SMTL ID : 4c1l.1

Crystal structure of pyrococcus furiosus 3-deoxy-D-arabino- heptulosonate 7-phosphate synthase I181D interface mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x MN: MANGANESE (II) ION(Non-covalent)

MN.1: 4 residues within 4Å: Chain A: C.31, H.201, E.227, D.238 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.31, A:H.201, A:E.227, A:D.238 MN.4: 5 residues within 4Å: Chain B: C.31, H.201, E.227, D.238 Ligands: CL.8 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.31, B:H.201, B:E.227, B:D.238 MN.10: 4 residues within 4Å: Chain C: C.31, H.201, E.227, D.238 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.31, C:H.201, C:E.227, C:D.238 MN.13: 5 residues within 4Å: Chain D: C.31, H.201, E.227, D.238 Ligands: CL.17 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.31, D:H.201, D:E.227, D:D.238

8 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 3 residues within 4Å: Chain A: K.136, R.166, H.201 Ligand excluded by PLIP CL.6: 3 residues within 4Å: Chain B: K.136, R.166, H.201 Ligand excluded by PLIP CL.7: 5 residues within 4Å: Chain B: R.55, Q.111, K.136, H.201 Ligands: CL.8 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain B: R.55, K.60, H.201 Ligands: MN.4, CL.7 Ligand excluded by PLIP CL.11: 3 residues within 4Å: Chain C: K.136, R.166, H.201 Ligand excluded by PLIP CL.15: 3 residues within 4Å: Chain D: K.136, R.166, H.201 Ligand excluded by PLIP CL.16: 5 residues within 4Å: Chain D: R.55, Q.111, K.136, H.201 Ligands: CL.17 Ligand excluded by PLIP CL.17: 5 residues within 4Å: Chain D: R.55, K.60, H.201 Ligands: MN.13, CL.16 Ligand excluded by PLIP

4 x K: POTASSIUM ION(Non-covalent)

K.3: 2 residues within 4Å: Chain A: T.170, E.172 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:T.170, A:E.172, H2O.7, H2O.7, H2O.7 K.9: 2 residues within 4Å: Chain B: T.170, E.172 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:T.170, B:E.172, H2O.14, H2O.14, H2O.15 K.12: 2 residues within 4Å: Chain C: T.170, E.172 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:T.170, C:E.172, H2O.23, H2O.23, H2O.23 K.18: 2 residues within 4Å: Chain D: T.170, E.172 5 PLIP interactions: 2 interactions with chain D, 3 Ligand-Water interactions Metal complexes: D:T.170, D:E.172, H2O.31, H2O.31, H2O.31

2 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.5: 6 residues within 4Å: Chain A: Y.66 Chain B: M.1, K.2, S.4, E.6, Y.7 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:M.1, B:S.4 1PE.14: 6 residues within 4Å: Chain C: Y.66 Chain D: M.1, K.2, S.4, E.6, Y.7 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:M.1, D:S.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nazmi, A.R. et al., Destabilization of the homotetrameric assembly of 3-deoxy-D-arabino-heptulosonate-7-phosphate synthase from the hyperthermophile Pyrococcus furiosus enhances enzymatic activity. J. Mol. Biol. (2014)

Release Date

2013-11-20

Peptides

2-dehydro-3-deoxyphosphoheptonate aldolase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

2-dehydro-3-deoxyphosphoheptonate aldolase