SMTL ID : 4u87.1

Crystal structure of the Ba-soaked C2 crystal form of pMV158 replication initiator RepB (P3221 space group)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.80 Å

Oligo State

homo-hexamer

Ligands

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: A.184, G.185, T.187 Chain B: K.186 Ligand excluded by PLIP CL.3: 4 residues within 4Å: Chain B: G.185, T.187 Chain C: K.186, F.189 Ligand excluded by PLIP CL.9: 4 residues within 4Å: Chain C: G.185, T.187 Chain D: K.186, F.189 Ligand excluded by PLIP CL.16: 4 residues within 4Å: Chain D: A.184, G.185, T.187 Chain E: K.186 Ligand excluded by PLIP CL.18: 4 residues within 4Å: Chain E: G.185, T.187 Chain F: K.186, F.189 Ligand excluded by PLIP CL.24: 4 residues within 4Å: Chain A: K.186, F.189 Chain F: G.185, T.187 Ligand excluded by PLIP

6 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 5 residues within 4Å: Chain A: H.39, D.42, H.55, H.57, H.102 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.42, A:H.57 MN.8: 5 residues within 4Å: Chain B: H.39, D.42, H.55, H.57, H.102 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.42, B:H.57 MN.15: 5 residues within 4Å: Chain C: H.39, D.42, H.55, H.57, H.102 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:D.42, C:H.57 MN.17: 5 residues within 4Å: Chain D: H.39, D.42, H.55, H.57, H.102 2 PLIP interactions: 2 interactions with chain D Metal complexes: D:D.42, D:H.57 MN.23: 5 residues within 4Å: Chain E: H.39, D.42, H.55, H.57, H.102 2 PLIP interactions: 2 interactions with chain E Metal complexes: E:D.42, E:H.57 MN.30: 5 residues within 4Å: Chain F: H.39, D.42, H.55, H.57, H.102 2 PLIP interactions: 2 interactions with chain F Metal complexes: F:D.42, F:H.57

18 x BA: BARIUM ION(Non-covalent)(Non-functional Binders)

BA.4: 3 residues within 4Å: Chain B: D.129, V.132, E.181 Ligand excluded by PLIP BA.5: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP BA.6: 1 residues within 4Å: Chain B: D.166 Ligand excluded by PLIP BA.7: 1 residues within 4Å: Chain B: E.16 Ligand excluded by PLIP BA.10: 2 residues within 4Å: Chain C: D.129, V.132 Ligand excluded by PLIP BA.11: 3 residues within 4Å: Chain B: K.63 Chain C: T.133, E.138 Ligand excluded by PLIP BA.12: 3 residues within 4Å: Chain C: S.44, I.46, Q.49 Ligand excluded by PLIP BA.13: 1 residues within 4Å: Chain C: D.166 Ligand excluded by PLIP BA.14: 1 residues within 4Å: Chain C: E.16 Ligand excluded by PLIP BA.19: 3 residues within 4Å: Chain E: D.129, V.132, E.181 Ligand excluded by PLIP BA.20: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP BA.21: 1 residues within 4Å: Chain E: D.166 Ligand excluded by PLIP BA.22: 1 residues within 4Å: Chain E: E.16 Ligand excluded by PLIP BA.25: 2 residues within 4Å: Chain F: D.129, V.132 Ligand excluded by PLIP BA.26: 3 residues within 4Å: Chain E: K.63 Chain F: T.133, E.138 Ligand excluded by PLIP BA.27: 3 residues within 4Å: Chain F: S.44, I.46, Q.49 Ligand excluded by PLIP BA.28: 1 residues within 4Å: Chain F: D.166 Ligand excluded by PLIP BA.29: 1 residues within 4Å: Chain F: E.16 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boer, D.R. et al., Conformational plasticity of RepB, the replication initiator protein of promiscuous streptococcal plasmid pMV158. Sci Rep (2016)

Release Date

2015-08-26

Peptides

Replication protein RepB: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
A

E
B

F
C

Replication protein RepB

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