SMTL ID : 2h5d.1

0.9A resolution crystal structure of alpha-lytic protease complexed with a transition state analogue, MeOSuc-Ala-Ala-Pro-Val boronic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 0.90 Å

Oligo State

monomer

Ligands

1 x MSU- ALA- ALA- PRO- B2V: MEOSUC-ALA-ALA-PRO-ALA BORONIC ACID INHIBITOR(Non-covalent)

MSU-ALA-ALA-PRO-B2V.1: 25 residues within 4Å: Chain A: L.16, C.17, H.36, F.59, A.121, N.122, Y.123, A.124, E.125, M.138, G.139, R.140, G.141, D.142, S.143, M.158, S.159, G.160, G.161, N.162, V.163, Q.164, L.180 Ligands: SO4.9, GOL.10 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.123, A:Y.123, A:V.163 Hydrogen bonds: A:H.36, A:G.141, A:G.141, A:S.143, A:S.159, A:G.161, A:G.161 Water bridges: A:N.162, A:N.162

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

SO4.2: 3 residues within 4Å: Chain A: R.183, P.186, S.189 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.183, A:S.189 Salt bridges: A:R.183 SO4.3: 1 residues within 4Å: Chain A: R.57 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.57, A:R.57, A:F.59 Salt bridges: A:R.57 SO4.4: 3 residues within 4Å: Chain A: L.16, R.105 Ligands: SO4.5 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.105, A:R.105, A:T.106 Salt bridges: A:R.105 SO4.5: 2 residues within 4Å: Chain A: R.140 Ligands: SO4.4 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.140 SO4.6: 2 residues within 4Å: Chain A: T.120, R.129 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.129, A:R.129 Salt bridges: A:R.129 SO4.7: 4 residues within 4Å: Chain A: A.27, T.28, K.29, S.71 3 PLIP interactions: 3 interactions with chain A Water bridges: A:A.27, A:K.29, A:L.69 SO4.8: 3 residues within 4Å: Chain A: A.95, V.96, K.117 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.96 Water bridges: A:K.117, A:K.117, A:K.117, A:K.117 Salt bridges: A:K.117 SO4.9: 5 residues within 4Å: Chain A: T.120, A.121, N.122 Ligands: MSU-ALA-ALA-PRO-B2V.1, MSU-ALA-ALA-PRO-B2V.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.122, A:N.122

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 9 residues within 4Å: Chain A: S.15, L.16, C.17, H.36, R.140, G.141, S.143 Ligands: MSU-ALA-ALA-PRO-B2V.1, MSU-ALA-ALA-PRO-B2V.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.141 Water bridges: A:L.16

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fuhrmann, C.N. et al., Subangstrom crystallography reveals that short ionic hydrogen bonds, and not a His-Asp low-barrier hydrogen bond, stabilize the transition state in serine protease catalysis. J.Am.Chem.Soc. (2006)

Release Date

2006-09-26

Peptides

ALPHA-LYTIC PROTEASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ALPHA-LYTIC PROTEASE

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