SMTL ID : 2ftl.2 (4 other biounits)

Crystal structure of trypsin complexed with BPTI at 100K

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

hetero-4-4-mer

Ligands

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

NA.1: 3 residues within 4Å: Chain A: D.53, E.59, V.134 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.53 NA.18: 3 residues within 4Å: Chain C: D.53, E.59, V.134 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.59 NA.35: 3 residues within 4Å: Chain E: D.53, E.59, V.134 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:D.53, E:E.59 NA.52: 3 residues within 4Å: Chain G: D.53, E.59, V.134 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:D.53, G:D.53

8 x CA: CALCIUM ION(Non-covalent)

CA.2: 4 residues within 4Å: Chain A: E.52, N.54, V.57, E.62 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.52, A:N.54, A:V.57, A:E.62, H2O.1, H2O.1 CA.13: 5 residues within 4Å: Chain B: Q.31, T.32 Chain H: Q.31, T.32 Ligands: CA.64 No protein-ligand interaction detected (PLIP) CA.19: 4 residues within 4Å: Chain C: E.52, N.54, V.57, E.62 6 PLIP interactions: 4 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:E.52, C:N.54, C:V.57, C:E.62, H2O.11, H2O.11 CA.30: 5 residues within 4Å: Chain D: Q.31, T.32 Chain F: Q.31, T.32 Ligands: CA.47 No protein-ligand interaction detected (PLIP) CA.36: 4 residues within 4Å: Chain E: E.52, N.54, V.57, E.62 6 PLIP interactions: 4 interactions with chain E, 2 Ligand-Water interactions Metal complexes: E:E.52, E:N.54, E:V.57, E:E.62, H2O.21, H2O.21 CA.47: 5 residues within 4Å: Chain D: Q.31, T.32 Chain F: Q.31, T.32 Ligands: CA.30 No protein-ligand interaction detected (PLIP) CA.53: 4 residues within 4Å: Chain G: E.52, N.54, V.57, E.62 6 PLIP interactions: 4 interactions with chain G, 2 Ligand-Water interactions Metal complexes: G:E.52, G:N.54, G:V.57, G:E.62, H2O.31, H2O.31 CA.64: 5 residues within 4Å: Chain B: Q.31, T.32 Chain H: Q.31, T.32 Ligands: CA.13 No protein-ligand interaction detected (PLIP)

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

SO4.3: 4 residues within 4Å: Chain A: S.44 Chain B: K.46 Chain D: K.46 Ligands: SO4.20 Ligand excluded by PLIP SO4.4: 3 residues within 4Å: Chain A: K.149, P.153, G.154 Ligand excluded by PLIP SO4.5: 2 residues within 4Å: Chain A: Q.33, K.89 Ligand excluded by PLIP SO4.6: 5 residues within 4Å: Chain A: S.75, N.77, T.80, N.82, N.83 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain B: R.20, Y.35, G.37, A.40 Ligand excluded by PLIP SO4.15: 4 residues within 4Å: Chain B: F.4, E.7, K.41, R.42 Ligand excluded by PLIP SO4.16: 3 residues within 4Å: Chain B: R.42 Chain C: K.69, K.89 Ligand excluded by PLIP SO4.17: 4 residues within 4Å: Chain B: P.9, Y.10, T.11, G.12 Ligand excluded by PLIP SO4.20: 4 residues within 4Å: Chain B: K.46 Chain C: S.44 Chain D: K.46 Ligands: SO4.3 Ligand excluded by PLIP SO4.21: 3 residues within 4Å: Chain C: K.149, P.153, G.154 Ligand excluded by PLIP SO4.22: 2 residues within 4Å: Chain C: Q.33, K.89 Ligand excluded by PLIP SO4.23: 5 residues within 4Å: Chain C: S.75, N.77, T.80, N.82, N.83 Ligand excluded by PLIP SO4.31: 4 residues within 4Å: Chain D: R.20, Y.35, G.37, A.40 Ligand excluded by PLIP SO4.32: 4 residues within 4Å: Chain D: F.4, E.7, K.41, R.42 Ligand excluded by PLIP SO4.33: 3 residues within 4Å: Chain A: K.69, K.89 Chain D: R.42 Ligand excluded by PLIP SO4.34: 4 residues within 4Å: Chain D: P.9, Y.10, T.11, G.12 Ligand excluded by PLIP SO4.37: 4 residues within 4Å: Chain E: S.44 Chain F: K.46 Chain H: K.46 Ligands: SO4.54 Ligand excluded by PLIP SO4.38: 3 residues within 4Å: Chain E: K.149, P.153, G.154 Ligand excluded by PLIP SO4.39: 2 residues within 4Å: Chain E: Q.33, K.89 Ligand excluded by PLIP SO4.40: 5 residues within 4Å: Chain E: S.75, N.77, T.80, N.82, N.83 Ligand excluded by PLIP SO4.48: 4 residues within 4Å: Chain F: R.20, Y.35, G.37, A.40 Ligand excluded by PLIP SO4.49: 4 residues within 4Å: Chain F: F.4, E.7, K.41, R.42 Ligand excluded by PLIP SO4.50: 3 residues within 4Å: Chain F: R.42 Chain G: K.69, K.89 Ligand excluded by PLIP SO4.51: 4 residues within 4Å: Chain F: P.9, Y.10, T.11, G.12 Ligand excluded by PLIP SO4.54: 4 residues within 4Å: Chain F: K.46 Chain G: S.44 Chain H: K.46 Ligands: SO4.37 Ligand excluded by PLIP SO4.55: 3 residues within 4Å: Chain G: K.149, P.153, G.154 Ligand excluded by PLIP SO4.56: 2 residues within 4Å: Chain G: Q.33, K.89 Ligand excluded by PLIP SO4.57: 5 residues within 4Å: Chain G: S.75, N.77, T.80, N.82, N.83 Ligand excluded by PLIP SO4.65: 4 residues within 4Å: Chain H: R.20, Y.35, G.37, A.40 Ligand excluded by PLIP SO4.66: 4 residues within 4Å: Chain H: F.4, E.7, K.41, R.42 Ligand excluded by PLIP SO4.67: 3 residues within 4Å: Chain E: K.69, K.89 Chain H: R.42 Ligand excluded by PLIP SO4.68: 4 residues within 4Å: Chain H: P.9, Y.10, T.11, G.12 Ligand excluded by PLIP

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

EDO.7: 6 residues within 4Å: Chain A: C.109, A.110, I.142, F.161, Q.188, K.208 Ligand excluded by PLIP EDO.8: 6 residues within 4Å: Chain A: N.19, Y.22, H.23, R.49, I.55, N.56 Ligand excluded by PLIP EDO.9: 5 residues within 4Å: Chain A: Y.5, C.7, T.11, L.117, C.137 Ligand excluded by PLIP EDO.10: 4 residues within 4Å: Chain A: P.132, D.133, V.134, K.136 Ligand excluded by PLIP EDO.11: 4 residues within 4Å: Chain A: S.32, A.94, S.95, L.96 Ligand excluded by PLIP EDO.12: 3 residues within 4Å: Chain A: I.30, N.31, K.217 Ligand excluded by PLIP EDO.24: 6 residues within 4Å: Chain C: C.109, A.110, I.142, F.161, Q.188, K.208 Ligand excluded by PLIP EDO.25: 6 residues within 4Å: Chain C: N.19, Y.22, H.23, R.49, I.55, N.56 Ligand excluded by PLIP EDO.26: 5 residues within 4Å: Chain C: Y.5, C.7, T.11, L.117, C.137 Ligand excluded by PLIP EDO.27: 4 residues within 4Å: Chain C: P.132, D.133, V.134, K.136 Ligand excluded by PLIP EDO.28: 4 residues within 4Å: Chain C: S.32, A.94, S.95, L.96 Ligand excluded by PLIP EDO.29: 3 residues within 4Å: Chain C: I.30, N.31, K.217 Ligand excluded by PLIP EDO.41: 6 residues within 4Å: Chain E: C.109, A.110, I.142, F.161, Q.188, K.208 Ligand excluded by PLIP EDO.42: 6 residues within 4Å: Chain E: N.19, Y.22, H.23, R.49, I.55, N.56 Ligand excluded by PLIP EDO.43: 5 residues within 4Å: Chain E: Y.5, C.7, T.11, L.117, C.137 Ligand excluded by PLIP EDO.44: 4 residues within 4Å: Chain E: P.132, D.133, V.134, K.136 Ligand excluded by PLIP EDO.45: 4 residues within 4Å: Chain E: S.32, A.94, S.95, L.96 Ligand excluded by PLIP EDO.46: 3 residues within 4Å: Chain E: I.30, N.31, K.217 Ligand excluded by PLIP EDO.58: 6 residues within 4Å: Chain G: C.109, A.110, I.142, F.161, Q.188, K.208 Ligand excluded by PLIP EDO.59: 6 residues within 4Å: Chain G: N.19, Y.22, H.23, R.49, I.55, N.56 Ligand excluded by PLIP EDO.60: 5 residues within 4Å: Chain G: Y.5, C.7, T.11, L.117, C.137 Ligand excluded by PLIP EDO.61: 4 residues within 4Å: Chain G: P.132, D.133, V.134, K.136 Ligand excluded by PLIP EDO.62: 4 residues within 4Å: Chain G: S.32, A.94, S.95, L.96 Ligand excluded by PLIP EDO.63: 3 residues within 4Å: Chain G: I.30, N.31, K.217 Ligand excluded by PLIP

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: ACEG
Pancreatic trypsin inhibitor: BDFH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

C
E

E
E

G
E

B
I

D
I

F
I

H
I

Cationic trypsin

Pancreatic trypsin inhibitor

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