SMTL ID : 3k08.1 (1 other biounit)

Crystal Structure of CNG mimicking NaK mutant, NaK-NTPP, Na+ complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.62 Å

Oligo State

homo-tetramer

Ligands

16 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.1: 4 residues within 4Å: Chain A: F.11, I.15, F.76 Chain C: I.63 Ligand excluded by PLIP MPD.2: 5 residues within 4Å: Chain A: F.61, L.64, Y.65, I.68 Ligands: MPD.4 Ligand excluded by PLIP MPD.3: 6 residues within 4Å: Chain A: L.31, F.39, P.51, P.52, P.53, Q.54 Ligand excluded by PLIP MPD.4: 5 residues within 4Å: Chain A: L.16, T.17, S.20, Y.65 Ligands: MPD.2 Ligand excluded by PLIP MPD.11: 4 residues within 4Å: Chain B: F.11, I.15, F.76 Chain D: I.63 Ligand excluded by PLIP MPD.12: 5 residues within 4Å: Chain B: F.61, L.64, Y.65, I.68 Ligands: MPD.14 Ligand excluded by PLIP MPD.13: 6 residues within 4Å: Chain B: L.31, F.39, P.51, P.52, P.53, Q.54 Ligand excluded by PLIP MPD.14: 5 residues within 4Å: Chain B: L.16, T.17, S.20, Y.65 Ligands: MPD.12 Ligand excluded by PLIP MPD.21: 4 residues within 4Å: Chain B: I.63 Chain C: F.11, I.15, F.76 Ligand excluded by PLIP MPD.22: 5 residues within 4Å: Chain C: F.61, L.64, Y.65, I.68 Ligands: MPD.24 Ligand excluded by PLIP MPD.23: 6 residues within 4Å: Chain C: L.31, F.39, P.51, P.52, P.53, Q.54 Ligand excluded by PLIP MPD.24: 5 residues within 4Å: Chain C: L.16, T.17, S.20, Y.65 Ligands: MPD.22 Ligand excluded by PLIP MPD.31: 4 residues within 4Å: Chain A: I.63 Chain D: F.11, I.15, F.76 Ligand excluded by PLIP MPD.32: 5 residues within 4Å: Chain D: F.61, L.64, Y.65, I.68 Ligands: MPD.34 Ligand excluded by PLIP MPD.33: 6 residues within 4Å: Chain D: L.31, F.39, P.51, P.52, P.53, Q.54 Ligand excluded by PLIP MPD.34: 5 residues within 4Å: Chain D: L.16, T.17, S.20, Y.65 Ligands: MPD.32 Ligand excluded by PLIP

24 x NA: SODIUM ION(Non-functional Binders)

NA.5: 23 residues within 4Å: Chain A: T.46, V.47 Chain B: T.46, V.47 Chain C: T.46, V.47 Chain D: T.46, V.47 Ligands: NA.6, NA.7, NA.10, NA.15, NA.16, NA.17, NA.20, NA.25, NA.26, NA.27, NA.30, NA.35, NA.36, NA.37, NA.40 Ligand excluded by PLIP NA.6: 11 residues within 4Å: Chain A: T.46 Chain B: T.46 Chain C: T.46 Chain D: T.46 Ligands: NA.5, NA.15, NA.16, NA.25, NA.26, NA.35, NA.36 Ligand excluded by PLIP NA.7: 23 residues within 4Å: Chain A: T.46, V.47 Chain B: T.46, V.47 Chain C: T.46, V.47 Chain D: T.46, V.47 Ligands: NA.5, NA.9, NA.10, NA.15, NA.17, NA.19, NA.20, NA.25, NA.27, NA.29, NA.30, NA.35, NA.37, NA.39, NA.40 Ligand excluded by PLIP NA.8: 7 residues within 4Å: Ligands: NA.9, NA.18, NA.19, NA.28, NA.29, NA.38, NA.39 Ligand excluded by PLIP NA.9: 19 residues within 4Å: Chain A: G.48 Chain B: G.48 Chain C: G.48 Chain D: G.48 Ligands: NA.7, NA.8, NA.10, NA.17, NA.18, NA.19, NA.20, NA.27, NA.28, NA.29, NA.30, NA.37, NA.38, NA.39, NA.40 Ligand excluded by PLIP NA.10: 23 residues within 4Å: Chain A: V.47, G.48 Chain B: V.47, G.48 Chain C: V.47, G.48 Chain D: V.47, G.48 Ligands: NA.5, NA.7, NA.9, NA.15, NA.17, NA.19, NA.20, NA.25, NA.27, NA.29, NA.30, NA.35, NA.37, NA.39, NA.40 Ligand excluded by PLIP NA.15: 23 residues within 4Å: Chain A: T.46, V.47 Chain B: T.46, V.47 Chain C: T.46, V.47 Chain D: T.46, V.47 Ligands: NA.5, NA.6, NA.7, NA.10, NA.16, NA.17, NA.20, NA.25, NA.26, NA.27, NA.30, NA.35, NA.36, NA.37, NA.40 Ligand excluded by PLIP NA.16: 11 residues within 4Å: Chain A: T.46 Chain B: T.46 Chain C: T.46 Chain D: T.46 Ligands: NA.5, NA.6, NA.15, NA.25, NA.26, NA.35, NA.36 Ligand excluded by PLIP NA.17: 23 residues within 4Å: Chain A: T.46, V.47 Chain B: T.46, V.47 Chain C: T.46, V.47 Chain D: T.46, V.47 Ligands: NA.5, NA.7, NA.9, NA.10, NA.15, NA.19, NA.20, NA.25, NA.27, NA.29, NA.30, NA.35, NA.37, NA.39, NA.40 Ligand excluded by PLIP NA.18: 7 residues within 4Å: Ligands: NA.8, NA.9, NA.19, NA.28, NA.29, NA.38, NA.39 Ligand excluded by PLIP NA.19: 19 residues within 4Å: Chain A: G.48 Chain B: G.48 Chain C: G.48 Chain D: G.48 Ligands: NA.7, NA.8, NA.9, NA.10, NA.17, NA.18, NA.20, NA.27, NA.28, NA.29, NA.30, NA.37, NA.38, NA.39, NA.40 Ligand excluded by PLIP NA.20: 23 residues within 4Å: Chain A: V.47, G.48 Chain B: V.47, G.48 Chain C: V.47, G.48 Chain D: V.47, G.48 Ligands: NA.5, NA.7, NA.9, NA.10, NA.15, NA.17, NA.19, NA.25, NA.27, NA.29, NA.30, NA.35, NA.37, NA.39, NA.40 Ligand excluded by PLIP NA.25: 23 residues within 4Å: Chain A: T.46, V.47 Chain B: T.46, V.47 Chain C: T.46, V.47 Chain D: T.46, V.47 Ligands: NA.5, NA.6, NA.7, NA.10, NA.15, NA.16, NA.17, NA.20, NA.26, NA.27, NA.30, NA.35, NA.36, NA.37, NA.40 Ligand excluded by PLIP NA.26: 11 residues within 4Å: Chain A: T.46 Chain B: T.46 Chain C: T.46 Chain D: T.46 Ligands: NA.5, NA.6, NA.15, NA.16, NA.25, NA.35, NA.36 Ligand excluded by PLIP NA.27: 23 residues within 4Å: Chain A: T.46, V.47 Chain B: T.46, V.47 Chain C: T.46, V.47 Chain D: T.46, V.47 Ligands: NA.5, NA.7, NA.9, NA.10, NA.15, NA.17, NA.19, NA.20, NA.25, NA.29, NA.30, NA.35, NA.37, NA.39, NA.40 Ligand excluded by PLIP NA.28: 7 residues within 4Å: Ligands: NA.8, NA.9, NA.18, NA.19, NA.29, NA.38, NA.39 Ligand excluded by PLIP NA.29: 19 residues within 4Å: Chain A: G.48 Chain B: G.48 Chain C: G.48 Chain D: G.48 Ligands: NA.7, NA.8, NA.9, NA.10, NA.17, NA.18, NA.19, NA.20, NA.27, NA.28, NA.30, NA.37, NA.38, NA.39, NA.40 Ligand excluded by PLIP NA.30: 23 residues within 4Å: Chain A: V.47, G.48 Chain B: V.47, G.48 Chain C: V.47, G.48 Chain D: V.47, G.48 Ligands: NA.5, NA.7, NA.9, NA.10, NA.15, NA.17, NA.19, NA.20, NA.25, NA.27, NA.29, NA.35, NA.37, NA.39, NA.40 Ligand excluded by PLIP NA.35: 23 residues within 4Å: Chain A: T.46, V.47 Chain B: T.46, V.47 Chain C: T.46, V.47 Chain D: T.46, V.47 Ligands: NA.5, NA.6, NA.7, NA.10, NA.15, NA.16, NA.17, NA.20, NA.25, NA.26, NA.27, NA.30, NA.36, NA.37, NA.40 Ligand excluded by PLIP NA.36: 11 residues within 4Å: Chain A: T.46 Chain B: T.46 Chain C: T.46 Chain D: T.46 Ligands: NA.5, NA.6, NA.15, NA.16, NA.25, NA.26, NA.35 Ligand excluded by PLIP NA.37: 23 residues within 4Å: Chain A: T.46, V.47 Chain B: T.46, V.47 Chain C: T.46, V.47 Chain D: T.46, V.47 Ligands: NA.5, NA.7, NA.9, NA.10, NA.15, NA.17, NA.19, NA.20, NA.25, NA.27, NA.29, NA.30, NA.35, NA.39, NA.40 Ligand excluded by PLIP NA.38: 7 residues within 4Å: Ligands: NA.8, NA.9, NA.18, NA.19, NA.28, NA.29, NA.39 Ligand excluded by PLIP NA.39: 19 residues within 4Å: Chain A: G.48 Chain B: G.48 Chain C: G.48 Chain D: G.48 Ligands: NA.7, NA.8, NA.9, NA.10, NA.17, NA.18, NA.19, NA.20, NA.27, NA.28, NA.29, NA.30, NA.37, NA.38, NA.40 Ligand excluded by PLIP NA.40: 23 residues within 4Å: Chain A: V.47, G.48 Chain B: V.47, G.48 Chain C: V.47, G.48 Chain D: V.47, G.48 Ligands: NA.5, NA.7, NA.9, NA.10, NA.15, NA.17, NA.19, NA.20, NA.25, NA.27, NA.29, NA.30, NA.35, NA.37, NA.39 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Derebe, M.G. et al., Structural studies of ion permeation and Ca2+ blockage of a bacterial channel mimicking the cyclic nucleotide-gated channel pore. Proc.Natl.Acad.Sci.USA (2011)

Release Date

2011-01-12

Peptides

Potassium channel protein NaK: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Membrane

We predict this structure to be a membrane protein.
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Potassium channel protein NaK

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