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

Crystal structure of AaHIV, A metalloproteinase from venom of Agkistrodon Acutus

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.31 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: Y.155, Y.157, N.179, C.180, I.183 No protein-ligand interaction detected (PLIP) NAG-NAG.15: 5 residues within 4Å: Chain B: Y.155, Y.157, N.179, C.180, I.183 No protein-ligand interaction detected (PLIP)

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 3 residues within 4Å: Chain A: H.141, H.145, H.151 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.141, A:H.145, A:H.151 ZN.16: 3 residues within 4Å: Chain B: H.141, H.145, H.151 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.141, B:H.145, B:H.151

14 x CA: CALCIUM ION(Non-covalent)

CA.3: 4 residues within 4Å: Chain A: E.8, D.92, C.196, N.199 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:E.8, A:D.92, A:C.196, H2O.1, H2O.6 CA.4: 6 residues within 4Å: Chain A: L.211, N.214, L.216, E.218, E.221, D.224 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:L.216, A:E.218, A:E.221, A:E.221, A:D.224 CA.5: 5 residues within 4Å: Chain A: D.275, P.276, E.278, D.290, V.291 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.275, A:P.276, A:D.290, A:V.291, H2O.2 CA.10: 2 residues within 4Å: Chain A: L.86, A.87 No protein-ligand interaction detected (PLIP) CA.11: 2 residues within 4Å: Chain A: E.330, D.331 No protein-ligand interaction detected (PLIP) CA.12: 5 residues within 4Å: Chain A: R.365, L.366, M.381, F.382, G.391 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:L.366, A:G.391 CA.13: 3 residues within 4Å: Chain A: D.101, F.102, G.104 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.101, A:F.102, A:G.104, H2O.6 CA.17: 4 residues within 4Å: Chain B: E.8, D.92, C.196, N.199 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:E.8, B:D.92, B:C.196, H2O.10, H2O.16 CA.18: 6 residues within 4Å: Chain B: L.211, N.214, L.216, E.218, E.221, D.224 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:L.216, B:E.218, B:E.221, B:E.221, B:D.224 CA.19: 5 residues within 4Å: Chain B: D.275, P.276, E.278, D.290, V.291 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.275, B:P.276, B:D.290, B:V.291, H2O.11 CA.24: 2 residues within 4Å: Chain B: L.86, A.87 No protein-ligand interaction detected (PLIP) CA.25: 2 residues within 4Å: Chain B: E.330, D.331 No protein-ligand interaction detected (PLIP) CA.26: 5 residues within 4Å: Chain B: R.365, L.366, M.381, F.382, G.391 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:L.366, B:G.391 CA.27: 3 residues within 4Å: Chain B: D.101, F.102, G.104 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.101, B:F.102, B:G.104, H2O.15

8 x 2PE: NONAETHYLENE GLYCOL(Non-covalent)

2PE.6: 6 residues within 4Å: Chain A: A.320, L.321, F.382, D.386, D.387, K.390 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.390 Water bridges: A:S.384, A:S.384 2PE.7: 4 residues within 4Å: Chain A: Y.45, F.176, F.177, Y.182 No protein-ligand interaction detected (PLIP) 2PE.8: 6 residues within 4Å: Chain A: E.34, N.37, N.38, E.41, L.211, G.213 No protein-ligand interaction detected (PLIP) 2PE.9: 5 residues within 4Å: Chain A: K.338, K.339, G.340, N.341, P.355 No protein-ligand interaction detected (PLIP) 2PE.20: 6 residues within 4Å: Chain B: A.320, L.321, F.382, D.386, D.387, K.390 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.386, B:K.390 Water bridges: B:S.384, B:S.384 2PE.21: 4 residues within 4Å: Chain B: Y.45, F.176, F.177, Y.182 No protein-ligand interaction detected (PLIP) 2PE.22: 6 residues within 4Å: Chain B: E.34, N.37, N.38, E.41, L.211, G.213 No protein-ligand interaction detected (PLIP) 2PE.23: 5 residues within 4Å: Chain B: K.338, K.339, G.340, N.341, P.355 No protein-ligand interaction detected (PLIP)

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

CL.14: 2 residues within 4Å: Chain A: K.339, Y.343 Ligand excluded by PLIP CL.28: 2 residues within 4Å: Chain B: K.339, Y.343 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhu, Z. et al., Structural basis of the autolysis of AaHIV suggests a novel target recognizing model for ADAM/reprolysin family proteins. Biochem.Biophys.Res.Commun. (2009)

Release Date

2009-08-11

Peptides

AAHIV: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

AAHIV

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