SMTL ID : 3in9.1 (1 other biounit)

Crystal structure of heparin lyase I complexed with disaccharide heparin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

monomer

Ligands

2 x SGN- UAP: 4-deoxy-2-O-sulfo-alpha-L-threo-hex-4-enopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose(Non-covalent)

SGN-UAP.1: 13 residues within 4Å: Chain A: N.20, Q.22, A.23, G.40, K.81, R.83, K.111, H.151, P.154, R.156, K.185, Q.223, G.224 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:N.20, A:Q.223, A:G.224, A:G.224, A:R.83 Water bridges: A:R.156, A:G.40, A:G.40, A:Q.223 Salt bridges: A:K.111, A:K.111, A:H.151, A:R.156, A:R.156, A:K.81, A:R.83, A:K.185 SGN-UAP.2: 15 residues within 4Å: Chain A: Y.75, I.146, G.224, G.225, Y.226, P.227, A.230, K.241, N.243, K.252, R.255, N.257, Y.357, V.359, G.360 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.225, A:G.225, A:N.243, A:R.255, A:N.257, A:N.257, A:Y.357, A:G.360 Water bridges: A:Q.223, A:Q.223, A:Y.226, A:Y.239, A:R.255 Salt bridges: A:K.81, A:K.241, A:K.252, A:R.255, A:K.241, A:R.255

1 x CA: CALCIUM ION(Non-covalent)

CA.3: 5 residues within 4Å: Chain A: D.155, E.222, W.248, N.345, D.346 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.155, A:W.248, A:N.345, A:D.346, H2O.1

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Han, Y.H. et al., Structural snapshots of heparin depolymerization by heparin lyase I. J.Biol.Chem. (2009)

Release Date

2009-09-29

Peptides

Heparin lyase I: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Heparin lyase I

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