1RRC

T4 POLYNUCLEOTIDE KINASE BOUND TO 5'-GTC-3' SSDNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.46 Å
  • R-Value Free: 0.274
  • R-Value Work: 0.233

Literature

Macromolecules
Sequence Display for 1RRC

Classification: TRANSFERASE / DNA

Total Structure Weight: 36697.71


Macromolecule Entities
Molecule Chains Length Organism Details
Polynucleotide kinase A 301 Enterobacteria phage t4 sensu lato EC#: 2.7.1.78 IUBMB
Mutation: M1M, M42M, M63M, M139M, M143M, M173M, M192M, M199M, M203M, M227M, M242M, M285M
Gene Name(s): pseT
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
5'-D(*GP*TP*C)-3' B 3 synthetic

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

A ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DMS
Query on DMS

A DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.46 Å
  • R-Value Free: 0.274
  • R-Value Work: 0.233
  • Space Group: I 2 2 2

Unit Cell:

Length (Å) Angle (°)
a = 81.13 α = 90.00
b = 92.98 β = 90.00
c = 124.14 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-12-08
  • Released Date: 2004-02-17
  • Deposition author(s): Eastberg, J.H., Pelletier, J., Stoddard, B.L.

Revision History

  • Version 1_0: 2004-02-17

    Type: Initial release

  • Version 1_1: 2008-04-29

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance

  • Version 1_3: 2011-11-16

    Type: Atomic model