SMTL ID : 2a3l.2 (1 other biounit)

X-Ray Structure of Adenosine 5'-Monophosphate Deaminase from Arabidopsis Thaliana in Complex with Coformycin 5'-Phosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.34 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.253, H.255, H.521, D.598 Ligands: CF5.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.253, A:H.255, A:H.521, A:D.598 ZN.4: 5 residues within 4Å: Chain B: H.253, H.255, H.521, D.598 Ligands: CF5.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.253, B:H.255, B:H.521, B:D.598 ZN.7: 5 residues within 4Å: Chain C: H.253, H.255, H.521, D.598 Ligands: CF5.9 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:H.253, C:H.255, C:H.521, C:D.598 ZN.10: 5 residues within 4Å: Chain D: H.253, H.255, H.521, D.598 Ligands: CF5.12 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:H.253, D:H.255, D:H.521, D:D.598

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

PO4.2: 5 residues within 4Å: Chain A: R.242, R.248, H.648, K.666 Chain C: Y.303 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Salt bridges: A:R.242, A:R.248 Hydrogen bonds: C:Y.303 PO4.5: 5 residues within 4Å: Chain B: R.242, R.248, H.648, K.666 Chain D: Y.303 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain D Salt bridges: B:R.242, B:R.248 Hydrogen bonds: D:Y.303 PO4.8: 5 residues within 4Å: Chain A: Y.303 Chain C: R.242, R.248, H.648, K.666 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain C Hydrogen bonds: A:Y.303, A:Y.303 Salt bridges: C:R.242, C:R.248 PO4.11: 5 residues within 4Å: Chain B: Y.303 Chain D: R.242, R.248, H.648, K.666 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B Salt bridges: D:R.242, D:R.248 Hydrogen bonds: B:Y.303, B:Y.303

4 x CF5: COFORMYCIN 5'-PHOSPHATE(Non-covalent)

CF5.3: 15 residues within 4Å: Chain A: H.253, H.255, K.324, F.325, K.328, Y.329, H.521, E.524, H.543, S.570, D.598, D.599, Q.602 Chain C: I.82 Ligands: ZN.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.324, A:Y.329, A:S.570, A:Q.602 Salt bridges: A:K.324 CF5.6: 15 residues within 4Å: Chain B: H.253, H.255, K.324, F.325, K.328, Y.329, H.521, E.524, H.543, S.570, D.598, D.599, Q.602 Chain D: I.82 Ligands: ZN.4 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.324, B:Y.329, B:S.570, B:Q.602 Salt bridges: B:K.324 CF5.9: 15 residues within 4Å: Chain A: I.82 Chain C: H.253, H.255, K.324, F.325, K.328, Y.329, H.521, E.524, H.543, S.570, D.598, D.599, Q.602 Ligands: ZN.7 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:K.324, C:Y.329, C:Y.329, C:S.570, C:D.599, C:Q.602 Salt bridges: C:K.324 CF5.12: 15 residues within 4Å: Chain B: I.82 Chain D: H.253, H.255, K.324, F.325, K.328, Y.329, H.521, E.524, H.543, S.570, D.598, D.599, Q.602 Ligands: ZN.10 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:K.324, D:Y.329, D:Y.329, D:S.570, D:D.599, D:Q.602 Salt bridges: D:K.324

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Han, B.W. et al., Membrane association, mechanism of action, and structure of Arabidopsis embryonic factor 1 (FAC1). J.Biol.Chem. (2006)

Release Date

2005-07-19

Peptides

AMP deaminase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

AMP deaminase

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