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SMTL ID : 6qih.1

Pancreatic Bovine Trypsin with a boronic acid inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.42 Å

Oligo State

monomer

Ligands

1 x J3T: [4-[(4~{S})-4-oxidanyl-5-oxidanylidene-1,3,2-dioxaborolan-2-yl]phenyl]methyl carbamimidothioate(Covalent)

J3T.1:

18 residues within 4Å:

Chain A: F.24, C.25, H.40, D.171, S.172, C.173, Q.174, G.175, D.176, S.177, V.191, S.192, W.193, G.194, G.196, C.197, K.202, G.204

8 PLIP interactions:

8 interactions with chain A

Hydrophobic interactions: A:V.191
Hydrogen bonds: A:D.171, A:S.172, A:G.175, A:G.196
Water bridges: A:D.171, A:V.205
Salt bridges: A:H.40

1 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.4

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.3:	6 residues within 4Å: Chain A: Q.115, K.139, V.182, C.183, S.184, G.185 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.184, A:G.185
GOL.4:	4 residues within 4Å: Chain A: V.58, E.62, Q.63, F.64 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.62, A:F.64
GOL.5:	8 residues within 4Å: Chain A: C.109, A.110, I.142, D.145, F.161, Q.188, K.208, C.210 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.110, A:D.145, A:Q.188 Water bridges: A:A.110, A:K.208

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

SO4.6:

3 residues within 4Å:

Chain A: K.149, P.153, G.154

5 PLIP interactions:

5 interactions with chain A

Hydrogen bonds: A:G.154
Water bridges: A:Q.155, A:Q.155, A:I.156, A:I.156

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7:

6 residues within 4Å:

Chain A: N.19, Y.22, H.23, R.49, I.55, N.56

5 PLIP interactions:

5 interactions with chain A

Hydrogen bonds: A:H.23, A:R.49, A:R.49
Water bridges: A:N.19, A:N.19

Links

RCSB PDBe PDBe-KB PDBj PDBsum CATH PLIP

Citation

Santos-Silva, T. et al., Pancreatic Bovine Trypsin with a boronic acid inhibitor. To Be Published

Release Date

2020-02-05

Peptides

Cationic trypsin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Export Alignment

Secondary Structure
NoneDSSPPSIPREDSSpro

Colour Scheme

Fade MismatchesEnhance Mismatches

ChainUnique ChainRainbow2° StructureBfactorBfactor RangeSOAEntropyClustalHydrophobicSizeChargedPolarProlineSer/ThrCysteineAliphaticAromaticNo Colour

Background

3D Viewer
NGLPV2D

Cationic trypsin

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