SMTL ID : 2ez2.1

Apo tyrosine phenol-lyase from Citrobacter freundii at pH 8.0

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-tetramer

Ligands

4 x K: POTASSIUM ION(Non-covalent)

K.1: 3 residues within 4Å: Chain A: G.52, N.262 Chain B: E.69 4 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:E.69, A:G.52, H2O.1, H2O.20 K.3: 3 residues within 4Å: Chain A: E.69 Chain B: G.52, N.262 5 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: B:G.52, B:N.262, A:E.69, H2O.1, H2O.21 K.5: 3 residues within 4Å: Chain C: G.52, N.262 Chain D: E.69 4 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: D:E.69, C:G.52, H2O.41, H2O.60 K.7: 3 residues within 4Å: Chain C: E.69 Chain D: G.52, N.262 5 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: D:G.52, D:N.262, C:E.69, H2O.40, H2O.60

4 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 7 residues within 4Å: Chain A: S.51, Q.98, G.99, R.100, S.254, K.256, K.257 15 PLIP interactions: 14 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.51, A:S.51, A:Q.98, A:G.99, A:R.100, A:S.254 Water bridges: A:K.256, A:K.257, A:K.257, A:K.257, A:K.257, B:Y.71 Salt bridges: A:R.100, A:K.256, A:K.257 PO4.4: 6 residues within 4Å: Chain B: Q.98, G.99, R.100, S.254, K.256, K.257 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:S.51, B:Q.98, B:G.99, B:R.100, B:S.254 Water bridges: B:S.51, B:G.99, B:R.100, B:E.103, B:K.256, B:K.257, B:K.257 Salt bridges: B:R.100, B:K.256, B:K.257 PO4.6: 7 residues within 4Å: Chain C: S.51, Q.98, G.99, R.100, S.254, K.256, K.257 15 PLIP interactions: 14 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:S.51, C:S.51, C:Q.98, C:G.99, C:R.100, C:S.254 Water bridges: C:K.256, C:K.257, C:K.257, C:K.257, C:K.257, D:Y.71 Salt bridges: C:R.100, C:K.256, C:K.257 PO4.8: 6 residues within 4Å: Chain D: Q.98, G.99, R.100, S.254, K.256, K.257 15 PLIP interactions: 15 interactions with chain D Hydrogen bonds: D:S.51, D:Q.98, D:G.99, D:R.100, D:S.254 Water bridges: D:S.51, D:G.99, D:R.100, D:E.103, D:K.256, D:K.257, D:K.257 Salt bridges: D:R.100, D:K.256, D:K.257

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Milic, D. et al., Structures of apo- and holo-tyrosine phenol-lyase reveal a catalytically critical closed conformation and suggest a mechanism for activation by K+ ions. Biochemistry (2006)

Release Date

2006-07-25

Peptides

Tyrosine phenol-lyase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Tyrosine phenol-lyase

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