SMTL ID : 4qhh.1

Crystal structure of Methanocaldococcus jannaschii tetrameric selecase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: H.69, H.73 Chain B: H.69 Ligands: GOL.4, GOL.6, ZN.7, GOL.12 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Metal complexes: A:H.69, A:H.73, B:H.69 ZN.7: 7 residues within 4Å: Chain A: H.69 Chain B: H.69, H.73 Ligands: ZN.1, GOL.6, GOL.10, GOL.12 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Metal complexes: B:H.69, B:H.73, A:H.69 ZN.13: 7 residues within 4Å: Chain C: H.69, H.73 Chain D: H.69 Ligands: GOL.16, GOL.18, ZN.19, GOL.24 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Metal complexes: C:H.69, C:H.73, D:H.69 ZN.19: 7 residues within 4Å: Chain C: H.69 Chain D: H.69, H.73 Ligands: ZN.13, GOL.18, GOL.22, GOL.24 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Metal complexes: D:H.69, D:H.73, C:H.69

4 x NA: SODIUM ION(Non-functional Binders)

NA.2: 3 residues within 4Å: Chain A: N.16, N.19 Ligands: GOL.5 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.16 Water bridges: A:N.16 NA.8: 3 residues within 4Å: Chain B: N.16, N.19 Ligands: GOL.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.19 Water bridges: B:N.16 NA.14: 3 residues within 4Å: Chain C: N.16, N.19 Ligands: GOL.17 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.16 Water bridges: C:N.16 NA.20: 3 residues within 4Å: Chain D: N.16, N.19 Ligands: GOL.23 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:N.16 Water bridges: D:N.16

16 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 2 residues within 4Å: Chain A: R.4, K.28 Ligand excluded by PLIP GOL.4: 7 residues within 4Å: Chain A: H.69, E.70, H.73, F.92 Chain B: K.95 Ligands: ZN.1, GOL.6 Ligand excluded by PLIP GOL.5: 2 residues within 4Å: Chain A: N.16 Ligands: NA.2 Ligand excluded by PLIP GOL.6: 5 residues within 4Å: Chain A: H.73 Ligands: ZN.1, GOL.4, ZN.7, GOL.12 Ligand excluded by PLIP GOL.9: 2 residues within 4Å: Chain B: R.4, K.28 Ligand excluded by PLIP GOL.10: 7 residues within 4Å: Chain A: K.95 Chain B: H.69, E.70, H.73, F.92 Ligands: ZN.7, GOL.12 Ligand excluded by PLIP GOL.11: 2 residues within 4Å: Chain B: N.16 Ligands: NA.8 Ligand excluded by PLIP GOL.12: 5 residues within 4Å: Chain B: H.73 Ligands: ZN.1, GOL.6, ZN.7, GOL.10 Ligand excluded by PLIP GOL.15: 2 residues within 4Å: Chain C: R.4, K.28 Ligand excluded by PLIP GOL.16: 7 residues within 4Å: Chain C: H.69, E.70, H.73, F.92 Chain D: K.95 Ligands: ZN.13, GOL.18 Ligand excluded by PLIP GOL.17: 2 residues within 4Å: Chain C: N.16 Ligands: NA.14 Ligand excluded by PLIP GOL.18: 5 residues within 4Å: Chain C: H.73 Ligands: ZN.13, GOL.16, ZN.19, GOL.24 Ligand excluded by PLIP GOL.21: 2 residues within 4Å: Chain D: R.4, K.28 Ligand excluded by PLIP GOL.22: 7 residues within 4Å: Chain C: K.95 Chain D: H.69, E.70, H.73, F.92 Ligands: ZN.19, GOL.24 Ligand excluded by PLIP GOL.23: 2 residues within 4Å: Chain D: N.16 Ligands: NA.20 Ligand excluded by PLIP GOL.24: 5 residues within 4Å: Chain D: H.73 Ligands: ZN.13, GOL.18, ZN.19, GOL.22 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lopez-Pelegrin, M. et al., Multiple stable conformations account for reversible concentration-dependent oligomerization and autoinhibition of a metamorphic metallopeptidase. Angew.Chem.Int.Ed.Engl. (2014)

Release Date

2014-07-16

Peptides

Uncharacterized protein MJ1213: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Uncharacterized protein MJ1213

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