SMTL ID : 3tpi.2 (3 other biounits)

THE GEOMETRY OF THE REACTIVE SITE AND OF THE PEPTIDE GROUPS IN TRYPSIN, TRYPSINOGEN AND ITS COMPLEXES WITH INHIBITORS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-4-4-mer

Ligands

4 x ILE: ISOLEUCINE(Non-covalent)

ILE.1: 12 residues within 4Å: Chain A: G.10, I.124, G.126, G.128, N.129, T.130, K.142, C.143, L.144, D.177, D.182 Ligands: VAL.2 7 PLIP interactions: 5 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:I.124, A:K.142, A:L.144 Hydrogen bonds: A:G.128, A:D.182 Water bridges: V.2, V.2 ILE.6: 12 residues within 4Å: Chain C: G.10, I.124, G.126, G.128, N.129, T.130, K.142, C.143, L.144, D.177, D.182 Ligands: VAL.7 7 PLIP interactions: 2 Ligand-Ligand interactions, 5 interactions with chain C Water bridges: V.7, V.7 Hydrophobic interactions: C:I.124, C:K.142, C:L.144 Hydrogen bonds: C:G.128, C:D.182 ILE.11: 12 residues within 4Å: Chain E: G.10, I.124, G.126, G.128, N.129, T.130, K.142, C.143, L.144, D.177, D.182 Ligands: VAL.12 7 PLIP interactions: 5 interactions with chain E, 2 Ligand-Ligand interactions Hydrophobic interactions: E:I.124, E:K.142, E:L.144 Hydrogen bonds: E:G.128, E:D.182 Water bridges: V.12, V.12 ILE.16: 12 residues within 4Å: Chain G: G.10, I.124, G.126, G.128, N.129, T.130, K.142, C.143, L.144, D.177, D.182 Ligands: VAL.17 7 PLIP interactions: 5 interactions with chain G, 2 Ligand-Ligand interactions Hydrophobic interactions: G:I.124, G:K.142, G:L.144 Hydrogen bonds: G:G.128, G:D.182 Water bridges: V.17, V.17

4 x VAL: VALINE(Non-covalent)

VAL.2: 11 residues within 4Å: Chain A: V.8, G.9, G.10, N.129, T.130, S.132, G.175, K.176, D.177, A.204 Ligands: ILE.1 9 PLIP interactions: 7 interactions with chain A, 2 Ligand-Ligand interactions Hydrophobic interactions: A:A.204 Hydrogen bonds: A:G.9, A:G.10, A:D.177, A:D.177 Water bridges: A:G.10, A:T.130, I.1, I.1 VAL.7: 11 residues within 4Å: Chain C: V.8, G.9, G.10, N.129, T.130, S.132, G.175, K.176, D.177, A.204 Ligands: ILE.6 9 PLIP interactions: 7 interactions with chain C, 2 Ligand-Ligand interactions Hydrophobic interactions: C:A.204 Hydrogen bonds: C:G.9, C:G.10, C:D.177, C:D.177 Water bridges: C:G.10, C:T.130, I.6, I.6 VAL.12: 11 residues within 4Å: Chain E: V.8, G.9, G.10, N.129, T.130, S.132, G.175, K.176, D.177, A.204 Ligands: ILE.11 9 PLIP interactions: 7 interactions with chain E, 2 Ligand-Ligand interactions Hydrophobic interactions: E:A.204 Hydrogen bonds: E:G.9, E:G.10, E:D.177, E:D.177 Water bridges: E:G.10, E:T.130, I.11, I.11 VAL.17: 11 residues within 4Å: Chain G: V.8, G.9, G.10, N.129, T.130, S.132, G.175, K.176, D.177, A.204 Ligands: ILE.16 9 PLIP interactions: 2 Ligand-Ligand interactions, 7 interactions with chain G Water bridges: I.16, I.16, G:G.10, G:T.130 Hydrophobic interactions: G:A.204 Hydrogen bonds: G:G.9, G:G.10, G:D.177, G:D.177

4 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: E.58, N.60, V.63, E.65, E.68 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.58, A:N.60, A:E.68, H2O.2, H2O.3 CA.8: 5 residues within 4Å: Chain C: E.58, N.60, V.63, E.65, E.68 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.58, C:N.60, C:E.68, H2O.8, H2O.9 CA.13: 5 residues within 4Å: Chain E: E.58, N.60, V.63, E.65, E.68 5 PLIP interactions: 3 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:E.58, E:N.60, E:E.68, H2O.14, H2O.15 CA.18: 5 residues within 4Å: Chain G: E.58, N.60, V.63, E.65, E.68 5 PLIP interactions: 3 interactions with chain G, 2 Ligand-Water interactions Metal complexes: G:E.58, G:N.60, G:E.68, H2O.20, H2O.21

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

SO4.4: 4 residues within 4Å: Chain B: F.4, E.7, K.41, R.42 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.7, B:R.42 Water bridges: B:R.42, B:N.43 Salt bridges: B:R.42 SO4.5: 5 residues within 4Å: Chain B: R.42 Chain C: S.74, K.75, K.95, N.229 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Hydrogen bonds: C:S.74 Salt bridges: C:K.75, C:K.95, B:R.42 Water bridges: B:R.42 SO4.9: 4 residues within 4Å: Chain D: F.4, E.7, K.41, R.42 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:E.7, D:R.42 Water bridges: D:R.42, D:N.43 Salt bridges: D:R.42 SO4.10: 5 residues within 4Å: Chain A: S.74, K.75, K.95, N.229 Chain D: R.42 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain D Hydrogen bonds: A:S.74 Salt bridges: A:K.75, A:K.95, D:R.42 Water bridges: D:R.42 SO4.14: 4 residues within 4Å: Chain F: F.4, E.7, K.41, R.42 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:E.7, F:R.42 Water bridges: F:R.42, F:N.43 Salt bridges: F:R.42 SO4.15: 5 residues within 4Å: Chain F: R.42 Chain G: S.74, K.75, K.95, N.229 6 PLIP interactions: 3 interactions with chain G, 3 interactions with chain F Hydrogen bonds: G:S.74 Salt bridges: G:K.75, G:K.95, F:R.42 Water bridges: F:R.42, F:R.42 SO4.19: 4 residues within 4Å: Chain H: F.4, E.7, K.41, R.42 5 PLIP interactions: 5 interactions with chain H Hydrogen bonds: H:E.7, H:R.42 Water bridges: H:R.42, H:N.43 Salt bridges: H:R.42 SO4.20: 5 residues within 4Å: Chain E: S.74, K.75, K.95, N.229 Chain H: R.42 6 PLIP interactions: 3 interactions with chain E, 3 interactions with chain H Hydrogen bonds: E:S.74 Salt bridges: E:K.75, E:K.95, H:R.42 Water bridges: H:R.42, H:R.42

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marquart, M. et al., The Geometry of the Reactive Site and of the Peptide Groups in Trypsin, Trypsinogen and its Complexes with Inhibitors. Acta Crystallogr.,Sect.B (1983)

Release Date

1983-01-18

Peptides

TRYPSINOGEN: ACEG
BOVINE PANCREATIC TRYPSIN INHIBITOR: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
Z

C
Z

E
Z

G
Z

B
I

D
I

F
I

H
I

TRYPSINOGEN

BOVINE PANCREATIC TRYPSIN INHIBITOR

Related Entries With Identical Sequence