SMTL ID : 3sp8.3 (2 other biounits)

Crystal structure of NK2 in complex with fractionated Heparin DP10

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

monomer

Ligands

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

MRD.1: 5 residues within 4Å: Chain A: T.24, L.25, I.26, L.72, F.91 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.91 Hydrogen bonds: A:L.25 Water bridges: A:K.27

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.2: 6 residues within 4Å: Chain A: D.239, Q.241, W.245, Y.247, R.254, W.255 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.247, A:Y.247 Water bridges: A:D.239, A:R.254, A:Y.257 Salt bridges: A:D.239, A:R.254 MES.3: 6 residues within 4Å: Chain A: F.137, E.158, W.163, F.165, R.172, Y.173 4 PLIP interactions: 4 interactions with chain A Water bridges: A:R.172 Salt bridges: A:E.158, A:R.172 pi-Cation interactions: A:Y.173

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

SO4.4: 6 residues within 4Å: Chain A: K.37, V.39, R.48, R.51, W.73 Ligands: SO4.6 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.51 Salt bridges: A:K.37, A:R.48 SO4.5: 5 residues within 4Å: Chain A: G.204, K.205, I.206, L.249, D.250 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.206, A:I.206, A:D.250 SO4.6: 4 residues within 4Å: Chain A: Q.44, N.47, R.51 Ligands: SO4.4 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.44, A:N.47, A:R.51 SO4.7: 4 residues within 4Å: Chain A: I.105, K.107, G.108, R.109 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:I.105, A:K.107, A:R.109 Salt bridges: A:K.107, A:R.109

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Recacha, R. et al., Crystal structure of NK2 in complex with fractionated Heparin DP10. TO BE PUBLISHED

Release Date

2012-07-04

Peptides

Hepatocyte growth factor alpha chain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Hepatocyte growth factor alpha chain

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