1LOJ

Crystal structure of a Methanobacterial Sm-like archaeal protein (SmAP1) bound to uridine-5'-monophosphate (UMP)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.207

Literature

Macromolecules
Sequence Display for 1LOJ

Classification: RNA BINDING PROTEIN transcription

Total Structure Weight: 140584.19

Macromolecule Entities
Molecule Chains Length Organism Details
small nuclear ribonucleoprotein homolog (Sm-like) A, B, C..., D, E, F, G, H, I, J, K, L, M, NA, B, C, D, E, F, G, H, I, J, K, L, M, N 87 Methanothermobacter thermautotrophicus Details: full-length SmAP1 with additional 5-6 residues appended to the C-terminus (artefact of cloning vector)
Gene Name(s): MTH_649
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, D, H, I, K, N URIDINE-5'-MONOPHOSPHATE
C9 H13 N2 O9 P
DJJCXFVJDGTHFX-XVFCMESISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
URI
Query on URI

B, C, E, F, G, J, L, M URIDINE
C9 H12 N2 O6
DRTQHJPVMGBUCF-XVFCMESISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MPD
Query on MPD

A, B, C, D, E, F, G, H, I, J, K, L, M, N (4S)-2-METHYL-2,4-PENTANEDIOL
C6 H14 O2
SVTBMSDMJJWYQN-YFKPBYRVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.9 Å
  • R-Value Free: 0.250
  • R-Value Work: 0.207
  • Space Group: P 1 21 1

Unit Cell:

Length (Å) Angle (°)
a = 65.25 α = 90.00
b = 109.96 β = 95.81
c = 83.76 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-05-06
  • Released Date: 2003-03-25
  • Deposition author(s): Mura, C., Kozhukhovsky, A., Eisenberg, D.

Revision History

  • 2008-04-28
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance