SMTL ID : 5cvw.1

CRYSTAL STRUCTURE OF RTX DOMAIN BLOCK V OF ADENYLATE CYCLASE TOXIN FROM BORDETELLA PERTUSSIS

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.25 Å

Oligo State

monomer

Ligands

8 x CA: CALCIUM ION(Non-covalent)

CA.1: 7 residues within 4Å: Chain A: D.11, G.13, N.15, G.28, G.29, A.30, D.33 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.11, A:G.13, A:G.28, A:A.30, A:D.33 CA.2: 7 residues within 4Å: Chain A: G.29, A.30, G.31, D.33, G.46, A.48, D.51 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:G.31, A:D.33, A:G.46, A:A.48, A:D.51 CA.3: 6 residues within 4Å: Chain A: D.47, A.48, G.49, D.51, Y.68, D.71 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.47, A:G.49, A:D.51, A:Y.68, A:D.71 CA.4: 7 residues within 4Å: Chain A: S.2, R.4, D.6, G.19, L.20, A.21, D.24 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:S.2, A:R.4, A:D.6, A:G.19, A:A.21 CA.5: 7 residues within 4Å: Chain A: L.20, A.21, G.22, D.24, G.37, E.39, D.42 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:L.20, A:G.22, A:D.24, A:G.37, A:D.42 CA.6: 8 residues within 4Å: Chain A: D.38, E.39, G.40, D.42, G.55, G.56, Q.57, D.60 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:D.38, A:G.40, A:D.42, A:G.55, A:D.60 CA.7: 7 residues within 4Å: Chain A: G.56, Q.57, G.58, D.60, E.75, G.77, D.81 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:G.56, A:G.58, A:D.60, A:E.75, A:D.81 CA.8: 4 residues within 4Å: Chain A: G.78, D.81, R.124, E.126 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.78, A:D.81, A:R.124, A:E.126, H2O.2

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.9: 5 residues within 4Å: Chain A: G.1, L.8, V.16, L.17, N.18 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.1, A:G.1, A:V.16, A:N.18 EDO.10: 2 residues within 4Å: Chain A: D.11, A.12 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.12 EDO.12: 1 residues within 4Å: Chain A: K.142 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.142 EDO.13: 2 residues within 4Å: Chain A: G.13, A.14 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.14 Water bridges: A:A.14

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.11: 3 residues within 4Å: Chain A: W.93, L.106, Y.150 No protein-ligand interaction detected (PLIP)

2 x MG: MAGNESIUM ION(Non-covalent)(Non-functional Binders)

MG.14: 1 residues within 4Å: Chain A: E.39 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.39, H2O.1 MG.15: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bumba, L. et al., Calcium-Driven Folding of RTX Domain beta-Rolls Ratchets Translocation of RTX Proteins through Type I Secretion Ducts. Mol.Cell (2016)

Release Date

2015-09-09

Peptides

Bifunctional hemolysin/adenylate cyclase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Bifunctional hemolysin/adenylate cyclase

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