Macromolecules
Sequence Display for 4PEI

Classification: HYDROLASE / RNA

Total Structure Weight: 218389.00


Macromolecule Entities
Molecule Chains Length Organism Details
RNA lariat debranching enzyme, putative A, B, C, D, E 356 Entamoeba histolytica Mutation: C14S
Gene Name(s): EHI_062730
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
RNA (5'-R(*UP*AP*AP*CP*A)-3') V, W, X, Y, Z 5 Synthetic construct
RNA (5'-R(*(G46)P*U)-3') Q, R, S, T, U 2 Synthetic construct

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PG4
Query on PG4

B TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B, C, D, E SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

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

A, B, C, D, E NICKEL (II) ION
Ni
VEQPNABPJHWNSG-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
G46
Query on G46
Q, R, S, T, U RNA LINKING C10 H14 N5 O7 P S G

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.229
  • R-Value Work: 0.184
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 73.04 α = 90.00
b = 142.48 β = 90.00
c = 214.66 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2014-04-23
  • Released Date: 2014-08-27
  • Deposition author(s): Montemayor, E.J., Katolik, A., Clark, N.E., Taylor, A.B., Schuermann, J.P., Combs, D.J., Johnsson, R., Holloway, S.P., Stevens, S.W., Damha, M.J., Hart, P.J.

Revision History

  • 2014-10-01
    Type: Database references
  • 2014-11-12
    Type: Atomic model, Derived calculations
  • 2015-02-25
    Type: Non-polymer description