SMTL ID : 4ekp.1 (2 other biounits)

T4 Lysozyme L99A/M102H with Nitrobenzene Bound

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.64 Å

Oligo State

monomer

Ligands

2 x BME: BETA-MERCAPTOETHANOL(Non-functional Binders)

BME.1: 6 residues within 4Å: Chain A: I.26, Y.111, A.116, R.119, C.120, I.123 2 PLIP interactions: 2 interactions with chain A Water bridges: A:Y.111, A:R.119 BME.7: 4 residues within 4Å: Chain A: F.20, M.24, Y.184, L.187 No protein-ligand interaction detected (PLIP)

1 x NBZ: NITROBENZENE(Non-covalent)

NBZ.2: 11 residues within 4Å: Chain A: I.101, L.107, V.110, Y.111, A.122, H.125, V.126, V.134, L.141, L.144, F.176 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.122, A:H.125, A:V.126, A:V.134, A:L.141, A:L.144, A:F.176

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

SO4.3: 3 residues within 4Å: Chain A: R.37, L.38, K.39 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:L.38, A:K.39 Water bridges: A:L.36, A:R.37 Salt bridges: A:R.37 SO4.4: 3 residues within 4Å: Chain A: A.96, R.99, R.103 3 PLIP interactions: 3 interactions with chain A Water bridges: A:A.96 Salt bridges: A:R.99, A:R.103 SO4.5: 2 residues within 4Å: Chain A: R.142, R.148 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.142, A:R.148

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 5 residues within 4Å: Chain A: F.27, E.28, R.31, I.52, F.90 No protein-ligand interaction detected (PLIP) ACT.8: 1 residues within 4Å: Chain A: K.158 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:K.158 Salt bridges: A:K.158

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Merski, M. et al., Engineering a model protein cavity to catalyze the Kemp elimination. Proc.Natl.Acad.Sci.USA (2012)

Release Date

2012-09-05

Peptides

Lysozyme: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lysozyme

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