SMTL ID : 4qfj.1

The crystal structure of rat angiogenin-heparin complex

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

1 x SGN- IDS- SGN- IDS- SGN- IDS: 2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose-(1-4)-2-O-sulfo-alpha-L-idopyranuronic acid-(1-4)-2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose

SGN-IDS-SGN-IDS-SGN-IDS.1: 10 residues within 4Å: Chain A: K.24, S.33, R.36, R.37, R.38 Chain B: Y.11, N.54, K.55, G.56, K.59 6 PLIP interactions: 2 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:R.36, B:K.55, B:K.55 Water bridges: A:E.32, A:S.33, A:S.33, A:R.36, B:K.59, B:Y.19, A:R.36 Salt bridges: B:K.55, B:K.59, B:K.55, A:R.36

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: E.46, H.87 Ligands: ACY.3 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:E.46, A:E.46, A:H.87 ZN.4: 4 residues within 4Å: Chain B: E.46, H.87, G.89 Ligands: ACY.5 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:E.46, B:E.46, B:H.87

2 x ACY: ACETIC ACID(Non-functional Binders)

ACY.3: 6 residues within 4Å: Chain A: E.46, H.87, T.88, G.89, G.90 Ligands: ZN.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.90 Salt bridges: A:H.87 ACY.5: 5 residues within 4Å: Chain B: E.46, H.87, T.88, G.89 Ligands: ZN.4 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:H.87

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yeo, K.J. et al., The crystal structure of rat angiogenin-heparin complex. To be Published

Release Date

2014-08-27

Peptides

Angiogenin: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Angiogenin

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