1P6J

Rat neuronal NOS heme domain with L-N(omega)-nitroarginine-(4R)-amino-L-proline amide bound

Structural Biology Knowledgebase: 1P6J SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.225

Literature

Macromolecules
Sequence Display for 1P6J

Classification: OXIDOREDUCTASE

Total Structure Weight: 100071.59

Macromolecule Entities
Molecule Chains Length Organism Details
Nitric-oxide synthase, brain A, B 421 Rattus norvegicus EC#: 1.14.13.39 IUBMB
Fragment: NOS heme domain
Gene Name(s): Nos1 Bnos
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, B PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DP9
Query on DP9

A, B L-N(OMEGA)-NITROARGININE-(4R)-AMINO-L-PROLINE AMIDE
C11 H22 N8 O4
IUFRDGFKAVLPFZ-CSMHCCOUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
H4B
Query on H4B

A, B 5,6,7,8-TETRAHYDROBIOPTERIN
C9 H15 N5 O3
FNKQXYHWGSIFBK-RPDRRWSUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

A ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACT
Query on ACT

A, B ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DP9 IC50: 640 nM (100) BindingDB
Ki: 100 - 21000 nM (96 - 100) BindingDB

Ki: 100 nM  BindingMOAD
N/A in PDBbind
H4B Kd: 1120 nM (96) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.259
  • R-Value Work: 0.225
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 52.33 α = 90.00
b = 111.05 β = 90.00
c = 164.69 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2003-04-29
  • Released Date: 2004-01-13
  • Deposition author(s): Flinspach, M.L., Li, H., Jamal, J., Yang, W., Huang, H., Hah, J.-M., Gomez-Vidal, J.A., Litzinger, E.A., Silverman, R.B., Poulos, T.L.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4