SMTL ID : 3zsc.1

Catalytic function and substrate recognition of the pectate lyase from Thermotoga maritima

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.94 Å

Oligo State

homo-trimer

Ligands

3 x ADA- ADA- AQA: 4-deoxy-beta-L-threo-hex-4-enopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid-(1-4)-alpha-D-galactopyranuronic acid

ADA-ADA-AQA.1: 15 residues within 4Å: Chain A: R.110, D.139, K.163, L.166, Q.196, R.197, R.200, R.202, N.224, I.228, R.264, M.266 Chain B: A.251, E.255, Y.286 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.110, A:R.197, A:R.197, A:R.200, A:R.202, A:R.202 Water bridges: A:R.110, A:D.171 Salt bridges: A:R.197, A:R.200, A:K.163, A:R.197 ADA-ADA-AQA.5: 15 residues within 4Å: Chain B: R.110, D.139, K.163, L.166, Q.196, R.197, R.200, R.202, N.224, I.228, R.264, M.266 Chain C: A.251, E.255, Y.286 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:R.110, B:R.197, B:R.197, B:R.200, B:R.202, B:R.202 Water bridges: B:R.110, B:D.171 Salt bridges: B:R.197, B:R.200, B:K.163, B:R.197 ADA-ADA-AQA.9: 15 residues within 4Å: Chain A: A.251, E.255, Y.286 Chain C: R.110, D.139, K.163, L.166, Q.196, R.197, R.200, R.202, N.224, I.228, R.264, M.266 7 PLIP interactions: 7 interactions with chain C Hydrogen bonds: C:R.110, C:R.197, C:R.197, C:R.200, C:R.202, C:R.202 Water bridges: C:R.110, C:D.171 Salt bridges: C:R.197, C:R.200, C:K.163, C:R.197

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: L.261, R.264, E.291 No protein-ligand interaction detected (PLIP) GOL.3: 3 residues within 4Å: Chain A: P.175, M.235, V.269 No protein-ligand interaction detected (PLIP) GOL.6: 3 residues within 4Å: Chain B: L.261, R.264, E.291 No protein-ligand interaction detected (PLIP) GOL.7: 3 residues within 4Å: Chain B: P.175, M.235, V.269 No protein-ligand interaction detected (PLIP) GOL.10: 3 residues within 4Å: Chain C: L.261, R.264, E.291 No protein-ligand interaction detected (PLIP) GOL.11: 3 residues within 4Å: Chain C: P.175, M.235, V.269 No protein-ligand interaction detected (PLIP)

3 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.4: 5 residues within 4Å: Chain A: H.99, T.133, V.135, K.157, V.159 7 PLIP interactions: 7 interactions with chain A Water bridges: A:T.133, A:T.133, A:T.133, A:T.133, A:K.157 Salt bridges: A:H.99, A:K.157 PO4.8: 5 residues within 4Å: Chain B: H.99, T.133, V.135, K.157, V.159 7 PLIP interactions: 7 interactions with chain B Water bridges: B:T.133, B:T.133, B:T.133, B:T.133, B:K.157 Salt bridges: B:H.99, B:K.157 PO4.12: 5 residues within 4Å: Chain C: H.99, T.133, V.135, K.157, V.159 7 PLIP interactions: 7 interactions with chain C Water bridges: C:T.133, C:T.133, C:T.133, C:T.133, C:K.157 Salt bridges: C:H.99, C:K.157

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McDonough, M.A. et al., Catalytic Function and Substrate Recognition of the Pectate Lyase from Thermotoga Maritima. To be Published

Release Date

2012-07-11

Peptides

PECTATE TRISACCHARIDE-LYASE: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

PECTATE TRISACCHARIDE-LYASE