1RLM

Crystal Structure of ybiV from Escherichia coli K12

Structural Biology Knowledgebase: 1RLM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.219

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1RLM

Classification: HYDROLASE

Total Structure Weight: 122686.18

Macromolecule Entities
Molecule Chains Length Organism Details
Phosphatase A, B, C, D 271 Escherichia coli EC#: 3.1.3.23 IUBMB
Mutation: S2A, S267Y
Gene Name(s): ybiV supH b0822 JW0806

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

A, B, C, D GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A, B, C, D MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.248
  • R-Value Work: 0.219
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 71.82 α = 90.00
b = 91.61 β = 90.00
c = 186.56 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-11-26
  • Released Date: 2004-12-07
  • Deposition author(s): Roberts, A., Lee, S.Y., McCullagh, E., Silversmith, R.E., Wemmer, D.E.

Revision History

  • 2014-11-12
    Type: Function and keywords | Details: --
  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4