SMTL ID : 3zdd.1

Structure of E. coli ExoIX in complex with the palindromic 5ov6 oligonucleotide and potassium

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x K: POTASSIUM ION(Non-covalent)

K.1: 6 residues within 4Å: Chain A: L.171, A.172, P.180, V.182, I.185 Chain B: C.8 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:A.172, A:P.180, A:V.182, A:I.185 K.4: 6 residues within 4Å: Chain C: L.171, A.172, P.180, V.182, I.185 Chain D: C.8 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:A.172, C:P.180, C:V.182, C:I.185

2 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.2: 4 residues within 4Å: Chain A: L.110, V.114, N.243, L.244 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.110, A:V.114 Water bridges: A:L.244 IPA.5: 4 residues within 4Å: Chain C: L.110, V.114, N.243, L.244 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:L.110, C:V.114 Water bridges: C:L.244

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

EDO.3: 3 residues within 4Å: Chain A: F.226, R.229, D.230 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.229, A:D.230 Water bridges: A:E.201, A:E.201, A:D.230 EDO.6: 3 residues within 4Å: Chain C: F.226, R.229, D.230 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:R.229, C:D.230 Water bridges: C:E.201, C:E.201, C:D.230

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Anstey-Gilbert, C.S. et al., The structure of Escherichia coli ExoIX--implications for DNA binding and catalysis in flap endonucleases. Nucleic Acids Res. (2013)

Release Date

2013-07-10

Peptides

PROTEIN XNI: AC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

C
A

PROTEIN XNI

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