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PDBsum entry 1t8n

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protein ligands Protein-protein interface(s) links
Hydrolase/hydrolase inhibitor PDB id
1t8n
Jmol
Contents
Protein chains
239 a.a. *
58 a.a. *
Ligands
SO4 ×8
Waters ×520
* Residue conservation analysis
PDB id:
1t8n
Name: Hydrolase/hydrolase inhibitor
Title: Crystal structure of the p1 thr bpti mutant- bovine chymotrypsin complex
Structure: Chymotrypsin a. Chain: a, c. Mutation: yes. Pancreatic trypsin inhibitor. Chain: b, d. Synonym: basic protease inhibitor, bpi, bpti, aprotinin. Engineered: yes
Source: Bos taurus. Cattle. Organism_taxid: 9913. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008.
Biol. unit: Tetramer (from PQS)
Resolution:
1.75Å     R-factor:   0.200     R-free:   0.214
Authors: H.Czapinska,R.Helland,J.Otlewski,A.O.Smalas
Key ref:
H.Czapinska et al. (2004). Crystal structures of five bovine chymotrypsin complexes with P1 BPTI variants. J Mol Biol, 344, 1005-1020. PubMed id: 15544809 DOI: 10.1016/j.jmb.2004.09.088
Date:
13-May-04     Release date:   08-Mar-05    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chains
Pfam   ArchSchema ?
P00766  (CTRA_BOVIN) -  Chymotrypsinogen A
Seq:
Struc:
245 a.a.
239 a.a.
Protein chains
Pfam   ArchSchema ?
P00974  (BPT1_BOVIN) -  Pancreatic trypsin inhibitor
Seq:
Struc:
100 a.a.
58 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 2 residue positions (black crosses)

 Enzyme reactions 
   Enzyme class: Chains A, C: E.C.3.4.21.1  - Chymotrypsin.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Preferential cleavage: Tyr-|-Xaa, Trp-|-Xaa, Phe-|-Xaa, Leu-|-Xaa.
 Gene Ontology (GO) functional annotation 
  GO annot!
  Cellular component     extracellular region   2 terms 
  Biological process     digestion   2 terms 
  Biochemical function     catalytic activity     7 terms  

 

 
DOI no: 10.1016/j.jmb.2004.09.088 J Mol Biol 344:1005-1020 (2004)
PubMed id: 15544809  
 
 
Crystal structures of five bovine chymotrypsin complexes with P1 BPTI variants.
H.Czapinska, R.Helland, A.O.Smalås, J.Otlewski.
 
  ABSTRACT  
 
The bovine chymotrypsin-bovine pancreatic trypsin inhibitor (BPTI) interaction belongs to extensively studied models of protein-protein recognition. The accommodation of the inhibitor P1 residue in the S1 binding site of the enzyme forms the hot spot of this interaction. Mutations introduced at the P1 position of BPTI result in a more than five orders of magnitude difference of the association constant values with the protease. To elucidate the structural aspects of the discrimination between different P1 residues, crystal structures of five bovine chymotrypsin-P1 BPTI variant complexes have been determined at pH 7.8 to a resolution below 2 A. The set includes polar (Thr), ionizable (Glu, His), medium-sized aliphatic (Met) and large aromatic (Trp) P1 residues and complements our earlier studies of the interaction of different P1 side-chains with the S1 pocket of chymotrypsin. The structures have been compared to the complexes of proteases with similar and dissimilar P1 preferences, including Streptomyces griseus proteases B and E, human neutrophil elastase, crab collagenase, bovine trypsin and human thrombin. The S1 sites of these enzymes share a common general shape of significant rigidity. Large and branched P1 residues adapt in their complexes similar conformations regardless of the polarity and size differences between their S1 pockets. Conversely, long and flexible residues such as P1 Met are present in the disordered form and display a conformational diversity despite similar inhibitory properties with respect to most enzymes studied. Thus, the S1 specificity profiles of the serine proteases appear to result from the precise complementarity of the P1-S1 interface and minor conformational adjustments occurring upon the inhibitor binding.
 
  Selected figure(s)  
 
Figure 1.
Figure 1. The electron density for the P1 residue of BPTI and residues Ser189, Ser190 and Met192 of chymotrypsin together with the hydrogen bonding pattern of the P1 side-chain in the structures of the following complexes: (a) Chtp-K15E BPTI; (b) Chtp-K15M BPTI; (c) Chtp-K15H BPTI; (d) Chtp-K15T BPTI; (e) Chtp-K15W BPTI. The 2F[o] -F[c] maps were contoured at 1.5s. Selected side-chains are indicated in red, the binding loop of the inhibitor in orange and the S1 binding pocket of the enzyme in gray (only the main-chain of the S1 pocket together with Cys191 and Cys220 side-chains is presented for clarity). This and the following Figures were produced with the program XtalView.47
Figure 6.
Figure 6. The superposition of the S1 pockets in P1 Trp BPTI-bovine chymotrypsin complex (red/orange); P1 Trp BPTI-bovine trypsin complex (PDB 3BTW, blue); and the complex of thrombin with the P1 Trp possessing peptidyl inhibitor (PDB 1AD8, green).
 
  The above figures are reprinted by permission from Elsevier: J Mol Biol (2004, 344, 1005-1020) copyright 2004.  
  Figures were selected by an automated process.  

Literature references that cite this PDB file's key reference

  PubMed id Reference
20800580 M.A.Qasim, J.Song, J.L.Markley, and M.Laskowski (2010).
Cleavage of peptide bonds bearing ionizable amino acids at P(1) by serine proteases with hydrophobic S(1) pocket.
  Biochem Biophys Res Commun, 400, 507-510.  
19705489 P.Singh, A.M.LeBeau, H.Lilja, S.R.Denmeade, and J.T.Isaacs (2009).
Molecular insights into substrate specificity of prostate specific antigen through structural modeling.
  Proteins, 77, 984-993.  
18922802 K.W.Rickert, P.Kelley, N.J.Byrne, R.E.Diehl, D.L.Hall, A.M.Montalvo, J.C.Reid, J.M.Shipman, B.W.Thomas, S.K.Munshi, P.L.Darke, and H.P.Su (2008).
Structure of human prostasin, a target for the regulation of hypertension.
  J Biol Chem, 283, 34864-34872.
PDB codes: 3dfj 3dfl
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