SMTL ID : 4r0k.1

Crystal structure of a putative dipeptidyl-peptidase VI (BT_1314) from Bacteroides thetaiotaomicron VPI-5482 at 1.75 A resolution

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

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

CL.1: 5 residues within 4Å: Chain A: F.229, S.242, F.275, N.276, R.279 Ligand excluded by PLIP CL.2: 6 residues within 4Å: Chain A: N.22, R.24, F.29 Chain B: Y.171, L.172, W.173 Ligand excluded by PLIP CL.7: 5 residues within 4Å: Chain B: F.229, S.242, F.275, N.276, R.279 Ligand excluded by PLIP CL.8: 6 residues within 4Å: Chain A: Y.171, L.172, W.173 Chain B: N.22, R.24, F.29 Ligand excluded by PLIP

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: D.59, K.294, N.302, L.303, Y.304 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.59, A:N.297, A:N.302, A:L.303 Water bridges: A:G.295 GOL.9: 5 residues within 4Å: Chain B: D.59, G.295, N.297, N.302, L.303 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.59, B:G.295, B:N.297, B:N.302, B:L.303

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.4: 5 residues within 4Å: Chain A: S.34, Y.60, D.182, S.184, R.200 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.60, A:S.184, A:S.184, A:R.200, A:R.200 Water bridges: A:D.201 EDO.5: 5 residues within 4Å: Chain A: F.94, Y.96, T.105 Chain B: H.91, T.165 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Water bridges: B:H.91 Hydrogen bonds: A:Y.96, A:Y.96 EDO.6: 7 residues within 4Å: Chain A: T.35, Q.36, M.41, T.56, D.58, R.188, R.200 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.35, A:T.35, A:R.188 Water bridges: A:R.188 EDO.10: 6 residues within 4Å: Chain B: S.34, Y.60, D.182, S.184, R.200, D.201 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.182, B:S.184, B:R.200, B:R.200 Water bridges: B:W.173 EDO.11: 5 residues within 4Å: Chain B: E.145, R.149, T.299, D.300, Y.305 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:R.149, B:T.299 Water bridges: B:R.114, B:R.149

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Joint Center for Structural Genomics (JCSG), Crystal structure of a putative dipeptidyl-peptidase VI (BT_1314) from Bacteroides thetaiotaomicron VPI-5482 at 1.75 A resolution. To be published

Release Date

2014-08-20

Peptides

Dipeptidyl-peptidase VI: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Dipeptidyl-peptidase VI

Related Entries With Identical Sequence