SMTL ID : 7qox.2 (1 other biounit)

Factor XI and Plasma Kallikrein apple domain structures reveals different kininogen bound complexes

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.32 Å

Oligo State

hetero-1-1-mer

Ligands

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: Y.35, M.38, R.39, F.42, Y.222 Ligands: GOL.3, PEG.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.35, A:R.39 GOL.2: 10 residues within 4Å: Chain A: K.181, C.220, T.221, H.223, P.224, C.226, L.227, S.269, L.271 Ligands: GOL.3 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.181, A:H.223, A:S.269 Water bridges: A:I.134, A:Q.137, A:Q.137, A:K.181 GOL.3: 5 residues within 4Å: Chain A: Q.137, P.224, L.271 Ligands: GOL.1, GOL.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.137 Water bridges: A:R.39, A:S.179, A:K.181 GOL.4: 4 residues within 4Å: Chain A: G.23, D.24, D.70, V.72 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.70 Water bridges: A:R.316 GOL.5: 4 residues within 4Å: Chain A: N.116, N.133, L.157 Ligands: NAG.10 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.116

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.6: 4 residues within 4Å: Chain A: I.194, F.195, Q.196, L.198 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.196 PEG.7: 8 residues within 4Å: Chain A: R.39, F.42, H.43, Y.222, H.223, P.224 Ligands: GOL.1, PG6.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.39, A:H.223

1 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.8: 8 residues within 4Å: Chain A: Y.15, A.18, F.20, T.75, L.76, K.78, V.79, H.80 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.20, A:T.75 Hydrogen bonds: A:K.78

1 x PG6: 1-(2-METHOXY-ETHOXY)-2-{2-[2-(2-METHOXY-ETHOXY]-ETHOXY}-ETHANE(Non-covalent)

PG6.9: 11 residues within 4Å: Chain A: A.206, V.208, I.219, Y.222, H.223, P.280, D.343, G.344, S.345, Y.359 Ligands: PEG.7 No protein-ligand interaction detected (PLIP)

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.10: 5 residues within 4Å: Chain A: N.116, V.117, S.118, R.129 Ligands: GOL.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:V.117, A:S.118, A:R.129

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, C. et al., Plasma kallikrein structure reveals apple domain disc rotated conformation compared to factor XI. J Thromb Haemost (2019)

Release Date

2023-01-18

Peptides

Plasma kallikrein heavy chain: A
Kininogen-1 light chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Plasma kallikrein heavy chain

Kininogen-1 light chain

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