SMTL ID : 3q13.1 (1 other biounit)

The Structure of the Ca2+-binding, Glycosylated F-spondin Domain of F-spondin, A C2-domain Variant from Extracellular Matrix

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

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: 4 residues within 4Å: Chain A: Y.28, N.30, L.111, R.218 No protein-ligand interaction detected (PLIP)

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 3 residues within 4Å: Chain A: D.141, D.170, D.174 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.141, A:D.141, A:D.170, H2O.10, H2O.10

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 7 residues within 4Å: Chain A: I.12, L.13, D.14, C.15, K.57, R.125, H.128 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.14, A:C.15 Water bridges: A:K.57, A:T.126 Salt bridges: A:K.57, A:R.125, A:H.128 SO4.4: 1 residues within 4Å: Chain A: R.43 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.43 SO4.5: 2 residues within 4Å: Chain A: R.42, R.43 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.42, A:R.43

1 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 4 residues within 4Å: Chain A: R.89, L.96, T.97, V.98 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.97 Water bridges: A:V.98 Salt bridges: A:R.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tan, K. et al., The structure of the Ca2+-binding, glycosylated F-spondin domain of F-spondin - A C2-domain variant in an extracellular matrix protein. Bmc Struct.Biol. (2011)

Release Date

2011-06-29

Peptides

Spondin-1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Spondin-1

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