SMTL ID : 3ubp.2 (1 other biounit)

DIAMIDOPHOSPHATE INHIBITED BACILLUS PASTEURII UREASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-3-3-3-mer

Ligands

6 x NI: NICKEL (II) ION(Non-covalent)

NI.1: 7 residues within 4Å: Chain C: K.220, H.222, H.249, H.275, G.280 Ligands: NI.2, 2PA.3 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:H.249, C:H.275 NI.2: 7 residues within 4Å: Chain C: H.137, H.139, K.220, D.363, A.366 Ligands: NI.1, 2PA.3 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:H.137, C:H.139, C:D.363 NI.4: 7 residues within 4Å: Chain F: K.220, H.222, H.249, H.275, G.280 Ligands: NI.5, 2PA.6 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:H.249, F:H.275 NI.5: 7 residues within 4Å: Chain F: H.137, H.139, K.220, D.363, A.366 Ligands: NI.4, 2PA.6 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:H.137, F:H.139, F:D.363 NI.7: 7 residues within 4Å: Chain I: K.220, H.222, H.249, H.275, G.280 Ligands: NI.8, 2PA.9 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:H.249, I:H.275 NI.8: 7 residues within 4Å: Chain I: H.137, H.139, K.220, D.363, A.366 Ligands: NI.7, 2PA.9 3 PLIP interactions: 3 interactions with chain I Metal complexes: I:H.137, I:H.139, I:D.363

3 x 2PA: DIAMIDOPHOSPHATE(Non-covalent)

2PA.3: 16 residues within 4Å: Chain C: H.137, H.139, A.170, K.220, H.222, H.249, H.275, G.280, C.322, H.323, R.339, D.363, A.366, M.367 Ligands: NI.1, NI.2 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:G.280, C:R.339, C:A.366 2PA.6: 16 residues within 4Å: Chain F: H.137, H.139, A.170, K.220, H.222, H.249, H.275, G.280, C.322, H.323, R.339, D.363, A.366, M.367 Ligands: NI.4, NI.5 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:G.280, F:R.339, F:A.366 2PA.9: 16 residues within 4Å: Chain I: H.137, H.139, A.170, K.220, H.222, H.249, H.275, G.280, C.322, H.323, R.339, D.363, A.366, M.367 Ligands: NI.7, NI.8 3 PLIP interactions: 3 interactions with chain I Hydrogen bonds: I:G.280, I:R.339, I:A.366

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Benini, S. et al., A new proposal for urease mechanism based on the crystal structures of the native and inhibited enzyme from Bacillus pasteurii: why urea hydrolysis costs two nickels. Structure Fold.Des. (1999)

Release Date

1999-12-17

Peptides

PROTEIN (UREASE GAMMA SUBUNIT): ADG
PROTEIN (UREASE BETA SUBUNIT): BEH
PROTEIN (UREASE ALPHA SUBUNIT): CFI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
A

G
A

B
B

E
B

H
B

C
C

F
C

I
C

PROTEIN (UREASE GAMMA SUBUNIT)

PROTEIN (UREASE BETA SUBUNIT)

PROTEIN (UREASE ALPHA SUBUNIT)

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