SMTL ID : 5pay.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.66 Å

Oligo State

hetero-1-1-mer

Ligands

2 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 4 PLIP interactions: 1 interactions with chain B, 3 interactions with chain A Salt bridges: B:R.119 Hydrogen bonds: A:C.14, A:D.16, A:D.16 SO4.7: 3 residues within 4Å: Chain B: M.154, T.155, R.227 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.155, B:T.155 Water bridges: B:R.152, B:Q.156, B:R.227 Salt bridges: B:R.227

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: G.48, K.49, I.50, E.54 Chain B: H.199, G.202, T.203, W.204 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.48, A:I.50, A:I.50, A:E.54 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:Y.30, A:L.32, A:L.32 GOL.8: 5 residues within 4Å: Chain B: F.43, D.44, I.78, P.84, L.248 1 PLIP interactions: 1 interactions with chain B Water bridges: B:D.44

1 x CA: CALCIUM ION(Non-covalent)

CA.4: 4 residues within 4Å: Chain B: E.58, D.60, E.63, E.68 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.58, B:D.60, B:E.63, B:E.68, H2O.11

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 2 residues within 4Å: Chain B: S.241, E.242 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: R.50, G.246, V.247 Ligand excluded by PLIP

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

7ZY.9: 15 residues within 4Å: Chain B: L.25, C.26, H.41, C.42, D.44, K.45, G.85, S.187, C.188, K.189, S.192, S.211, W.212, G.213, G.215 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.25, B:K.189, B:K.189, B:W.212, B:W.212, B:W.212 Hydrogen bonds: B:H.41, B:D.44, B:D.44, B:S.192, B:S.192, B:S.192 Water bridges: B:S.187, B:S.192 pi-Stacking: B:H.41, B:W.212

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
C

Coagulation factor VII light chain

Coagulation factor VII heavy chain

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