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Crystal Structure of Human Coagulation Factor XA Complexed with RPR208707
Biology and Chemistry Report
1F0S
  •   Structure Details   Hide

    Structure Keywords

    Keywords HYDROLASE
    Text Protein-inhibitor complex, HYDROLASE

    Polymeric Molecules

    Chain A
    Description COAGULATION FACTOR XA 
    Fragment ACTIVATED FACTOR XA, HEAVY CHAIN 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 28550.8 
    Source Method natural source  
    Chain B
    Description COAGULATION FACTOR XA 
    Fragment FACTOR X LIGHT CHAIN 
    Nonstandard Linkage no 
    Nonstandard Monomers no 
    Polymer Type polypeptide(L) 
    Formula Weight 15210.9 
    Source Method natural source  

    Ligands and Prosthetic Groups

    ID Name Chemical Formula Weight Ligand Structure
    CA  CALCIUM ION  Ca   40.08  View 
    PR2  THIENO[3,2-B]PYRIDINE-2-SULFONIC ACID [2-OXO-1-(1H-PYRROLO[2,3-C]PYRIDIN-2-YLMETHYL)-PYRROLIDIN-3-YL]-AMIDE  C19 H17 N5 O3 S2   427.50  View 
     
  •   Protein Details   Hide

    UniProtKB Information

    Chain SWS/UNP ID SWS/UNP Accession(s)
    A FA10_HUMAN P00742     
    B FA10_HUMAN P00742     

    Keywords and Names

    Chain(s) RCSB Name UniProtKB Name UniProtKB Keywords

    EC, Associated Pathways and Catalytic Sites

    Chain(s) IUBMB KEGG BioCyc Catalytic Site(s)
    3.4.21.6        
    3.4.21.6        
    C: Cellular Location | F: Molecular Function | P: Biological Process
    Chain A
    GO ID   Ontology GO Term Definition
    6508   Proteolysis  The Hydrolysis of Proteins Into Smaller Polypeptides And/or Amino Acids by Cleavage of Their Peptide Bonds. 
    3824   Catalytic Activity  Catalysis of a Biochemical Reaction At Physiological Temperatures. in Biologically Catalyzed Reactions the Reactants Are Known As Substrates and the Catalysts Are Naturally Occurring Macromolecular Substances Known As Enzymes. Enzymes Possess Specific Binding Sites For Substrates and Are Usually Composed Wholly or Largely of Protein But RNA That Has Catalytic Activity (ribozyme) Is Often Also Regarded As Enzymatic. 
    4252   Serine Type Endopeptidase Activity  Catalysis of the Hydrolysis of Internal Alpha Peptide Bonds in a Polypeptide Chain by a Catalytic Mechanism That Involves a Catalytic Triad Consisting of a Serine Nucleophile That Is Activated by a Proton Relay Involving an Acidic Residue (e.g. Aspartate or Glutamate) and a Basic Residue (usually Histidine). 
    Chain B
    GO ID   Ontology GO Term Definition
    5576   Extracellular Region  The Space External to the Outermost Structure of a Cell. For Cells Without External Protective or External Encapsulating Structures This Refers to Space Outside of the Plasma Membrane. This Term Covers the Host Cell Environment Outside an Intracellular Parasite. 
    5509   Calcium Ion Binding  Interacting Selectively and Non Covalently with Calcium Ions (ca2+). 


    Protein Analyses

    Measured Binding Affinities   

     
  •   Gene Details   Hide

    Natural Source

    Chain B
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo
    Chain A
    Common Name Human
    Scientific Name Homo sapiens  
    Genus Homo

    Genome Information

    Chromosome Locus Gene ID Gene Name Symbol
    13 13q34 2159     coagulation factor X F10    

    Single Nucleotide Polymorphisms (from LS-SNP database)

    SNP ID LsSnp Link dbSNP Link Chain PDB position Amino acid changes Secondary structure Solvent Accessibility Chromosome Chromosome position Ligand
    rs139359666 LS-SNP   dbSNP   A 31 A - > V Beta Ladder 1% (Buried) 13 113801694
    rs150027202 LS-SNP   dbSNP   A 32 L - > R Beta Ladder 2% (Buried) 13 113801697
    rs121964948 LS-SNP   dbSNP   A 68 R - > W Beta Ladder 1% (Buried) 13 113801804
    rs121964946 LS-SNP   dbSNP   A 70 G - > R Coil 7% (Buried) 13 113801810 CA
    rs149212700 LS-SNP   dbSNP   A 72 R - > Q Beta 10% (Intermediate) 13 113803236 CA
    rs145282353 LS-SNP   dbSNP   A 82 A - > V Beta Ladder 51% (Exposed) 13 113803266
    rs144679674 LS-SNP   dbSNP   A 97 K - > R Turn 98% (Exposed) 13 113803311 PR2
    rs121964942 LS-SNP   dbSNP   A 103 D - > N Coil 0% (Buried) 13 113803328
    rs121964947 LS-SNP   dbSNP   A 119 V - > M Coil 0% (Buried) 13 113803376
    rs201675411 LS-SNP   dbSNP   A 120 A - > V Coil 7% (Buried) 13 113803380
    rs201421020 LS-SNP   dbSNP   A 121 P - > A Coil 1% (Buried) 13 113803382
    rs104894392 LS-SNP   dbSNP   A 147 R - > C Turn 30% (Intermediate) 13 113803460
    rs143715673 LS-SNP   dbSNP   A 147 R - > H Turn 30% (Intermediate) 13 113803461
    rs142699098 LS-SNP   dbSNP   A 153 R - > P Bend 31% (Intermediate) 13 113803479
    rs121964941 LS-SNP   dbSNP   A 155 S - > P Coil 2% (Buried) 13 113803484
    rs121964940 LS-SNP   dbSNP   A 164 P - > S Coil 58% (Exposed) 13 113803511
    rs199778916 LS-SNP   dbSNP   A 171 C - > F Helix 19% (Intermediate) 13 113803533
    rs201301913 LS-SNP   dbSNP   A 205 V - > I Bend 55% (Exposed) 13 113803634
    rs199554547 LS-SNP   dbSNP   A 212 Y - > H Beta Ladder 0% (Buried) 13 113803655
    rs139031355 LS-SNP   dbSNP   A 213 F - > L Beta Ladder 6% (Buried) 13 113803660 PR2