1M7G

Crystal structure of APS kinase from Penicillium Chrysogenum: Ternary structure with ADP and APS

Structural Biology Knowledgebase: 1M7G SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.43 Å
  • R-Value Free: 0.205
  • R-Value Work: 0.180

Literature

Macromolecules
Sequence Display for 1M7G

Classification: Transferase

Total Structure Weight: 99562.27

Macromolecule Entities
Molecule Chains Length Organism Details
Adenylylsulfate kinase A, B, C, D 211 Penicillium chrysogenum EC#: 2.7.1.25 IUBMB
Gene Name(s):
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
AV2
Query on AV2

A, C ADENOSINE-5'-DIPHOSPHATE-2',3'-VANADATE
C10 H14 N5 O12 P2 V
PCCLXHWRDHBBRF-MSQVLRTGSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ADX
Query on ADX

A, B, C, D ADENOSINE-5'-PHOSPHOSULFATE
C10 H14 N5 O10 P S
IRLPACMLTUPBCL-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ADP
Query on ADP

B, D ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

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

B, C GLYCEROL
2, (Synonym)
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.43 Å
  • R-Value Free: 0.205
  • R-Value Work: 0.180
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 81.52 α = 90.00
b = 84.32 β = 90.00
c = 137.26 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-07-19
  • Released Date: 2002-11-27
  • Deposition author(s): Lansdon, E.B., Segel, I.H., Fisher, A.J.

Revision History

  • 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