SMTL ID : 3gb0.1

Crystal structure of aminopeptidase PepT (NP_980509.1) from Bacillus cereus ATCC 10987 at 2.04 A resolution

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

homo-dimer

Ligands

8 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 7 residues within 4Å: Chain A: Q.180, R.251, Y.288, G.321, G.322 Chain B: H.193, N.238 9 PLIP interactions: 7 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:Q.180, A:R.251, A:Y.288, A:G.322, B:H.193, B:N.238 Water bridges: A:Q.180, A:Q.180, A:G.322 GOL.2: 5 residues within 4Å: Chain A: F.293, A.329, I.333, P.334 Ligands: GOL.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.333 Water bridges: A:K.292 GOL.3: 6 residues within 4Å: Chain A: N.255, G.290, F.291, A.329, G.330 Ligands: GOL.2 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.255, A:G.290, A:A.329 Water bridges: A:G.290 GOL.4: 5 residues within 4Å: Chain A: D.19, S.20, E.21, F.24, N.86 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.21, A:N.86 GOL.8: 7 residues within 4Å: Chain A: H.193, N.238 Chain B: Q.180, R.251, Y.288, G.321, G.322 8 PLIP interactions: 6 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Q.180, B:R.251, B:G.322, A:H.193, A:N.238 Water bridges: B:Q.180, B:Q.180, B:G.322 GOL.9: 5 residues within 4Å: Chain B: F.293, A.329, I.333, P.334 Ligands: GOL.10 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:I.333 Water bridges: B:K.292 GOL.10: 6 residues within 4Å: Chain B: N.255, G.290, F.291, A.329, G.330 Ligands: GOL.9 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.255, B:G.290, B:A.329 Water bridges: B:G.290 GOL.11: 5 residues within 4Å: Chain B: D.19, S.20, E.21, F.24, N.86 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.21, B:E.21, B:N.86 Water bridges: B:D.19

6 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.5: 6 residues within 4Å: Chain A: R.219, E.223, Q.318, S.319 Chain B: G.195, V.196 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.223 PEG.6: 1 residues within 4Å: Chain A: D.38 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.38 PEG.7: 3 residues within 4Å: Chain A: K.93, Y.96, K.351 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.351 PEG.12: 6 residues within 4Å: Chain A: G.195, V.196 Chain B: R.219, E.223, Q.318, S.319 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.223 PEG.13: 1 residues within 4Å: Chain B: D.38 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.38 Water bridges: B:D.38 PEG.14: 3 residues within 4Å: Chain B: K.93, Y.96, K.351 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.351

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of aminopeptidase PepT (NP_980509.1) from Bacillus cereus ATCC 10987 at 2.04 A resolution. To be published

Release Date

2009-03-03

Peptides

Peptidase T: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Peptidase T