2VR5

Crystal structure of Trex from Sulfolobus Solfataricus in complex with acarbose intermediate and glucose

Structural Biology Knowledgebase: 2VR5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.214

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2VR5

Classification: HYDROLASE

Total Structure Weight: 168244.95

Macromolecule Entities
Molecule Chains Length Organism Details
GLYCOGEN OPERON PROTEIN GLGX A, B 718 Sulfolobus solfataricus EC#: 3.2.1 IUBMB
Details: DISULFIDE BOND BETWEEN A 254 AND A 261, A 505 AND A 519, B 254 AND B 261, B 505 AND B 519
Gene Name(s): orf c06021 SULA_2828 SULB_2829 SULC_2826

Small Molecules
Ligands 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
A16
Query on A16

A, B 4-O-(4,6-dideoxy-4-{[(1S,2S,3S,4R,5S)-2,3,4- trihydroxy-5-(hydroxymethyl)cyclohexyl]amino}- alpha-D-glucopyranosyl)-beta-D-glucopyranose
C19 H35 N O13
ARPGGXAVVRZVTA-FCTHMPQMSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GLC
Query on GLC

A, B ALPHA-D-GLUCOSE
C6 H12 O6
WQZGKKKJIJFFOK-DVKNGEFBSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

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

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.266
  • R-Value Work: 0.214
  • Space Group: P 3 2 1

Unit Cell:

Length (Å) Angle (°)
a = 204.81 α = 90.00
b = 204.81 β = 90.00
c = 89.56 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-03-26
  • Released Date: 2008-07-29
  • Deposition author(s): Song, H.-N., Yoon, S.-M., Lee, S.-J., Cha, H.-J., Park, K.-H., Woo, E.-J.

Revision History

  • 2015-04-01
    Type: Citation | Details: JRNL
  • 2012-08-29
    Type: Function and keywords | Details: KEYWDS
  • 2012-08-29
    Type: Citation | Details: JRNL
  • 2012-08-29
    Type: Non-polymer description | Details: HETSYN,FORMUL
  • 2012-08-29
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2012-08-29
    Type: Version format compliance | Details: REMARK 4
  • 2012-08-29
    Type: Refinement description | Details: REMARK 3
  • 2012-08-29
    Type: Other | Details: REMARK 525,REMARK 280,REMARK 900
  • 2012-08-29
    Type: Advisory | Details: CAVEAT
  • 2012-08-29
    Type: Geometry validation | Details: REMARK 500