SMTL ID : 1clq.1

CRYSTAL STRUCTURE OF A REPLICATION FORK DNA POLYMERASE EDITING COMPLEX AT 2.7 A RESOLUTION

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

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

CA.1: 2 residues within 4Å: Chain A: A.9, C.10 No protein-ligand interaction detected (PLIP) CA.2: 3 residues within 4Å: Chain B: C.11, G.12 Chain C: D.114 3 PLIP interactions: 2 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.114, C:D.114, H2O.7 CA.3: 1 residues within 4Å: Chain B: T.6 No protein-ligand interaction detected (PLIP) CA.4: 3 residues within 4Å: Chain C: N.505, N.507, K.531 2 PLIP interactions: 2 interactions with chain C Metal complexes: C:N.505, C:K.531 CA.5: 3 residues within 4Å: Chain B: G.12 Chain C: D.114, E.116 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:E.116 CA.6: 2 residues within 4Å: Chain C: E.219, D.275 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:E.219, C:D.275, C:D.275 CA.7: 1 residues within 4Å: Chain C: E.716 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:E.716 CA.8: 2 residues within 4Å: Chain C: C.671, N.676 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:N.676 CA.9: 4 residues within 4Å: Chain C: D.411, D.621, D.623, S.624 3 PLIP interactions: 3 interactions with chain C Metal complexes: C:D.621, C:D.623, C:S.624

1 x GDP: GUANOSINE-5'-DIPHOSPHATE(Non-covalent)

GDP.10: 15 residues within 4Å: Chain C: Y.33, S.36, F.38, K.48, Y.49, R.59, G.84, M.85, A.91, D.95, F.370, K.374, K.378, V.379, I.380 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:Y.33, C:S.36, C:Y.49, C:R.59, C:M.85, C:D.95, C:K.378, C:K.378, C:I.380 Water bridges: C:N.377 Salt bridges: C:K.48, C:R.59 pi-Stacking: C:F.38, C:F.38, C:F.370

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shamoo, Y. et al., Building a replisome from interacting pieces: sliding clamp complexed to a peptide from DNA polymerase and a polymerase editing complex. Cell(Cambridge,Mass.) (1999)

Release Date

1999-10-28

Peptides

PROTEIN (DNA POLYMERASE): C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
A

PROTEIN (DNA POLYMERASE)

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