SMTL ID : 6k9e.1

The A form apo structure of NrS-1 C terminal region-CTR(305-718)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-hexamer

Ligands

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

PO4.1: 7 residues within 4Å: Chain A: Q.146, G.147, T.148, K.150, G.151 Chain F: R.252, R.253 6 PLIP interactions: 2 interactions with chain F, 4 interactions with chain A Salt bridges: F:R.252, F:R.253, A:K.150 Hydrogen bonds: A:G.147, A:T.148, A:G.151 PO4.2: 8 residues within 4Å: Chain A: R.252, R.253 Chain B: Q.146, G.147, T.148, K.150, G.151, N.240 9 PLIP interactions: 7 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:G.147, B:T.148, B:G.149, B:K.150, B:G.151, B:N.240 Salt bridges: B:K.150, A:R.252, A:R.253 PO4.3: 8 residues within 4Å: Chain B: R.252, R.253 Chain C: K.145, Q.146, G.147, T.148, K.150, G.151 7 PLIP interactions: 2 interactions with chain B, 5 interactions with chain C Salt bridges: B:R.252, B:R.253, C:K.150 Hydrogen bonds: C:G.147, C:T.148, C:T.148, C:G.151 PO4.4: 9 residues within 4Å: Chain C: R.252, R.253 Chain D: Q.146, G.147, T.148, G.149, K.150, G.151, N.240 9 PLIP interactions: 2 interactions with chain C, 7 interactions with chain D Salt bridges: C:R.252, C:R.253, D:K.150 Hydrogen bonds: D:G.147, D:T.148, D:G.149, D:K.150, D:G.151, D:N.240 PO4.5: 8 residues within 4Å: Chain D: R.252, R.253 Chain E: K.145, Q.146, G.147, T.148, K.150, G.151 8 PLIP interactions: 6 interactions with chain E, 2 interactions with chain D Hydrogen bonds: E:G.147, E:T.148, E:T.148, E:K.150, E:G.151 Salt bridges: E:K.150, D:R.252, D:R.253 PO4.6: 9 residues within 4Å: Chain E: R.252, R.253 Chain F: Q.146, G.147, T.148, G.149, K.150, G.151, N.240 9 PLIP interactions: 7 interactions with chain F, 2 interactions with chain E Hydrogen bonds: F:G.147, F:T.148, F:G.149, F:K.150, F:G.151, F:N.240 Salt bridges: F:K.150, E:R.252, E:R.253

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chen, X. et al., Structural studies reveal a ring-shaped architecture of deep-sea vent phage NrS-1 polymerase. Nucleic Acids Res. (2020)

Release Date

2020-06-17

Peptides

Primase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Primase