SMTL ID : 4n9a.1

E. coli sliding clamp in complex with (R)-6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxylic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

5 x CA: CALCIUM ION(Non-covalent)

CA.1: 1 residues within 4Å: Chain B: E.301 No protein-ligand interaction detected (PLIP) CA.3: 3 residues within 4Å: Chain A: G.280, A.294, N.295 No protein-ligand interaction detected (PLIP) CA.9: 1 residues within 4Å: Chain B: D.211 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:D.211 CA.10: 4 residues within 4Å: Chain B: G.46, T.47, M.51, E.202 No protein-ligand interaction detected (PLIP) CA.11: 1 residues within 4Å: Chain B: P.183 No protein-ligand interaction detected (PLIP)

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

PG4.2: 4 residues within 4Å: Chain A: D.121, W.122, S.124, R.224 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.224, A:R.224 Water bridges: A:Q.123, A:S.124

1 x 2J2: (1R)-6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxylic acid(Non-covalent)

2J2.4: 10 residues within 4Å: Chain A: R.152, T.172, G.174, H.175, R.176, L.177, P.242, V.247, V.360, M.362 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.242, A:P.242, A:V.247 Water bridges: A:R.152 Salt bridges: A:R.152 Halogen bonds: A:V.360

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

PEG.5: 3 residues within 4Å: Chain A: K.250, T.341, S.345 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.345 PEG.6: 5 residues within 4Å: Chain A: A.114, D.115, F.116, P.117, N.118 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.114, A:N.118, A:N.118

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

CL.7: 3 residues within 4Å: Chain A: S.181, Q.355, S.356 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain A: T.4, V.5, L.59, V.60, Q.61 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yin, Z. et al., Discovery of lead compounds targeting the bacterial sliding clamp using a fragment-based approach. J.Med.Chem. (2014)

Release Date

2013-11-06

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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