1E9V

XENON BOUND IN HYDROPHOBIC CHANNEL OF HYBRID CLUSTER PROTEIN FROM DESULFOVIBRIO VULGARIS

Structural Biology Knowledgebase: 1E9V SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free: 0.197
  • R-Value Work: 0.161

Literature

Macromolecules
Sequence Display for 1E9V

Classification: OXIDOREDUCTASE

Total Structure Weight: 62837.80

Macromolecule Entities
Molecule Chains Length Organism Details
HYDROXYLAMINE REDUCTASE A 553 Desulfovibrio vulgaris EC#: 1.7.99.1 IUBMB
Gene Name(s): hcp DVU_2013
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 7 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
FSO
Query on FSO

A IRON/SULFUR/OXYGEN HYBRID CLUSTER
Fe4 O3 S3
NIIPGMCXXHQOSA-LVFFOBLJCB
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SF4
Query on SF4

A IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
XE
Query on XE

A XENON
Xe
FHNFHKCVQCLJFQ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
TRS
Query on TRS

A 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL
TRIS BUFFER (Synonym)
C4 H12 N O3
LENZDBCJOHFCAS-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
GOL
Query on GOL

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

A 1,2-ETHANEDIOL
ETHYLENE GLYCOL (Synonym)
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACY
Query on ACY

A ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
CSS
Query on CSS
A L-PEPTIDE LINKING C3 H7 N O2 S2 CYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.79 Å
  • R-Value Free: 0.197
  • R-Value Work: 0.161
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 63.62 α = 90.00
b = 64.60 β = 90.00
c = 152.25 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-10-27
  • Released Date: 2001-10-25
  • Deposition author(s): Cooper, S.J., Bailey, S., Rizkallah, P.J., Lindley, P.F.

Revision History

  • 2013-03-27
    Type: Source and taxonomy | Details: SOURCE
  • 2013-03-27
    Type: Sequence database correspondence | Details: SEQADV
  • 2013-03-27
    Type: Non-polymer description | Details: FORMUL
  • 2013-03-27
    Type: Other | Details: REMARK 900
  • 2013-03-27
    Type: Function and keywords | Details: KEYWDS
  • 2011-10-26
    Type: Non-polymer description | Details: HETSYN,FORMUL
  • 2011-10-26
    Type: Geometry validation | Details: REMARK 500
  • 2011-10-26
    Type: Other | Details: REMARK 2,REMARK 525,REMARK 280,REMARK 480
  • 2011-10-26
    Type: Biological assembly | Details: REMARK 300,REMARK 350
  • 2011-10-26
    Type: Version format compliance | Details: REMARK 4
  • 2011-10-26
    Type: Polymer description | Details: COMPND