SMTL ID : 2agv.1

Crystal structure of the SR CA2+-ATPASE with BHQ and TG

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

NA.1: 6 residues within 4Å: Chain A: Q.244, L.711, K.712, A.714, G.717, E.732 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.244, A:K.712, A:G.717 NA.7: 6 residues within 4Å: Chain B: Q.244, L.711, K.712, A.714, G.717, E.732 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.244, B:G.717, B:E.732

2 x TG1: OCTANOIC ACID [3S-[3ALPHA, 3ABETA, 4ALPHA, 6BETA, 6ABETA, 7BETA, 8ALPHA(Z), 9BALPHA]]-6-(ACETYLOXY)-2,3,-3A,4,5,6,6A,7,8,9B-DECAHYDRO-3,3A-DIHYDROXY-3,6,9-TRIMETHYL-8-[(2-METHYL-1-OXO-2-BUTENYL)OX Y]-2-OXO-4-(1-OXOBUTOXY)-AZULENO[4,5-B]FURAN-7-YL ESTER(Non-covalent)

TG1.2: 18 residues within 4Å: Chain A: L.253, E.255, F.256, Q.259, L.260, V.263, I.267, A.306, I.765, N.768, V.769, V.772, F.776, L.828, I.829, F.834, Y.837, M.838 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:L.253, A:F.256, A:F.256, A:F.256, A:Q.259, A:L.260, A:I.267, A:I.765, A:N.768, A:V.769, A:V.772, A:F.776, A:I.829, A:Y.837 Hydrogen bonds: A:L.828, A:I.829 TG1.8: 18 residues within 4Å: Chain B: L.253, E.255, F.256, Q.259, L.260, V.263, I.267, A.306, I.765, N.768, V.769, V.772, F.776, L.828, I.829, F.834, Y.837, M.838 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:L.253, B:F.256, B:F.256, B:F.256, B:Q.259, B:L.260, B:I.267, B:I.765, B:N.768, B:V.769, B:V.772, B:F.776, B:I.829, B:Y.837 Hydrogen bonds: B:L.828, B:I.829

2 x BHQ: 2,5-DITERT-BUTYLBENZENE-1,4-DIOL(Non-covalent)

BHQ.3: 13 residues within 4Å: Chain A: D.59, L.61, V.62, L.65, N.101, L.253, F.256, I.307, P.308, E.309, L.311, P.312 Ligands: PTY.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.61, A:F.256, A:I.307, A:L.311 Hydrogen bonds: A:P.308 BHQ.9: 13 residues within 4Å: Chain B: D.59, L.61, V.62, L.65, N.101, L.253, F.256, I.307, P.308, E.309, L.311, P.312 Ligands: PTY.10 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.61, B:F.256, B:I.307, B:L.311, B:P.312 Hydrogen bonds: B:P.308

6 x PTY: PHOSPHATIDYLETHANOLAMINE(Non-covalent)

PTY.4: 7 residues within 4Å: Chain A: I.97, V.104, Q.108, P.312, A.313, T.316 Ligands: BHQ.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.108, A:T.316 PTY.5: 6 residues within 4Å: Chain A: S.921, M.923, E.982, F.986, R.989, N.990 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.982 Hydrogen bonds: A:N.990 Salt bridges: A:R.989 PTY.6: 4 residues within 4Å: Chain A: L.273, I.274, N.275, A.780 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.275, A:L.781 PTY.10: 7 residues within 4Å: Chain B: I.97, V.104, Q.108, P.312, A.313, T.316 Ligands: BHQ.9 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.108 PTY.11: 6 residues within 4Å: Chain B: S.921, M.923, E.982, F.986, R.989, N.990 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:E.982 Hydrogen bonds: B:N.990 Salt bridges: B:R.989 PTY.12: 4 residues within 4Å: Chain B: L.273, I.274, N.275, A.780 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.275, B:L.781

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Obara, K. et al., Inaugural Article: Structural role of countertransport revealed in Ca2+ pump crystal structure in the absence of Ca2+. Proc.Natl.Acad.Sci.USA (2005)

Release Date

2005-10-25

Peptides

Sarcoplasmic/endoplasmic reticulum calcium ATPase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Sarcoplasmic/endoplasmic reticulum calcium ATPase 1

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