SMTL ID : 5kn0.2 (1 other biounit)

Native bovine skeletal calsequestrin, low-Ca2+ form

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.73 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 7 residues within 4Å: Chain B: D.247, G.248, I.249, N.316, T.318, D.319 Ligands: MPD.16 No protein-ligand interaction detected (PLIP)

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 5 residues within 4Å: Chain A: G.248, I.249, N.316, T.318, D.319 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:I.249

9 x CA: CALCIUM ION(Non-covalent)

CA.3: 6 residues within 4Å: Chain A: N.17, V.18, M.74, V.75, D.76, D.80 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:V.18, A:M.74, A:D.80 CA.4: 4 residues within 4Å: Chain A: E.199, M.202, T.229, T.277 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:E.199, A:E.199, A:T.229, A:T.277, A:T.277 CA.5: 3 residues within 4Å: Chain A: D.210, P.212, E.217 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.210, A:E.217 CA.6: 2 residues within 4Å: Chain A: T.189, E.194 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.189, H2O.1 CA.7: 3 residues within 4Å: Chain A: P.172, Y.173, P.175 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:P.172 CA.11: 6 residues within 4Å: Chain B: N.17, V.18, M.74, V.75, D.76, D.80 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:M.74, B:D.80 CA.12: 4 residues within 4Å: Chain B: E.199, M.202, T.229, T.277 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:E.199, B:E.199, B:T.229, B:T.277, B:T.277 CA.13: 3 residues within 4Å: Chain B: D.210, P.212, E.217 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.210 CA.14: 4 residues within 4Å: Chain B: T.189, L.190, E.194, T.207 4 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:T.189, H2O.1, H2O.1, H2O.1

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

MPD.8: 8 residues within 4Å: Chain A: P.7, E.8, Y.9, L.60, Q.63, V.64 Chain B: L.294, L.295 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:V.64, B:L.295 Hydrogen bonds: B:L.294 MPD.9: 12 residues within 4Å: Chain A: W.242, F.254, I.287, Y.298, W.299, F.303, V.315, A.320 Chain B: L.4, D.5, F.6, P.7 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:W.242, A:W.242, A:A.320, B:L.4, B:F.6 Hydrogen bonds: A:Y.298, A:W.299 MPD.10: 8 residues within 4Å: Chain A: L.294, L.295 Chain B: P.7, E.8, Y.9, L.60, Q.63, V.64 5 PLIP interactions: 2 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:V.64, A:L.294, A:L.294, A:L.295 Hydrogen bonds: B:E.8 MPD.15: 13 residues within 4Å: Chain A: L.4, D.5, F.6, P.7 Chain B: W.242, I.287, L.295, Y.298, W.299, T.302, F.303, V.315, A.320 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:W.242, B:W.242, B:A.320, A:L.4, A:F.6 Hydrogen bonds: B:W.299 MPD.16: 10 residues within 4Å: Chain B: I.249, V.314, V.315, N.316, D.321, S.322, V.323, V.346, L.347 Ligands: NAG-NAG-BMA.1 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:N.316, B:D.321

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lewis, K.M. et al., Characterization of Post-Translational Modifications to Calsequestrins of Cardiac and Skeletal Muscle. Int J Mol Sci (2016)

Release Date

2016-10-05

Peptides

Calsequestrin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Calsequestrin

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