SMTL ID : 4kfu.1 (3 other biounits)

Structure of the genome packaging NTPase B204 from Sulfolobus turreted icosahedral virus 2 in complex with AMPPCP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.89 Å

Oligo State

monomer

Ligands

2 x ACP: PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER(Non-covalent)

ACP.1: 13 residues within 4Å: Chain A: R.12, K.13, K.14, S.15, G.16, K.17, S.18, Y.19, Q.138, Y.186, P.203, I.204 Ligands: MG.7 22 PLIP interactions: 22 interactions with chain A Hydrogen bonds: A:K.13, A:K.14, A:S.15, A:G.16, A:K.17, A:K.17, A:K.17, A:S.18, A:S.18, A:Y.19, A:Y.186, A:I.204, A:I.204 Water bridges: A:Y.19, A:K.22, A:E.104, A:E.104, A:S.136 pi-Stacking: A:Y.19, A:Y.19, A:Y.186, A:Y.186 ACP.2: 4 residues within 4Å: Chain A: Y.158, L.183, K.184, Q.185 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:L.183, A:Q.185 Water bridges: A:Y.158, A:Y.158, A:K.184, A:Y.186 Salt bridges: A:K.184

2 x FLC: CITRATE ANION(Non-covalent)

FLC.3: 3 residues within 4Å: Chain A: R.160, P.162 Ligands: MG.6 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:P.162 FLC.4: 2 residues within 4Å: Chain A: R.160 Ligands: MG.5 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.160, A:R.160 Salt bridges: A:R.160, A:R.160

3 x MG: MAGNESIUM ION(Non-functional Binders)(Non-covalent)

MG.5: 1 residues within 4Å: Ligands: FLC.4 No protein-ligand interaction detected (PLIP) MG.6: 1 residues within 4Å: Ligands: FLC.3 No protein-ligand interaction detected (PLIP) MG.7: 3 residues within 4Å: Chain A: S.18, E.49 Ligands: ACP.1 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:S.18, H2O.1, H2O.2, H2O.4

1 x ZN: ZINC ION(Non-covalent)

ZN.8: 4 residues within 4Å: Chain A: D.39, H.41, D.73, H.108 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.39, A:D.39, A:H.41, A:D.73, A:H.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Happonen, L.J. et al., The Structure of the NTPase That Powers DNA Packaging into Sulfolobus Turreted Icosahedral Virus 2. J.Virol. (2013)

Release Date

2013-05-22

Peptides

Genome packaging NTPase B204: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Genome packaging NTPase B204

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