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

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

hetero-2-2-mer

Ligands

2 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:E.59 NA.11: 2 residues within 4Å: Chain B: D.53, E.59 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.53, B:E.59

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

SO4.2: 3 residues within 4Å: Chain A: K.149, P.153, G.154 Ligand excluded by PLIP SO4.3: 3 residues within 4Å: Chain A: K.43, S.44 Chain C: K.46 Ligand excluded by PLIP SO4.4: 4 residues within 4Å: Chain A: P.132, D.133, V.134, K.136 Ligand excluded by PLIP SO4.5: 4 residues within 4Å: Chain A: S.75, N.77, N.82, N.83 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain B: K.149, P.153, G.154 Ligand excluded by PLIP SO4.13: 3 residues within 4Å: Chain B: K.43, S.44 Chain D: K.46 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain B: P.132, D.133, V.134, K.136 Ligand excluded by PLIP SO4.15: 4 residues within 4Å: Chain B: S.75, N.77, N.82, N.83 Ligand excluded by PLIP SO4.21: 4 residues within 4Å: Chain C: F.4, E.7, K.41, R.42 Ligand excluded by PLIP SO4.22: 5 residues within 4Å: Chain A: K.69, K.89, N.223 Chain C: R.1, R.42 Ligand excluded by PLIP SO4.23: 4 residues within 4Å: Chain C: P.9, Y.10, T.11, G.12 Ligand excluded by PLIP SO4.24: 3 residues within 4Å: Chain A: Q.33, K.89 Chain C: R.1 Ligand excluded by PLIP SO4.25: 5 residues within 4Å: Chain A: Q.33, K.91, S.92, A.93 Chain C: R.1 Ligand excluded by PLIP SO4.27: 4 residues within 4Å: Chain D: F.4, E.7, K.41, R.42 Ligand excluded by PLIP SO4.28: 5 residues within 4Å: Chain B: K.69, K.89, N.223 Chain D: R.1, R.42 Ligand excluded by PLIP SO4.29: 4 residues within 4Å: Chain D: P.9, Y.10, T.11, G.12 Ligand excluded by PLIP SO4.30: 3 residues within 4Å: Chain B: Q.33, K.89 Chain D: R.1 Ligand excluded by PLIP SO4.31: 5 residues within 4Å: Chain B: Q.33, K.91, S.92, A.93 Chain D: R.1 Ligand excluded by PLIP

4 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: 4 residues within 4Å: Chain B: E.52, N.54, V.57, E.62 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:E.52, B:N.54, B:V.57, B:E.62, H2O.9 CA.26: 5 residues within 4Å: Chain C: Q.31, T.32 Chain D: Q.31, T.32 Ligands: CA.32 No protein-ligand interaction detected (PLIP) CA.32: 5 residues within 4Å: Chain C: Q.31, T.32 Chain D: Q.31, T.32 Ligands: CA.26 No protein-ligand interaction detected (PLIP)

8 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 EDO.17: 3 residues within 4Å: Chain B: Y.5, C.7, T.11 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:C.7 EDO.18: 4 residues within 4Å: Chain B: G.194, S.195, G.196 Ligands: EDO.20 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.196 Water bridges: B:Q.174 EDO.19: 4 residues within 4Å: Chain B: A.110, I.142, F.161, K.208 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:A.110 Water bridges: B:D.145, B:M.160, B:K.208 EDO.20: 3 residues within 4Å: Chain B: Q.155, W.193 Ligands: EDO.18 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.155 Water bridges: B: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: AB
Pancreatic trypsin inhibitor: CD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
B

D
B

Cationic trypsin

Pancreatic trypsin inhibitor

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