SMTL ID : 2ayw.1

Crystal Structure of the complex formed between trypsin and a designed synthetic highly potent inhibitor in the presence of benzamidine at 0.97 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 0.97 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 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.2

2 x 1NJ: 2-{2-[(4-carbamimidoylphenyl)carbamoyl]-6-methoxypyridin-3-yl}-5-{[(2S)-1-hydroxy-3,3-dimethylbutan-2-yl]carbamoyl}benzoic acid(Non-covalent)

1NJ.2: 18 residues within 4Å: Chain A: H.23, F.24, H.40, L.81, Y.131, D.171, S.172, Q.174, G.175, S.177, V.191, S.192, W.193, G.194, G.196, C.197, G.204 Ligands: 1NJ.3 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Q.174, A:V.191 Hydrogen bonds: A:D.171, A:Q.174, A:G.175, A:S.177, A:S.192, A:G.196 Water bridges: A:S.177, A:S.177, A:V.205 Salt bridges: A:H.40 pi-Stacking: A:H.40 1NJ.3: 10 residues within 4Å: Chain A: N.123, K.125, S.126, S.127, G.128, T.129, Q.174, G.194, G.196 Ligands: 1NJ.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:T.129, A:Q.174 Hydrogen bonds: A:N.123, A:K.125, A:Q.174, A:Q.174

1 x BEN: BENZAMIDINE(Non-functional Binders)

BEN.4: 0 residues within 4Å: (No contacts) 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.139, A:K.139

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.5: 3 residues within 4Å: Chain A: E.62, Q.63, S.95 No protein-ligand interaction detected (PLIP)

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 4 residues within 4Å: Chain A: P.74, S.75, Y.76, N.77 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.77 Water bridges: A:S.75

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sherawat, M. et al., Structure of the complex of trypsin with a highly potent synthetic inhibitor at 0.97 A resolution. Acta Crystallogr.,Sect.D (2007)

Release Date

2006-01-17

Peptides

Cationic trypsin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cationic trypsin

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