SMTL ID : 5pae.1

Crystal Structure of Factor VIIa in complex with (2S)-2-hydroxy-N-[[3-[5-hydroxy-4-(1H-pyrrolo[3,2-c]pyridin-2-yl)pyrazol-1-yl]phenyl]methyl]propanamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

hetero-1-1-mer

Ligands

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: C.14, S.15, D.16 Chain B: R.119 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:C.14, A:D.16 Salt bridges: B:R.119 SO4.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) SO4.6: 3 residues within 4Å: Chain B: M.154, T.155, R.227 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.155 Water bridges: B:R.152, B:Q.156, B:R.227 Salt bridges: B:R.227 SO4.7: 5 residues within 4Å: Chain A: Y.45 Chain B: D.67, T.103, D.104, H.105 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:T.103, B:D.104, B:H.105 Water bridges: B:T.103, B:T.103, B:D.104, A:Y.45 Salt bridges: B:H.105 SO4.8: 2 residues within 4Å: Chain B: G.246, V.247 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:V.247 Water bridges: B:R.50, B:L.248

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: R.25, C.26, Y.30, S.31, L.32 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:C.26, A:C.26, A:L.32 Water bridges: A:L.32 GOL.9: 6 residues within 4Å: Chain B: F.43, D.44, W.49, I.78, P.84, L.248 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.44

1 x 7YA: (2S)-2-hydroxy-N-[[3-[5-hydroxy-4-(1H-pyrrolo[3,2-c]pyridin-2-yl)pyrazol-1-yl]phenyl]methyl]propanamide(Non-covalent)

7YA.4: 14 residues within 4Å: Chain B: L.25, C.26, H.41, C.42, K.45, S.187, C.188, K.189, S.192, V.210, S.211, W.212, G.213, G.215 11 PLIP interactions: 11 interactions with chain B Hydrophobic interactions: B:L.25, B:K.189, B:K.189, B:V.210, B:W.212 Hydrogen bonds: B:S.192, B:S.192 Water bridges: B:G.190, B:V.224 pi-Stacking: B:H.41, B:W.212

1 x CA: CALCIUM ION(Non-covalent)

CA.5: 4 residues within 4Å: Chain B: E.58, D.60, E.63, E.68 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.58, B:D.60, B:E.68, H2O.7, H2O.11

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mayweg, A. et al., Crystal Structure of a Factor VIIa complex. To be published

Release Date

2017-06-21

Peptides

Coagulation factor VII light chain: A
Coagulation factor VII heavy chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Coagulation factor VII light chain

Coagulation factor VII heavy chain

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