SMTL ID : 8amv.1

RepB pMV158 hexamer

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.77 Å

Oligo State

homo-hexamer

Ligands

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

PO4.1: 8 residues within 4Å: Chain A: H.39, D.42, K.52, H.55, H.57, Y.99, H.102, K.112 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:D.42, A:D.42, A:Y.99 Water bridges: A:K.52, A:K.52 Salt bridges: A:H.39, A:K.52, A:H.55, A:H.57, A:H.102, A:K.112 PO4.3: 9 residues within 4Å: Chain B: H.39, D.42, K.52, H.55, H.57, Y.99, H.102, K.112 Chain C: R.130 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:D.42, B:D.42, B:D.42 Salt bridges: B:H.39, B:K.52, B:H.55, B:H.57, B:H.102, B:K.112, C:R.130 PO4.4: 7 residues within 4Å: Chain C: D.42, K.52, H.55, H.57, Y.99, H.102, K.112 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:D.42, C:D.42, C:Y.99, C:Y.99 Salt bridges: C:H.39, C:K.52, C:H.55, C:H.57, C:H.102, C:K.112 PO4.5: 3 residues within 4Å: Chain D: H.57, Y.99, H.102 2 PLIP interactions: 2 interactions with chain D Salt bridges: D:H.57, D:H.102 PO4.6: 8 residues within 4Å: Chain E: H.39, D.42, K.52, H.55, H.57, Y.99, H.102, K.112 8 PLIP interactions: 8 interactions with chain E Hydrogen bonds: E:D.42, E:D.42, E:D.42 Salt bridges: E:H.39, E:K.52, E:H.55, E:H.57, E:H.102 PO4.7: 8 residues within 4Å: Chain F: H.39, D.42, K.52, H.55, H.57, Y.99, H.102, K.112 10 PLIP interactions: 10 interactions with chain F Hydrogen bonds: F:D.42, F:D.42, F:D.42, F:Y.99 Salt bridges: F:H.39, F:K.52, F:H.55, F:H.57, F:H.102, F:K.112

1 x NA: SODIUM ION(Non-functional Binders)

NA.2: 2 residues within 4Å: Chain B: P.19, L.79 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Machon, C. et al., Structures of pMV158 replication initiator RepB with and without DNA reveal a flexible dual-function protein. Nucleic Acids Res. (2023)

Release Date

2023-02-08

Peptides

Replication protein RepB: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Replication protein RepB

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