SMTL ID : 7o7o.1

(h-alpha2M)4 semiactivated II state

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

6 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: 2 residues within 4Å: Chain A: G.69, N.70 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 4 residues within 4Å: Chain B: E.245, N.247, Y.301, Q.303 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.303 NAG-NAG.6: 3 residues within 4Å: Chain B: V.1422, N.1424, Q.1425 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 2 residues within 4Å: Chain C: G.69, N.70 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 4 residues within 4Å: Chain D: E.245, N.247, Y.301, Q.303 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:Q.303 NAG-NAG.12: 3 residues within 4Å: Chain D: V.1422, N.1424, Q.1425 No protein-ligand interaction detected (PLIP)

4 x NAG- NAG- BMA- MAN: alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN.2: 1 residues within 4Å: Chain A: N.396 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.4: 1 residues within 4Å: Chain B: N.396 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.8: 1 residues within 4Å: Chain C: N.396 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN.10: 1 residues within 4Å: Chain D: N.396 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.5: 3 residues within 4Å: Chain B: N.410, T.411, T.412 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.11: 3 residues within 4Å: Chain D: N.410, T.411, T.412 No protein-ligand interaction detected (PLIP)

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

NAG.13: 3 residues within 4Å: Chain A: L.54, N.55, T.57 Ligand excluded by PLIP NAG.14: 6 residues within 4Å: Chain A: N.247, V.248, S.249, Y.301, Q.302, Q.303 Ligand excluded by PLIP NAG.15: 1 residues within 4Å: Chain A: N.410 Ligand excluded by PLIP NAG.16: 3 residues within 4Å: Chain A: T.730, N.869, I.900 Ligand excluded by PLIP NAG.17: 4 residues within 4Å: Chain A: N.991, A.1054, Y.1055, R.1271 Ligand excluded by PLIP NAG.18: 4 residues within 4Å: Chain B: P.29, N.55, E.56, Q.112 Ligand excluded by PLIP NAG.19: 1 residues within 4Å: Chain B: N.70 Ligand excluded by PLIP NAG.20: 2 residues within 4Å: Chain B: N.869, P.902 Ligand excluded by PLIP NAG.21: 4 residues within 4Å: Chain B: N.991, E.992, G.1265, A.1266 Ligand excluded by PLIP NAG.22: 3 residues within 4Å: Chain C: L.54, N.55, T.57 Ligand excluded by PLIP NAG.23: 6 residues within 4Å: Chain C: N.247, V.248, S.249, Y.301, Q.302, Q.303 Ligand excluded by PLIP NAG.24: 1 residues within 4Å: Chain C: N.410 Ligand excluded by PLIP NAG.25: 3 residues within 4Å: Chain C: T.730, N.869, I.900 Ligand excluded by PLIP NAG.26: 4 residues within 4Å: Chain C: N.991, A.1054, Y.1055, R.1271 Ligand excluded by PLIP NAG.27: 4 residues within 4Å: Chain D: P.29, N.55, E.56, Q.112 Ligand excluded by PLIP NAG.28: 1 residues within 4Å: Chain D: N.70 Ligand excluded by PLIP NAG.29: 2 residues within 4Å: Chain D: N.869, P.902 Ligand excluded by PLIP NAG.30: 4 residues within 4Å: Chain D: N.991, E.992, G.1265, A.1266 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Luque, D. et al., Cryo-EM structures show the mechanistic basis of pan-peptidase inhibition by human alpha 2 -macroglobulin. Proc.Natl.Acad.Sci.USA (2022)

Release Date

2022-04-13

Peptides

Alpha-2-macroglobulin: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Alpha-2-macroglobulin

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