SMTL ID : 4pxq.1

Crystal structure of D-glucuronyl C5-epimerase in complex with heparin hexasaccharide

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x SGN- IDS- SGN- IDS- 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-(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(Non-covalent)

SGN-IDS-SGN-IDS-SGN-UAP.1: 26 residues within 4Å: Chain A: Y.149, R.154, D.155, R.156, Y.179, I.181, Q.182, Q.185, T.395, R.396, K.397, L.398, G.399, E.400, M.413, N.478, Y.482, Y.528, R.531, N.540, R.543, D.545, Y.546, T.549 Chain B: K.583, N.585 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:R.543, A:R.543, A:Y.546, A:D.155, A:R.156, A:Q.182, A:Q.185, A:R.543, A:Y.149, A:R.154, A:Q.185, A:N.478, A:Y.482, A:R.543, A:Y.546, A:T.549, A:T.549 Salt bridges: A:R.543, A:R.154, A:R.156, A:R.154 SGN-IDS-SGN-IDS-SGN-UAP.2: 26 residues within 4Å: Chain A: K.583, N.585 Chain B: Y.149, R.154, D.155, R.156, Y.179, I.181, Q.182, Q.185, K.336, T.395, R.396, K.397, L.398, G.399, E.400, M.413, Y.482, Y.528, R.531, N.540, R.543, D.545, Y.546, T.549 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:R.156, B:R.543, B:R.543, B:D.155, B:R.156, B:Q.182, B:Q.185, B:R.543, B:R.154, B:Q.185, B:R.543, B:T.549 Salt bridges: B:R.543, B:R.154, B:R.156, B:R.154 Water bridges: B:D.545, B:D.545, B:Y.546

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Qin, Y. et al., Structural and Functional Study of d-Glucuronyl C5-epimerase. J.Biol.Chem. (2015)

Release Date

2015-01-14

Peptides

D-glucuronyl C5 epimerase B: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

D-glucuronyl C5 epimerase B

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