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

Crystal Structure of the Bacteriophage phi29 gene product 12 N-terminal fragment in complex with cobalt ions

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-trimer

Ligands

6 x CO: COBALT (II) ION(Non-covalent)

CO.1: 3 residues within 4Å: Chain A: H.203, E.228, D.230 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.203, A:D.230, H2O.8, H2O.8, H2O.8 CO.2: 5 residues within 4Å: Chain A: D.197, D.198, N.223, N.225, E.228 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.197, A:D.198, A:N.223, A:E.228, H2O.8 CO.4: 3 residues within 4Å: Chain B: H.203, E.228, D.230 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.203, B:D.230, H2O.17, H2O.17, H2O.17 CO.5: 5 residues within 4Å: Chain B: D.197, D.198, N.223, N.225, E.228 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.197, B:D.198, B:N.223, B:E.228, H2O.17 CO.7: 3 residues within 4Å: Chain C: H.203, E.228, D.230 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:H.203, C:D.230, H2O.25, H2O.25, H2O.25 CO.8: 5 residues within 4Å: Chain C: D.197, D.198, N.223, N.225, E.228 5 PLIP interactions: 4 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.197, C:D.198, C:N.223, C:E.228, H2O.25

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

PO4.3: 5 residues within 4Å: Chain A: E.375, N.376, Y.379, Y.403, S.406 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.375, A:N.376, A:N.376, A:N.376, A:S.406 PO4.6: 5 residues within 4Å: Chain B: E.375, N.376, Y.379, Y.403, S.406 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.375, B:N.376, B:N.376, B:N.376, B:S.406 PO4.9: 5 residues within 4Å: Chain C: E.375, N.376, Y.379, Y.403, S.406 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:E.375, C:N.376, C:N.376, C:N.376, C:S.406

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Xiang, Y. et al., Crystallographic insights into the autocatalytic assembly mechanism of a bacteriophage tail spike. Mol.Cell (2009)

Release Date

2009-05-26

Peptides

Preneck appendage protein: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

Preneck appendage protein

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