SMTL ID : 1w25.1

Response regulator PleD in complex with c-diGMP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

1 x ZN: ZINC ION(Non-functional Binders)

ZN.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: D.8, D.9, D.52, M.54 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.8, A:D.9, A:D.52, A:M.54 MG.6: 4 residues within 4Å: Chain B: D.8, D.9, D.52, M.54 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.8, B:D.9, B:D.52, B:M.54

5 x C2E: 9,9'-[(2R,3R,3aS,5S,7aR,9R,10R,10aS,12S,14aR)-3,5,10,12-tetrahydroxy-5,12-dioxidooctahydro-2H,7H-difuro[3,2-d:3',2'-j][1,3,7,9,2,8]tetraoxadiphosphacyclododecine-2,9-diyl]bis(2-amino-1,9-dihydro-6H-purin-6-one)(Non-covalent)

C2E.3: 10 residues within 4Å: Chain A: F.330, K.331, N.334, H.339, G.342, D.343, L.346, G.367, G.368, E.369 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.334, A:N.334, A:R.365, A:R.365, A:G.368 Salt bridges: A:K.331, A:D.343 C2E.4: 9 residues within 4Å: Chain A: R.177, R.358, D.361, P.376, T.378, D.382, I.386, R.389 Ligands: C2E.5 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:R.177, A:R.177, A:R.358, A:R.358, A:P.376, A:T.378, A:R.389, A:R.389 Salt bridges: A:R.358, A:D.361 pi-Cation interactions: A:R.358 C2E.5: 13 residues within 4Å: Chain A: R.147, G.152, G.173, V.174, H.176, R.177, S.355, N.356, V.357, R.358, A.359, R.389 Ligands: C2E.4 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.147, A:R.147, A:G.173, A:R.177, A:R.358, A:A.359, A:R.389, A:R.389 Salt bridges: A:R.147, A:R.177 C2E.7: 10 residues within 4Å: Chain B: R.177, V.357, R.358, D.361, P.376, T.378, D.382, I.386, R.389 Ligands: C2E.8 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:R.177, B:R.177, B:R.358, B:R.358, B:P.376, B:T.378, B:R.389, B:R.389 Salt bridges: B:R.358, B:D.361 pi-Cation interactions: B:R.358 C2E.8: 13 residues within 4Å: Chain B: R.147, G.152, G.173, V.174, H.176, R.177, S.355, N.356, V.357, R.358, A.359, R.389 Ligands: C2E.7 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:R.147, B:R.147, B:G.173, B:R.177, B:R.358, B:A.359, B:R.389, B:R.389 Salt bridges: B:R.147, B:R.177 pi-Cation interactions: B:R.389

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chan, C. et al., Structural Basis of Activity and Allosteric Control of Diguanylate Cyclase. Proc.Natl.Acad.Sci.USA (2004)

Release Date

2004-11-18

Peptides

STALKED-CELL DIFFERENTIATION CONTROLLING PROTEIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

STALKED-CELL DIFFERENTIATION CONTROLLING PROTEIN

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