SMTL ID : 8zcr.1

Structure of PI9

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.93 Å

Oligo State

hetero-1-1-mer

Ligands

18 x ZN: ZINC ION(Non-covalent)(Non-functional Binders)

ZN.1: 1 residues within 4Å: Chain A: E.141 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.141, A:E.141, H2O.2 ZN.2: 2 residues within 4Å: Chain A: D.22, H.286 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:D.22, A:D.22, A:H.286 ZN.3: 3 residues within 4Å: Chain A: D.258, C.259 Ligands: ZN.5 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.258, A:C.259, H2O.2 ZN.4: 3 residues within 4Å: Chain A: H.208, R.213, D.234 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.208, A:D.234, H2O.5 ZN.5: 2 residues within 4Å: Chain A: C.259 Ligands: ZN.3 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.259, H2O.5 ZN.6: 3 residues within 4Å: Chain A: C.98, R.158, E.306 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:C.98, A:E.306, A:E.306 ZN.7: 1 residues within 4Å: Chain A: E.264 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.264, A:E.264, H2O.5 ZN.8: 1 residues within 4Å: Chain A: H.286 No protein-ligand interaction detected (PLIP) ZN.9: 4 residues within 4Å: Chain A: H.26, N.27, Q.275, E.276 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.276, A:E.276, H2O.4 ZN.10: 1 residues within 4Å: Chain A: E.118 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.118, A:E.118, H2O.1 ZN.11: 2 residues within 4Å: Chain A: H.113, E.115 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.113, A:H.113, A:E.115 ZN.12: 2 residues within 4Å: Chain A: Q.110, H.113 No protein-ligand interaction detected (PLIP) ZN.13: 3 residues within 4Å: Chain A: T.62, D.65, R.68 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.65, H2O.1, H2O.5 ZN.14: 2 residues within 4Å: Chain A: E.63, H.67 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.63, A:H.67 ZN.15: 4 residues within 4Å: Chain A: E.177, K.271, E.324, E.325 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:E.177 ZN.16: 3 residues within 4Å: Chain A: E.225 Chain B: H.22, R.24 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.22 ZN.17: 3 residues within 4Å: Chain B: R.9, C.11, D.13 3 PLIP interactions: 2 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.11, B:D.13, H2O.6 ZN.18: 3 residues within 4Å: Chain A: D.235 Chain B: D.13, H.14 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:D.13, B:H.14, A:D.235, H2O.3, H2O.4

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.19: 8 residues within 4Å: Chain A: L.229, F.248, L.251, T.252, T.255 Chain B: R.21, N.26, I.28 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.252, B:R.21, B:N.26

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, T. et al., Crystallization and crystallographic studies of human serine protease inhibitor (serpin) B9. Acta Crystallogr.,Sect.F (2024)

Release Date

2024-11-13

Peptides

Serpin B9: A
Serpin B9: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Serpin B9

Serpin B9