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PDBsum entry 5jb8

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protein ligands metals Protein-protein interface(s) links
Hydrolase PDB id
5jb8

 

 

 

 

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Contents
Protein chains
51 a.a.
235 a.a.
Ligands
0GJ
DMS
Metals
_CA
Waters ×256
PDB id:
5jb8
Name: Hydrolase
Title: Crystal structure of factor ixa variant k98t in complex with egr- chloromethylketone
Structure: Coagulation factor ix. Chain: e. Synonym: christmas factor,plasma thromboplastin component,ptc. Engineered: yes. Other_details: fragment: egf2 domain, residues 133-191. Coagulation factor ix. Chain: s. Synonym: christmas factor,plasma thromboplastin component,ptc. Engineered: yes.
Source: Homo sapiens. Human. Organism_taxid: 9606. Gene: f9. Expressed in: escherichia coli bl21(de3). Expression_system_taxid: 469008. Expression_system_variant: nico21. Expression_system_variant: nico21
Resolution:
1.45Å     R-factor:   0.153     R-free:   0.185
Authors: L.H.Kristensen,H.Brandstetter
Key ref: L.H.Kristensen et al. (2016). Releasing the brakes in coagulation Factor IXa by co-operative maturation of the substrate-binding site. Biochem J, 473, 2395-2411. PubMed id: 27208168 DOI: 10.1042/BCJ20160336
Date:
13-Apr-16     Release date:   01-Jun-16    
PROCHECK
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 Headers
 References

Protein chain
Pfam   ArchSchema ?
P00740  (FA9_HUMAN) -  Coagulation factor IX from Homo sapiens
Seq:
Struc:
461 a.a.
51 a.a.
Protein chain
Pfam   ArchSchema ?
P00740  (FA9_HUMAN) -  Coagulation factor IX from Homo sapiens
Seq:
Struc:
461 a.a.
235 a.a.*
Key:    PfamA domain  Secondary structure  CATH domain
* PDB and UniProt seqs differ at 1 residue position (black cross)

 Enzyme reactions 
   Enzyme class: Chains E, S: E.C.3.4.21.22  - coagulation factor IXa.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Hydrolyzes one Arg-|-Ile bond in factor X to form factor Xa.

 

 
DOI no: 10.1042/BCJ20160336 Biochem J 473:2395-2411 (2016)
PubMed id: 27208168  
 
 
Releasing the brakes in coagulation Factor IXa by co-operative maturation of the substrate-binding site.
L.H.Kristensen, O.H.Olsen, G.E.Blouse, H.Brandstetter.
 
  ABSTRACT  
 
Coagulation Factor IX is positioned at the merging point of the intrinsic and extrinsic blood coagulation cascades. Factor IXa (activated Factor IX) serves as the trigger for amplification of coagulation through formation of the so-called Xase complex, which is a ternary complex of Factor IXa, its substrate Factor X and the cofactor Factor VIIIa on the surface of activated platelets. Within the Xase complex the substrate turnover by Factor IXa is enhanced 200000-fold; however, the mechanistic and structural basis for this dramatic enhancement remains only partly understood. A multifaceted approach using enzymatic, biophysical and crystallographic methods to evaluate a key set of activity-enhanced Factor IXa variants has demonstrated a delicately balanced bidirectional network. Essential molecular interactions across multiple regions of the Factor IXa molecule co-operate in the maturation of the active site. This maturation is specifically facilitated by long-range communication through the Ile(212)-Ile(213) motif unique to Factor IXa and a flexibility of the 170-loop that is further dependent on the conformation in the Cys(168)-Cys(182) disulfide bond. Ultimately, the network consists of compensatory brakes (Val(16) and Ile(213)) and accelerators (Tyr(99) and Phe(174)) that together allow for a subtle fine-tuning of enzymatic activity.
 

 

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