SMTL ID : 1yce.2 (3 other biounits)

Structure of the rotor ring of F-type Na+-ATPase from Ilyobacter tartaricus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-11-mer

Ligands

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

NA.1: 5 residues within 4Å: Chain A: Q.32, E.65 Chain K: V.63, S.66, T.67 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain K Hydrogen bonds: A:Q.32, A:Q.32, K:S.66, K:T.67 NA.3: 6 residues within 4Å: Chain A: V.63, A.64, S.66, T.67 Chain B: Q.32, E.65 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:V.63, A:S.66, A:T.67, B:Q.32 NA.5: 6 residues within 4Å: Chain B: V.63, A.64, S.66, T.67 Chain C: Q.32, E.65 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:A.64, B:S.66, B:T.67, C:Q.32 NA.7: 5 residues within 4Å: Chain C: V.63, S.66, T.67 Chain D: Q.32, E.65 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:V.63, C:S.66, C:T.67, D:Q.32 NA.9: 6 residues within 4Å: Chain D: V.63, A.64, S.66, T.67 Chain E: Q.32, E.65 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain E Hydrogen bonds: D:S.66, D:T.67, E:Q.32, E:Q.32 NA.11: 5 residues within 4Å: Chain E: V.63, S.66, T.67 Chain F: Q.32, E.65 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain F Hydrogen bonds: E:S.66, E:T.67, F:Q.32, F:E.65 NA.13: 4 residues within 4Å: Chain F: V.63, S.66 Chain G: Q.32, E.65 4 PLIP interactions: 3 interactions with chain F, 1 interactions with chain G Hydrogen bonds: F:V.63, F:S.66, F:T.67, G:Q.32 NA.15: 6 residues within 4Å: Chain G: V.63, A.64, S.66, T.67 Chain H: Q.32, E.65 4 PLIP interactions: 2 interactions with chain H, 2 interactions with chain G Hydrogen bonds: H:Q.32, H:E.65, G:S.66, G:T.67 NA.17: 6 residues within 4Å: Chain H: V.63, A.64, S.66, T.67 Chain I: Q.32, E.65 4 PLIP interactions: 2 interactions with chain H, 2 interactions with chain I Hydrogen bonds: H:S.66, H:T.67, I:Q.32, I:Q.32 NA.19: 6 residues within 4Å: Chain I: V.63, A.64, S.66, T.67 Chain J: Q.32, E.65 4 PLIP interactions: 2 interactions with chain J, 2 interactions with chain I Hydrogen bonds: J:Q.32, J:E.65, I:S.66, I:T.67 NA.21: 6 residues within 4Å: Chain J: V.63, A.64, S.66, T.67 Chain K: Q.32, E.65 4 PLIP interactions: 2 interactions with chain K, 2 interactions with chain J Hydrogen bonds: K:Q.32, K:E.65, J:S.66, J:T.67

11 x F09: NONAN-1-OL(Non-functional Binders)(Non-covalent)

F09.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) F09.4: 3 residues within 4Å: Chain C: F.5, V.9, A.13 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:V.9, C:A.13 F09.6: 1 residues within 4Å: Chain D: F.5 No protein-ligand interaction detected (PLIP) F09.8: 1 residues within 4Å: Chain E: F.5 No protein-ligand interaction detected (PLIP) F09.10: 3 residues within 4Å: Chain F: F.5, V.9, A.13 1 PLIP interactions: 1 interactions with chain F Hydrophobic interactions: F:V.9 F09.12: 1 residues within 4Å: Chain G: F.5 No protein-ligand interaction detected (PLIP) F09.14: 1 residues within 4Å: Chain H: F.5 No protein-ligand interaction detected (PLIP) F09.16: 3 residues within 4Å: Chain I: F.5, V.9, A.13 1 PLIP interactions: 1 interactions with chain I Hydrophobic interactions: I:V.9 F09.18: 1 residues within 4Å: Chain J: F.5 No protein-ligand interaction detected (PLIP) F09.20: 2 residues within 4Å: Chain K: F.5, A.13 1 PLIP interactions: 1 interactions with chain K Hydrophobic interactions: K:A.13 F09.22: 2 residues within 4Å: Chain A: V.9, A.13 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Meier, T. et al., Structure of the rotor ring of F-Type Na+-ATPase from Ilyobacter tartaricus. Science (2005)

Release Date

2005-04-12

Peptides

subunit c: ABCDEFGHIJK

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
L

B
M

C
N

D
O

E
P

F
Q

G
R

H
S

I
T

J
U

K
V

Membrane

We predict this structure to be a membrane protein.
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subunit c

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