1M8V

Structure of Pyrococcus abyssii Sm Protein in Complex with a Uridine Heptamer

Structural Biology Knowledgebase: 1M8V SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.282
  • R-Value Work: 0.212

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1M8V

Classification: RNA BINDING PROTEIN / RNA

Total Structure Weight: 140328.19


Macromolecule Entities
Molecule Chains Length Organism Details
PUTATIVE SNRNP SM-LIKE PROTEIN 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 77 Pyrococcus abyssi Gene Name(s): PYRAB06500 PAB8160
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-R(P*UP*UP*UP*UP*UP*UP*U)-3' O, P, Q... , R, S, T, U O, P, Q, R, S, T, U 7 synthetic

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

A, B, C, D, E, F, G, H, I, J, K, L, M URIDINE-5'-MONOPHOSPHATE
C9 H13 N2 O9 P
DJJCXFVJDGTHFX-XVFCMESISA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

O, P, Q, R, S, T, U CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.282
  • R-Value Work: 0.212
  • Space Group: P 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 68.00 α = 105.00
b = 68.00 β = 108.80
c = 84.80 γ = 100.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-07-26
  • Released Date: 2003-02-11
  • Deposition author(s): Thore, S., Mayer, C., Sauter, C., Weeks, S., Suck, D.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4