SMTL ID : 4k3r.1

E. coli sliding clamp in complex with AcQLDLA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.86 Å

Oligo State

homo-dimer

Ligands

1 x ACE- GLN- LEU- ASP- LEU- ALA: (ACE)QLDLA(Non-covalent)

ACE-GLN-LEU-ASP-LEU-ALA.1: 14 residues within 4Å: Chain A: T.172, G.174, H.175, R.176, L.177, V.247, N.320, Y.323, V.344, V.360, M.362, P.363, M.364, R.365 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:L.177, A:V.247, A:V.360, A:M.362 Hydrogen bonds: A:G.174, A:M.362, A:P.363, A:R.365 Water bridges: A:Y.323

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

PEG.2: 6 residues within 4Å: Chain A: A.86, E.87, A.89, R.100, S.101, G.102 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.87, A:G.102 PEG.8: 9 residues within 4Å: Chain B: Q.16, V.17, S.18, G.46, T.47, D.48, M.51, E.202, R.205 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.16, B:D.48, B:R.205 PEG.9: 7 residues within 4Å: Chain A: D.77 Chain B: A.271, I.272, S.274, N.275, E.276, R.279 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.275, B:R.279 Water bridges: B:E.276

2 x CA: CALCIUM ION(Non-covalent)(Non-functional Binders)

CA.3: 1 residues within 4Å: Chain A: S.345 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:S.345, H2O.3, H2O.4, H2O.10, H2O.22 CA.6: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.4: 6 residues within 4Å: Chain A: H.9, R.56, V.57, A.58, V.60, D.229 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.41, A:A.58

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

CL.5: 3 residues within 4Å: Chain A: S.181, Q.355, S.356 Ligand excluded by PLIP

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.7: 5 residues within 4Å: Chain B: D.121, W.122, S.124, Q.217, R.224 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.224, B:R.224 Water bridges: B:Q.123

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yin, Z. et al., Structural and Thermodynamic Dissection of Linear Motif Recognition by the E. coli Sliding Clamp. J.Med.Chem. (2013)

Release Date

2013-05-01

Peptides

DNA polymerase III subunit beta: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

DNA polymerase III subunit beta

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