SMTL ID : 8rkd.1

TadA/CpaF with AMPPNP

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-hexamer

Ligands

4 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 7 residues within 4Å: Chain A: L.169, F.177, A.178, S.179, K.208, T.209, R.353 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.179, A:K.208, A:T.209, A:T.209, A:H.303, A:R.353 ADP.4: 14 residues within 4Å: Chain B: R.138, R.144, L.169, L.174, F.177, S.179, G.205, S.206, G.207, K.208, T.209, T.210, R.352 Ligands: MG.5 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:R.144, B:S.179, B:G.205, B:G.207, B:K.208, B:T.209, B:T.210, B:R.352, B:R.352, B:R.352 Salt bridges: B:R.138, B:K.208 ADP.8: 8 residues within 4Å: Chain D: L.169, F.177, A.178, S.179, K.208, T.209, H.303, R.353 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:S.179, D:K.208, D:T.209, D:T.209, D:H.303, D:R.353 ADP.10: 14 residues within 4Å: Chain E: R.138, R.144, L.169, L.174, F.177, S.179, G.205, S.206, G.207, K.208, T.209, T.210, R.352 Ligands: MG.11 12 PLIP interactions: 12 interactions with chain E Hydrogen bonds: E:R.144, E:S.179, E:G.205, E:G.207, E:K.208, E:T.209, E:T.209, E:T.210, E:R.352, E:R.352 Salt bridges: E:R.138, E:K.208

4 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.2: 10 residues within 4Å: Chain A: R.195, D.296, D.403, R.404, Y.407, Y.408 Chain F: R.346, L.347, R.348, G.350 No protein-ligand interaction detected (PLIP) EPE.3: 5 residues within 4Å: Chain B: R.195, D.403, R.404, Y.407, Y.408 No protein-ligand interaction detected (PLIP) EPE.7: 10 residues within 4Å: Chain C: R.346, L.347, R.348, G.350 Chain D: R.195, D.296, D.403, R.404, Y.407, Y.408 No protein-ligand interaction detected (PLIP) EPE.9: 5 residues within 4Å: Chain E: R.195, D.403, R.404, Y.407, Y.408 No protein-ligand interaction detected (PLIP)

2 x MG: MAGNESIUM ION(Non-covalent)

MG.5: 3 residues within 4Å: Chain B: T.209, E.233 Ligands: ADP.4 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.209 MG.11: 3 residues within 4Å: Chain E: T.209, E.233 Ligands: ADP.10 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:T.209

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.6: 13 residues within 4Å: Chain C: K.165, L.169, L.174, F.177, S.179, T.204, G.205, S.206, G.207, K.208, T.209, T.210, R.352 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:K.165, C:S.179, C:G.205, C:G.207, C:K.208, C:K.208, C:T.209, C:T.210, C:E.278, C:R.352, C:R.352 pi-Stacking: C:F.177 pi-Cation interactions: C:R.352 ANP.12: 13 residues within 4Å: Chain F: K.165, L.169, L.174, F.177, S.179, T.204, G.205, S.206, G.207, K.208, T.209, T.210, R.352 13 PLIP interactions: 13 interactions with chain F Hydrogen bonds: F:K.165, F:S.179, F:G.205, F:G.207, F:K.208, F:K.208, F:T.209, F:T.210, F:E.278, F:R.352, F:R.352 pi-Stacking: F:F.177 pi-Cation interactions: F:R.352

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hohl, M. et al., Bidirectional pilus processing in the Tad pilus system motor CpaF. Nat Commun (2024)

Release Date

2024-08-14

Peptides

Pilus assembly ATPase CpaF: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
A

D
B

E
C

F
D

Pilus assembly ATPase CpaF

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