SMTL ID : 3ccg.1

Crystal structure of predicted HD superfamily hydrolase involved in NAD metabolism (NP_347894.1) from Clostridium acetobutylicum at 1.50 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

4 x FE: FE (III) ION(Non-covalent)

FE.1: 5 residues within 4Å: Chain A: D.53, H.86, H.112 Ligands: FE.2, PO4.3 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.53, A:H.86, A:H.112, H2O.1, H2O.1 FE.2: 6 residues within 4Å: Chain A: H.23, H.52, D.53, D.130 Ligands: FE.1, PO4.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.23, A:H.52, A:D.53, A:D.130, H2O.1 FE.4: 5 residues within 4Å: Chain B: D.53, H.86, H.112 Ligands: FE.5, PO4.6 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.53, B:H.86, B:H.112, H2O.8, H2O.8 FE.5: 6 residues within 4Å: Chain B: H.23, H.52, D.53, D.130 Ligands: FE.4, PO4.6 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.23, B:H.52, B:D.53, B:D.130, H2O.8

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

PO4.3: 9 residues within 4Å: Chain A: R.20, H.23, D.53, K.56, H.86, D.130, R.136 Ligands: FE.1, FE.2 8 PLIP interactions: 8 interactions with chain A Water bridges: A:K.56, A:K.56, A:D.130 Salt bridges: A:R.20, A:H.23, A:K.56, A:H.86, A:R.136 PO4.6: 9 residues within 4Å: Chain B: R.20, H.23, D.53, K.56, H.86, D.130, R.136 Ligands: FE.4, FE.5 8 PLIP interactions: 8 interactions with chain B Water bridges: B:K.56, B:K.56, B:D.130 Salt bridges: B:R.20, B:H.23, B:K.56, B:H.86, B:R.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of predicted HD superfamily hydrolase involved in NAD metabolism (NP_347894.1) from Clostridium acetobutylicum at 1.50 A resolution. To be published

Release Date

2008-03-11

Peptides

HD superfamily hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

HD superfamily hydrolase