SMTL ID : 4hxg.2 (1 other biounit)

Pyrococcus horikoshii acylaminoacyl peptidase (orthorhombic crystal form)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-hexamer

Ligands

6 x HEZ: HEXANE-1,6-DIOL(Non-covalent)

HEZ.1: 10 residues within 4Å: Chain A: G.387, A.466, Y.467, I.491, S.497, S.501, F.507, D.508, R.548, C.549 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.491, A:F.507 Hydrogen bonds: A:Y.467, A:S.501, A:S.501 HEZ.4: 12 residues within 4Å: Chain B: G.386, G.387, A.466, Y.467, I.491, S.497, S.501, I.503, F.507, D.508, R.548, C.549 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.491, B:F.507 Hydrogen bonds: B:Y.467, B:S.497, B:S.501 HEZ.7: 10 residues within 4Å: Chain C: G.386, G.387, A.466, Y.467, I.491, S.497, S.501, F.507, D.508, R.548 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:A.466, C:F.507 Hydrogen bonds: C:G.387, C:Y.467, C:S.501, C:R.548 HEZ.8: 4 residues within 4Å: Chain C: D.480, K.483, K.535, Y.607 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:K.483 HEZ.11: 11 residues within 4Å: Chain E: G.386, G.387, A.466, Y.467, I.491, S.497, S.501, I.503, F.507, D.508, R.548 6 PLIP interactions: 6 interactions with chain E Hydrophobic interactions: E:A.466, E:I.491, E:I.503 Hydrogen bonds: E:Y.467, E:S.497, E:S.501 HEZ.12: 11 residues within 4Å: Chain F: G.386, G.387, A.466, Y.467, I.491, S.497, S.501, I.503, F.507, R.548, C.549 6 PLIP interactions: 6 interactions with chain F Hydrophobic interactions: F:F.507, F:F.507 Hydrogen bonds: F:G.387, F:Y.467, F:S.497, F:S.501

8 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: K.99, E.162 Chain C: E.42 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:K.99, A:E.162, H2O.3, H2O.6, H2O.9 MG.3: 3 residues within 4Å: Chain A: Y.232, D.244, E.263 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.244, A:E.263, H2O.1 MG.5: 2 residues within 4Å: Chain B: D.244, E.263 5 PLIP interactions: 1 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.244, H2O.3, H2O.4, H2O.6, H2O.6 MG.6: 3 residues within 4Å: Chain A: E.42 Chain B: K.99, E.162 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:K.99, B:E.162, H2O.2, H2O.3, H2O.4 MG.9: 3 residues within 4Å: Chain B: E.42 Chain C: K.99, E.162 5 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: C:K.99, C:E.162, B:E.42, H2O.6, H2O.7 MG.10: 3 residues within 4Å: Chain C: Y.232, D.244, E.263 5 PLIP interactions: 2 interactions with chain C, 3 Ligand-Water interactions Metal complexes: C:D.244, C:E.263, H2O.8, H2O.9, H2O.9 MG.13: 2 residues within 4Å: Chain F: D.244, E.263 4 PLIP interactions: 1 interactions with chain F, 3 Ligand-Water interactions Metal complexes: F:E.263, H2O.10, H2O.10, H2O.12 MG.14: 4 residues within 4Å: Chain D: T.44, E.59 Chain F: K.99, E.162 5 PLIP interactions: 3 interactions with chain F, 2 Ligand-Water interactions Metal complexes: F:K.99, F:E.162, F:E.162, H2O.9, H2O.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Menyhard, D.K. et al., A Self-compartmentalizing Hexamer Serine Protease from Pyrococcus Horikoshii: SUBSTRATE SELECTION ACHIEVED THROUGH MULTIMERIZATION. J.Biol.Chem. (2013)

Release Date

2013-05-08

Peptides

Putative uncharacterized protein PH0594: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
G

B
H

C
I

D
J

E
K

F
L

Putative uncharacterized protein PH0594

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