value Work: 0.228
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 93.70 α = 90.00
b = 110.07 β = 107.64
c = 114.69 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-09-03
  • Released Date: 2003-06-10
  • Deposition author(s): Liao, D.I., Dotson, G., Turner, I., Reiss, L., Emptage, M.

Revision History

  • Version 1_0: 2003-06-10

    Type: Initial release

  • Version 1_1: 2008-04-28

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance

  • Version 1_3: 2012-10-24

    Type: Non-polymer description