3VUA

Apo IsdH-NEAT3 in space group P3121 at a resolution of 1.85 A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.182 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structure of heme transport protein IsdH-NEAT3 from S. aureus in complex with Indium-porphyrin

Vu, N.T.Moriwaki, Y.Caaveiro, J.M.M.Tsumoto, K.

To be published.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Iron-regulated surface determinant protein H
A, B, C, D, E
A, B, C, D, E, F
126Staphylococcus aureus subsp. aureus Mu50Mutation(s): 0 
Gene Names: harAisdHIsdH-NEAT3sasISAV1731
UniProt
Find proteins for Q931P4 (Staphylococcus aureus (strain Mu50 / ATCC 700699))
Explore Q931P4 
Go to UniProtKB:  Q931P4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ931P4
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download Ideal Coordinates CCD File 
G [auth A]
H [auth A]
N [auth C]
O [auth C]
S [auth E]
G [auth A],
H [auth A],
N [auth C],
O [auth C],
S [auth E],
T [auth F]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
GOL
Query on GOL

Download Ideal Coordinates CCD File 
J [auth B]
K [auth C]
L [auth C]
M [auth C]
Q [auth D]
J [auth B],
K [auth C],
L [auth C],
M [auth C],
Q [auth D],
R [auth E]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
ACT
Query on ACT

Download Ideal Coordinates CCD File 
I [auth A],
P [auth C]
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.180 
  • R-Value Observed: 0.182 
  • Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 126.68α = 90
b = 126.68β = 90
c = 116.591γ = 120
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
SERGUIdata collection

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2013-06-26
    Type: Initial release
  • Version 1.1: 2017-11-22
    Changes: Refinement description
  • Version 1.2: 2023-11-08
    Changes: Data collection, Database references, Derived calculations, Refinement description