3SSB

Structure of Insect Metalloproteinase Inhibitor in Complex with Thermolysin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.159 
  • R-Value Observed: 0.159 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural evidence for standard-mechanism inhibition in metallopeptidases from a complex poised to resynthesize a Peptide bond.

Arolas, J.L.Botelho, T.O.Vilcinskas, A.Gomis-Ruth, F.X.

(2011) Angew Chem Int Ed Engl 50: 10357-10360


Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ThermolysinA,
D [auth B]
316Bacillus thermoproteolyticusMutation(s): 0 
Gene Names: npr
EC: 3.4.24.27
UniProt
Find proteins for P00800 (Bacillus thermoproteolyticus)
Explore P00800 
Go to UniProtKB:  P00800
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP00800
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Inducible metalloproteinase inhibitor proteinB [auth C],
E [auth D]
40Galleria mellonellaMutation(s): 0 
Gene Names: IMPI
UniProt
Find proteins for P82176 (Galleria mellonella)
Explore P82176 
Go to UniProtKB:  P82176
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP82176
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Inducible metalloproteinase inhibitor proteinC [auth I],
F [auth J]
32Galleria mellonellaMutation(s): 0 
Gene Names: IMPI
UniProt
Find proteins for P82176 (Galleria mellonella)
Explore P82176 
Go to UniProtKB:  P82176
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP82176
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
G [auth A],
M [auth I],
N [auth B]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
ZN
Query on ZN

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H [auth A],
O [auth B]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
CA
Query on CA

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I [auth A],
J [auth A],
K [auth A],
P [auth B],
Q [auth B],
I [auth A],
J [auth A],
K [auth A],
P [auth B],
Q [auth B],
R [auth B]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
NA
Query on NA

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L [auth A],
S [auth B]
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.193 
  • R-Value Work: 0.159 
  • R-Value Observed: 0.159 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 45.64α = 90
b = 78.37β = 90.08
c = 92.29γ = 90
Software Package:
Software NamePurpose
ProDCdata collection
PHASERphasing
REFMACrefinement
XDSdata reduction
SCALAdata scaling

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-09-07
    Type: Initial release
  • Version 1.1: 2011-11-02
    Changes: Database references
  • Version 1.2: 2017-11-08
    Changes: Refinement description