5NMV

Crystal structure of 2F22 Fab fragment against TFPI1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.175 
  • R-Value Observed: 0.177 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Factor Xa and VIIa inhibition by tissue factor pathway inhibitor is prevented by a monoclonal antibody to its Kunitz-1 domain.

Augustsson, C.Svensson, A.Kjaer, B.Chao, T.Y.Wenjuan, X.Krogh, B.O.Breinholt, J.Clausen, J.T.Hilden, I.Petersen, H.H.Petersen, L.C.

(2018) J Thromb Haemost 16: 893-904

  • DOI: 10.1111/jth.14000
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Essentials Activated FVII (FVIIa) and FX (FXa) are inhibited by tissue factor pathway inhibitor (TFPI). A monoclonal antibody, mAb2F22, was raised against the N-terminal fragment of TFPI (1-79). mAb2F22 bound exclusively to the K1 domain of TFPI (K D ∼1 nm) and not to the K2 domain ...

    Essentials Activated FVII (FVIIa) and FX (FXa) are inhibited by tissue factor pathway inhibitor (TFPI). A monoclonal antibody, mAb2F22, was raised against the N-terminal fragment of TFPI (1-79). mAb2F22 bound exclusively to the K1 domain of TFPI (K D ∼1 nm) and not to the K2 domain. mAb2F22 interfered with inhibition of both FVIIa and FXa activities and restored clot formation.


    Organizational Affiliation

    Global Research, Novo Nordisk A/S, Måløv, Denmark.



Macromolecules

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Fab heavy chainH222MusMutation(s): 0 
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  • Reference Sequence

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Tissue factor pathway inhibitorK86Homo sapiensMutation(s): 0 
Gene Names: TFPILACITFPI1
Find proteins for P10646 (Homo sapiens)
Explore P10646 
Go to UniProtKB:  P10646
NIH Common Fund Data Resources
PHAROS  P10646
Protein Feature View
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  • Reference Sequence

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Fab light chainL213MusMutation(s): 0 
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download CCD File 
H, L
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.202 
  • R-Value Work: 0.175 
  • R-Value Observed: 0.177 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 89.01α = 90
b = 66.66β = 111.18
c = 106.11γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-03-28
    Type: Initial release
  • Version 1.1: 2018-05-09
    Changes: Data collection, Database references