SMTL ID : 9isk.1

Cryo-EM structure of KpFtsZ-ZapA complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 2.73 Å

Oligo State

hetero-6-8-mer

Ligands

6 x G2P: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER(Non-covalent)

G2P.1: 21 residues within 4Å: Chain A: G.19, G.20, G.21, N.24, T.44, G.69, A.70, G.71, A.72, G.103, G.107, T.108, G.109, T.132, P.134, F.135, E.138, R.142, N.165, F.182 Ligands: MG.2 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:G.20, A:G.21, A:N.24, A:T.44, A:A.70, A:G.71, A:A.72, A:G.107, A:T.108, A:G.109, A:T.132, A:F.135, A:E.138, A:R.142, A:R.142, A:N.165, A:N.165 pi-Stacking: A:F.182 pi-Cation interactions: A:F.182 G2P.4: 22 residues within 4Å: Chain A: M.206 Chain B: G.19, G.20, G.21, N.24, T.44, G.69, A.70, G.71, A.72, G.103, M.104, G.107, T.108, G.109, P.134, F.135, E.138, R.142, N.165, F.182 Ligands: MG.5 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:G.20, B:G.21, B:N.24, B:T.44, B:A.70, B:G.71, B:A.72, B:G.107, B:T.108, B:G.109, B:T.132, B:F.135, B:E.138, B:R.142, B:R.142, B:N.165, B:N.165 pi-Stacking: B:F.182 pi-Cation interactions: B:F.182 G2P.7: 23 residues within 4Å: Chain B: M.206 Chain C: G.19, G.20, G.21, N.24, T.44, G.69, A.70, G.71, A.72, G.103, M.104, G.106, G.107, T.108, G.109, P.134, F.135, E.138, R.142, N.165, F.182 Ligands: MG.8 19 PLIP interactions: 19 interactions with chain C Hydrogen bonds: C:G.20, C:G.21, C:N.24, C:T.44, C:A.70, C:G.71, C:A.72, C:G.107, C:T.108, C:G.109, C:T.132, C:F.135, C:E.138, C:R.142, C:R.142, C:N.165, C:N.165 pi-Stacking: C:F.182 pi-Cation interactions: C:F.182 G2P.10: 21 residues within 4Å: Chain D: G.19, G.20, G.21, N.24, T.44, G.69, A.70, G.71, A.72, G.103, M.104, G.107, T.108, G.109, P.134, F.135, E.138, R.142, N.165, F.182 Ligands: MG.11 19 PLIP interactions: 19 interactions with chain D Hydrogen bonds: D:G.20, D:G.21, D:N.24, D:A.70, D:G.71, D:A.72, D:G.107, D:T.108, D:T.108, D:G.109, D:T.132, D:F.135, D:E.138, D:R.142, D:R.142, D:N.165, D:N.165 pi-Stacking: D:F.182 pi-Cation interactions: D:F.182 G2P.13: 22 residues within 4Å: Chain D: M.206 Chain E: G.19, G.20, G.21, N.24, T.44, G.69, A.70, G.71, A.72, G.103, M.104, G.107, T.108, G.109, P.134, F.135, E.138, R.142, N.165, F.182 Ligands: MG.14 19 PLIP interactions: 19 interactions with chain E Hydrogen bonds: E:G.20, E:G.21, E:N.24, E:A.70, E:G.71, E:A.72, E:G.107, E:T.108, E:T.108, E:G.109, E:T.132, E:F.135, E:E.138, E:R.142, E:R.142, E:N.165, E:N.165 pi-Stacking: E:F.182 pi-Cation interactions: E:F.182 G2P.16: 23 residues within 4Å: Chain E: M.206 Chain F: G.19, G.20, G.21, N.24, T.44, G.69, A.70, G.71, A.72, G.103, M.104, G.106, G.107, T.108, G.109, P.134, F.135, E.138, R.142, N.165, F.182 Ligands: MG.17 18 PLIP interactions: 18 interactions with chain F Hydrogen bonds: F:G.20, F:G.21, F:N.24, F:A.70, F:G.71, F:A.72, F:G.107, F:T.108, F:T.108, F:G.109, F:F.135, F:E.138, F:R.142, F:R.142, F:N.165, F:N.165 pi-Stacking: F:F.182 pi-Cation interactions: F:F.182

6 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 1 residues within 4Å: Ligands: G2P.1 No protein-ligand interaction detected (PLIP) MG.5: 1 residues within 4Å: Ligands: G2P.4 No protein-ligand interaction detected (PLIP) MG.8: 1 residues within 4Å: Ligands: G2P.7 No protein-ligand interaction detected (PLIP) MG.11: 1 residues within 4Å: Ligands: G2P.10 No protein-ligand interaction detected (PLIP) MG.14: 1 residues within 4Å: Ligands: G2P.13 No protein-ligand interaction detected (PLIP) MG.17: 1 residues within 4Å: Ligands: G2P.16 No protein-ligand interaction detected (PLIP)

6 x K: POTASSIUM ION(Non-covalent)

K.3: 6 residues within 4Å: Chain A: L.199, I.200, R.202, N.207, V.208 Chain B: Q.47 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:L.199, A:R.202, A:V.208 K.6: 7 residues within 4Å: Chain B: L.199, I.200, R.202, P.203, N.207, V.208 Chain C: Q.47 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:L.199, B:R.202, B:V.208 K.9: 5 residues within 4Å: Chain C: L.199, I.200, R.202, N.207, V.208 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:L.199, C:R.202, C:V.208 K.12: 6 residues within 4Å: Chain D: L.199, I.200, R.202, N.207, V.208 Chain E: Q.47 3 PLIP interactions: 3 interactions with chain D Metal complexes: D:L.199, D:R.202, D:V.208 K.15: 7 residues within 4Å: Chain E: L.199, I.200, R.202, P.203, N.207, V.208 Chain F: Q.47 3 PLIP interactions: 3 interactions with chain E Metal complexes: E:L.199, E:R.202, E:V.208 K.18: 5 residues within 4Å: Chain F: L.199, I.200, R.202, N.207, V.208 3 PLIP interactions: 3 interactions with chain F Metal complexes: F:L.199, F:R.202, F:V.208

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fujita, J. et al., Structural basis for the interaction between the bacterial cell division proteins FtsZ and ZapA. Nat Commun (2025)

Release Date

2025-07-23

Peptides

Cell division protein FtsZ: ABCDEF
Cell division protein ZapA: GHIJKLMN

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
I

I
H

J
J

K
K

L
M

M
L

N
N

Cell division protein FtsZ

Cell division protein ZapA

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