SMTL ID : 2ftm.6 (5 other biounits)

Crystal structure of trypsin complexed with the BPTI variant (Tyr35->Gly)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-1-1-mer

Ligands

1 x NA: SODIUM ION(Non-functional Binders)

NA.1: 2 residues within 4Å: Chain A: D.53, E.59 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.53

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

SO4.2: 3 residues within 4Å: Chain A: K.149, P.153, G.154 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.154 Water bridges: A:K.149, A:Q.155 Salt bridges: A:K.149 SO4.3: 3 residues within 4Å: Chain A: K.43, S.44 Chain B: K.46 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.44 Salt bridges: A:K.43 SO4.4: 4 residues within 4Å: Chain A: P.132, D.133, V.134, K.136 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.133, A:D.133, A:V.134 Water bridges: A:K.136 Salt bridges: A:K.136 SO4.5: 4 residues within 4Å: Chain A: S.75, N.77, N.82, N.83 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.77 Water bridges: A:T.80, A:N.82, A:N.82, A:N.83 SO4.11: 4 residues within 4Å: Chain B: F.4, E.7, K.41, R.42 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:R.42 Water bridges: B:F.4, B:E.7, B:E.7, B:N.43 Salt bridges: B:R.42 SO4.12: 5 residues within 4Å: Chain A: K.69, K.89, N.223 Chain B: R.1, R.42 10 PLIP interactions: 7 interactions with chain A, 3 interactions with chain B Water bridges: A:S.68, A:S.68, A:K.69, A:K.69, A:K.89, B:R.42 Salt bridges: A:K.69, A:K.89, B:R.1, B:R.42 SO4.13: 4 residues within 4Å: Chain B: P.9, Y.10, T.11, G.12 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:P.9, B:T.11, B:G.12 SO4.14: 3 residues within 4Å: Chain A: Q.33, K.89 Chain B: R.1 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.33 Water bridges: A:K.89, A:K.89, A:K.89, A:N.223 Salt bridges: A:K.89, B:R.1 SO4.15: 5 residues within 4Å: Chain A: Q.33, K.91, S.92, A.93 Chain B: R.1 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:A.93 Water bridges: A:Q.33, A:Q.33 Salt bridges: B:R.1

2 x CA: CALCIUM ION(Non-covalent)

CA.6: 4 residues within 4Å: Chain A: E.52, N.54, V.57, E.62 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.52, A:N.54, A:V.57, A:E.62, H2O.2 CA.16: 2 residues within 4Å: Chain B: Q.31, T.32 No protein-ligand interaction detected (PLIP)

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

EDO.7: 3 residues within 4Å: Chain A: Y.5, C.7, T.11 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.5, A:C.7, A:T.11 EDO.8: 4 residues within 4Å: Chain A: G.194, S.195, G.196 Ligands: EDO.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.196 Water bridges: A:Q.174 EDO.9: 4 residues within 4Å: Chain A: A.110, I.142, F.161, K.208 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:A.110 Water bridges: A:D.145, A:M.160, A:K.208 EDO.10: 3 residues within 4Å: Chain A: Q.155, W.193 Ligands: EDO.8 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.155 Water bridges: A:S.195

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hanson, W.M. et al., Rigidification of a Flexible Protease Inhibitor Variant upon Binding to Trypsin. J.Mol.Biol. (2007)

Release Date

2006-02-14

Peptides

Cationic trypsin: A
Pancreatic trypsin inhibitor: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cationic trypsin

Pancreatic trypsin inhibitor

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