SMTL ID : 3qyl.1

Sensitivity of receptor internal motions to ligand binding affinity and kinetic off-rate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

monomer

Ligands

1 x 7ME: (7S)-7-methyl-5,6,7,8-tetrahydroquinazoline-2,4-diamine(Non-covalent)

7ME.1: 11 residues within 4Å: Chain A: I.5, A.6, A.7, M.20, D.27, L.28, F.31, I.94, Y.100, T.113 Ligands: NDP.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.28, A:F.31, A:F.31 Hydrogen bonds: A:I.5, A:A.6, A:T.113 Water bridges: A:A.6 Salt bridges: A:D.27 pi-Stacking: A:F.31

1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.2: 30 residues within 4Å: Chain A: A.6, A.7, I.14, G.15, M.16, N.18, A.19, M.20, W.22, G.43, R.44, H.45, T.46, S.49, L.62, S.63, S.64, K.76, S.77, V.78, I.94, G.95, G.96, G.97, R.98, V.99, Y.100, Q.102, T.123 Ligands: 7ME.1 32 PLIP interactions: 32 interactions with chain A Hydrophobic interactions: A:T.46 Hydrogen bonds: A:A.7, A:I.14, A:M.16, A:N.18, A:N.18, A:G.43, A:R.44, A:R.44, A:H.45, A:H.45, A:T.46, A:T.46, A:S.49, A:S.63, A:S.64, A:G.96, A:G.97, A:R.98, A:R.98, A:R.98, A:V.99, A:Y.100, A:Q.102, A:Q.102, A:T.123 Water bridges: A:H.45, A:H.45, A:S.64, A:S.64, A:R.98 Salt bridges: A:R.44

2 x CA: CALCIUM ION(Non-covalent)

CA.3: 2 residues within 4Å: Chain A: D.116, H.149 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.116, A:H.149, H2O.1, H2O.2 CA.5: 1 residues within 4Å: Chain A: A.83 No protein-ligand interaction detected (PLIP)

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.4: 3 residues within 4Å: Chain A: F.31, K.32, R.57 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carroll, M.J. et al., Evidence for dynamics in proteins as a mechanism for ligand dissociation. Nat.Chem.Biol. (2012)

Release Date

2012-01-18

Peptides

Dihydrofolate reductase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Dihydrofolate reductase

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