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Thrombin in complex with inhibitor
4BAM
Primary Citation
 
 
  •   Molecular Description Hide
    Classification: Hydrolase
    Structure Weight: 36136.30
    Molecule: THROMBIN LIGHT CHAIN
    Polymer: 1 Type: protein Length: 36
    Chains: A
    EC#: 3.4.21.5   
    Organism Homo sapiens
    Gene Name F2
    UniProtKB:   Protein Feature View | Search PDB | P00734  
    Molecule: THROMBIN HEAVY CHAIN
    Polymer: 2 Type: protein Length: 259
    Chains: B
    EC#: 3.4.21.5   
    Organism Homo sapiens
    Gene Name F2
    UniProtKB:   Protein Feature View | Search PDB | P00734  
    Molecule: HIRUDIN VARIANT-1
    Polymer: 3 Type: protein Length: 12
    Chains: D
    Fragment: RESIDUES 53-64
    Details: SYNTHETIC C-TERMINAL PEPTIDE 53-64 (WITH SULFATO-TYR63)
    Organism Hirudo medicinalis
    UniProtKB:   Protein Feature View | Search PDB | P01050  
     
  •   Structure Validation Hide

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  •   Related Citations in PDB Entry (REMARK 1) Hide
     
  •   Source Hide
    Polymer: 1
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 2
    Scientific Name: Homo sapiens   Taxonomy   Common Name: Human  
    Polymer: 3
    Scientific Name: Synthetic construct (Hirudo medicinalis)   Taxonomy    
     
  •   Related PDB Entries Hide
    Identifier Details
    4BAK  THROMBIN IN COMPLEX WITH INHIBITOR 
    4BAN  THROMBIN IN COMPLEX WITH INHIBITOR 
    4BAO  THROMBIN IN COMPLEX WITH INHIBITOR 
    4BAQ  THROMBIN IN COMPLEX WITH INHIBITOR 
     
  •   Ligand Chemical Component Hide
    Identifier Formula Name View Interactions
    MM9
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    MM9 C24 H36 N6 O3
    (2S)-N-[(4-carbamimidoylphenyl)methyl]-1- [(2R)-2-cyclohexyl-2-[[2-(dimethylamino)- 2-oxidanylidene-ethyl]amino]ethanoyl]azetidine- 2-carboxamide
    MM9:4BAM
    NA
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    NA Na
    SODIUM ION
    NAG
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    NAG C8 H15 N O6
    N-ACETYL-D-GLUCOSAMINE
     
  •   Modified Residues Hide
    Identifier Formula Parent Type
    TYS
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    TYS C9 H11 N O6 S TYR lPeptideLinking
     
  •   External Domain Annotations Hide
     
  •   Structural Biology Knowledgebase Data Hide
     
 
Data in orange boxes are gathered from external resources (when available).
 
  Biological Assembly       
Biological assembly 1 assigned by authors and generated by PISA (software)
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  •   MyPDB Personal Annotations Hide
     
  •   Deposition Summary Hide
    Authors:   Xue, Y.,  Musil, D.

    Deposition:   2012-09-14
    Release:   2013-01-16
    Last Modified (REVDAT):   2013-03-13
     
  •   Revision History    Hide
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    2013-03-13
    Binding sites and description
    2013-02-20
    Citation
     
  •   Experimental Details Hide
    Method:   X-RAY DIFFRACTION
    Exp. Data:
      Structure Factors
    EDS  
    Resolution[Å]:   1.88
    R-Value: 0.170 (obs.)
    R-Free: 0.195
    Space Group: C 2
    Unit Cell:
      Length [Å] Angles [°]
    a = 69.41 α = 90.00 
    b = 71.51 β = 100.34 
    c = 72.16 γ = 90.00