SMTL ID : 2w3h.1

Cyanide bound structure of the first GAF domain of Mycobacterium tuberculosis DosS

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 28 residues within 4Å: Chain A: Y.26, G.27, A.28, F.41, Y.43, E.44, I.46, V.51, I.54, H.56, L.57, P.58, K.59, G.60, L.61, G.62, V.63, V.79, S.85, I.86, G.87, F.88, P.89, H.92, M.95, Y.114, T.116 Ligands: CYN.2 24 PLIP interactions: 24 interactions with chain A, Hydrophobic interactions: A:Y.26, A:A.28, A:F.41, A:F.41, A:Y.43, A:Y.43, A:V.51, A:I.54, A:L.57, A:P.58, A:V.79, A:I.86, A:F.88, A:P.89, A:Y.114 Hydrogen bonds: A:K.59, A:G.60, A:L.61, A:V.63, A:I.86, A:G.87 Water bridges: A:I.64 pi-Stacking: A:F.41 Metal complexes: A:H.92 HEM.4: 29 residues within 4Å: Chain B: Y.26, G.27, A.28, F.41, Y.43, E.44, I.46, V.51, I.54, G.55, H.56, L.57, P.58, K.59, G.60, L.61, G.62, V.63, V.79, S.85, I.86, G.87, F.88, P.89, H.92, M.95, Y.114, T.116 Ligands: CYN.5 29 PLIP interactions: 29 interactions with chain B, Hydrophobic interactions: B:Y.26, B:A.28, B:F.41, B:Y.43, B:Y.43, B:I.46, B:V.51, B:I.54, B:I.54, B:L.57, B:P.58, B:V.79, B:I.86, B:F.88, B:P.89, B:Y.114, B:T.116 Hydrogen bonds: B:K.59, B:G.60, B:L.61, B:L.61, B:V.63, B:I.86, B:G.87 Water bridges: B:L.61, B:I.64, B:F.88 pi-Stacking: B:F.41 Metal complexes: B:H.92

2 x CYN: CYANIDE ION(Non-covalent)

CYN.2: 4 residues within 4Å: Chain A: F.41, P.58, Y.114 Ligands: HEM.1 No protein-ligand interaction detected (PLIP) CYN.5: 4 residues within 4Å: Chain B: F.41, P.58, Y.114 Ligands: HEM.4 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.114, B:Y.114 Water bridges: B:G.60

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 1 residues within 4Å: Chain A: D.23 4 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.23, H2O.1, H2O.1, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Cho, H.Y. et al., Structural Insight Into the Heme-Based Redox Sensing by Doss from Mycobacterium Tuberculosis. J.Biol.Chem. (2009)

Release Date

2009-03-10

Peptides

TWO COMPONENT SENSOR HISTIDINE KINASE DEVS (GAF FAMILY PROTEIN): AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

TWO COMPONENT SENSOR HISTIDINE KINASE DEVS (GAF FAMILY PROTEIN)

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