SMTL ID : 3uom.3 (5 other biounits)

Ca2+ complex of Human skeletal calsequestrin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.02 Å

Oligo State

monomer

Ligands

4 x MRD: (4R)-2-METHYLPENTANE-2,4-DIOL(Non-functional Binders)

MRD.1: 4 residues within 4Å: Chain A: M.238, W.242, I.287, W.299 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.242, A:W.242, A:W.242, A:W.242, A:I.287 MRD.2: 6 residues within 4Å: Chain A: Q.274, D.275, N.276, T.277, E.278, N.279 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.278 Hydrogen bonds: A:D.275, A:T.277 MRD.6: 3 residues within 4Å: Chain A: D.275, A.336, E.340 No protein-ligand interaction detected (PLIP) MRD.7: 5 residues within 4Å: Chain A: D.13, R.14, V.15, I.16, N.17 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.16, A:N.17 Hydrogen bonds: A:D.13, A:N.17

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

MPD.3: 3 residues within 4Å: Chain A: N.279, E.340, L.347 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:E.340, A:L.347 Hydrogen bonds: A:N.279 MPD.4: 5 residues within 4Å: Chain A: V.314, N.316, D.321, S.322, V.346 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.316 Hydrogen bonds: A:N.316, A:D.321 MPD.5: 6 residues within 4Å: Chain A: E.143, F.201, E.257, L.266, E.267, K.270 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.201, A:L.266, A:K.270 Water bridges: A:D.144

15 x CA: CALCIUM ION(Non-covalent)

CA.8: 2 residues within 4Å: Chain A: D.306, S.308 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.306, A:D.306, A:S.308, H2O.8, H2O.9 CA.9: 2 residues within 4Å: Chain A: D.259, D.261 4 PLIP interactions: 2 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.259, A:D.261, H2O.3, H2O.6 CA.10: 3 residues within 4Å: Chain A: E.109, S.111, D.113 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.113, A:D.113, H2O.3, H2O.5, H2O.5 CA.11: 3 residues within 4Å: Chain A: D.245, D.247, I.249 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.247, A:I.249, H2O.5, H2O.6, H2O.6 CA.12: 1 residues within 4Å: Chain A: V.103 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:V.103, H2O.6, H2O.9 CA.13: 4 residues within 4Å: Chain A: D.261, E.264, D.332, L.333 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.261, A:E.264, H2O.7 CA.14: 3 residues within 4Å: Chain A: N.17, V.18, D.80 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:V.18, A:D.80, A:D.80, H2O.8, H2O.9 CA.15: 2 residues within 4Å: Chain A: T.189, E.194 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:T.189, H2O.4, H2O.5, H2O.6, H2O.8 CA.16: 3 residues within 4Å: Chain A: D.210, P.212, E.217 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.210, A:E.217, H2O.4, H2O.4, H2O.5 CA.17: 2 residues within 4Å: Chain A: E.199, T.229 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.199, A:T.229, H2O.1, H2O.1, H2O.4 CA.18: 2 residues within 4Å: Chain A: E.337, E.340 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:E.337, A:E.340, H2O.1, H2O.1, H2O.2 CA.19: 2 residues within 4Å: Chain A: E.337, D.341 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.337, A:D.341, A:D.341, H2O.3, H2O.3 CA.20: 1 residues within 4Å: Chain A: D.345 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.345, H2O.1, H2O.3, H2O.3, H2O.3 CA.21: 3 residues within 4Å: Chain A: E.128, L.129, E.135 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:E.128, A:L.129, A:E.135, H2O.4 CA.22: 1 residues within 4Å: Chain A: D.121 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.121, H2O.8

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sanchez, E.J. et al., High-capacity Ca2+ Binding of Human Skeletal Calsequestrin. J.Biol.Chem. (2012)

Release Date

2012-02-22

Peptides

Calsequestrin-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

Calsequestrin-1

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