SMTL ID : 1ukm.1

Crystal structure of EMS16, an Antagonist of collagen receptor integrin alpha2beta1 (GPIa/IIa)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

hetero-1-1-mer

Ligands

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: W.25, R.73, R.75 Chain B: S.79 Ligand excluded by PLIP

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 6 residues within 4Å: Chain A: R.76, E.78, Q.80, C.81, N.82, I.91 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.76, A:Q.80, A:Q.80 GOL.3: 3 residues within 4Å: Chain A: K.97 Chain B: F.106, F.108 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.97, A:K.97 GOL.4: 5 residues within 4Å: Chain A: D.3, C.4, W.8, T.9, A.10 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:C.4, A:A.10 Water bridges: A:D.3, A:C.4, A:C.4 GOL.6: 5 residues within 4Å: Chain A: Y.67, K.102, N.117 Chain B: R.91, Y.94 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:K.102, A:N.117, B:R.91, B:R.91

1 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.5: 5 residues within 4Å: Chain B: N.21, T.23, E.24, C.112, E.113 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:E.113 Hydrogen bonds: B:T.23, B:T.23 Water bridges: B:N.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Horii, K. et al., Structural characterization of EMS16, an Antagonist of collagen receptor (GPIa/IIa) from the venom of Echis multisquamatus. Biochemistry (2003)

Release Date

2003-11-04

Peptides

EMS16 A chain: A
EMS16 B chain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

EMS16 A chain

EMS16 B chain

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