3I0A

Crystal structure of Siderocalin (NGAL, Lipocalin 2) K134A mutant complexed with Ferric Enterobactin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.300
  • R-Value Work: 0.255

Literature

Macromolecules
Sequence Display for 3I0A

Classification: ANTIMICROBIAL PROTEIN

Total Structure Weight: 69884.84

Macromolecule Entities
Molecule Chains Length Organism Details
Neutrophil gelatinase-associated lipocalin A, B, C 198 Homo sapiens Mutation: C87S, K134A
Gene Name(s): LCN2 Gene View HNL NGAL
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

C N-[(2,3-dihydroxyphenyl)carbonyl]-O-[(2S)- 2-{[(2,3-dihydroxyphenyl)carbonyl]amino}- 3-({N-[(2,3-dihydroxyphenyl)carbonyl]-L-seryl}oxy)propanoyl]- D-serine
C30 H29 N3 O16
NTWRWGRCGVKQNS-KSZLIROESA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
2DS
Query on 2DS

A N-[(2,3-dihydroxyphenyl)carbonyl]-O-[(2R)- 2-{[(2,3-dihydroxyphenyl)carbonyl]amino}- 3-hydroxypropanoyl]-L-serine
C20 H20 N2 O11
KLXJDVFEFZPIMN-NEPJUHHUSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
3ET
Query on 3ET

A O-[(2R)-2-amino-3-(D-seryloxy)propanoyl]- N-[(2,3-dihydroxyphenyl)carbonyl]-L-serine
C16 H21 N3 O10
ZXSIADNPWRCRTI-BBBLOLIVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
DBH
Query on DBH

B 2,3-DIHYDROXY-BENZOIC ACID
C7 H6 O4
GLDQAMYCGOIJDV-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

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

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

A, B, C FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.300
  • R-Value Work: 0.255
  • Space Group: P 41 21 2

Unit Cell:

Length (Å) Angle (°)
a = 114.25 α = 90.00
b = 114.25 β = 90.00
c = 117.95 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-06-24
  • Released Date: 2010-06-09
  • Deposition author(s): Clifton, M.C.

Revision History

  • Version 1_0: 2010-06-09

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Version format compliance