SMTL ID : 1a5n.1

K217A VARIANT OF KLEBSIELLA AEROGENES UREASE, CHEMICALLY RESCUED BY FORMATE AND NICKEL

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

hetero-3-3-3-mer

Ligands

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

NI.1: 6 residues within 4Å: Chain C: H.133, H.218, H.245, H.271 Ligands: NI.2, FMT.3 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:H.245, C:H.271 NI.2: 5 residues within 4Å: Chain C: H.133, H.135, D.359 Ligands: NI.1, FMT.3 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.133, C:H.135, C:D.359, H2O.7 NI.4: 6 residues within 4Å: Chain F: H.133, H.218, H.245, H.271 Ligands: NI.5, FMT.6 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:H.245, F:H.271 NI.5: 5 residues within 4Å: Chain F: H.133, H.135, D.359 Ligands: NI.4, FMT.6 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:H.133, F:H.135, F:D.359, H2O.14 NI.7: 6 residues within 4Å: Chain I: H.133, H.218, H.245, H.271 Ligands: NI.8, FMT.9 2 PLIP interactions: 2 interactions with chain I Metal complexes: I:H.245, I:H.271 NI.8: 5 residues within 4Å: Chain I: H.133, H.135, D.359 Ligands: NI.7, FMT.9 4 PLIP interactions: 3 interactions with chain I, 1 Ligand-Water interactions Metal complexes: I:H.133, I:H.135, I:D.359, H2O.21

3 x FMT: FORMIC ACID(Non-functional Binders)

FMT.3: 11 residues within 4Å: Chain C: H.133, H.135, A.166, T.167, T.168, H.218, H.245, F.270, H.271 Ligands: NI.1, NI.2 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:T.168, C:H.245 FMT.6: 11 residues within 4Å: Chain F: H.133, H.135, A.166, T.167, T.168, H.218, H.245, F.270, H.271 Ligands: NI.4, NI.5 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:T.168 FMT.9: 11 residues within 4Å: Chain I: H.133, H.135, A.166, T.167, T.168, H.218, H.245, F.270, H.271 Ligands: NI.7, NI.8 2 PLIP interactions: 2 interactions with chain I Hydrogen bonds: I:T.168, I:H.245

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pearson, M.A. et al., Chemical rescue of Klebsiella aerogenes urease variants lacking the carbamylated-lysine nickel ligand. Biochemistry (1998)

Release Date

1998-05-27

Peptides

UREASE (GAMMA SUBUNIT): ADG
UREASE (BETA SUBUNIT): BEH
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

UREASE (GAMMA SUBUNIT)

UREASE (BETA SUBUNIT)

UREASE (ALPHA SUBUNIT)

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