Structure of PDB 3rae Chain A

Receptor sequence

>3raeA (length=482) Species: 1313 (Streptococcus pneumoniae)

NIQNMSLEDIMGERFGRYSKYIIQDRALPDIRDGLKPVQRRILYSMNKDS
NTFDKSYRKSAKSVGNIMGNFHPHGDSSIYDAMVRMSQNWKNREILVEMH
GNNGSMDGDPPAAMRYTEARLSEIAGYLLQDIEKKTVPFAWNFDDTEKEP
TVLPAAFPNLLVNGSTGISAGYATDIPPHNLAEVIDAAVYMIDHPTAKID
KLMEFLPGPDFPTGAIIQGRDEIKKAYETGKGRVVVRSKTEIEKLKGGKE
QIVITEIPYEINKANLVKKIDDVRVNNKVAGIAEVRDESDRDGLRIAIEL
KKDANTELVLNYLFKYTDLQINYNFNMVAIDNFTPRQVGIVPILSSYIAH
RREVILARSRFDKEKAEKRLHIVEGLIRVISILDEVIALIRASENKADAK
ENLKVSYDFTEEQAEAIVTLQLYRLTNTDVVVLQEEEAELREKIAMLAAI
IGDERTMYNLMKKELREVKKKFATPRLSSLED

3D structure

• PDB: 3rae Structure of a quinolone-stabilized cleavage complex of topoisomerase IV from Klebsiella pneumoniae and comparison with a related Streptococcus pneumoniae complex.
• Chain: A
• Resolution: 2.9 Å

Enzymatic activity

• Enzyme Commision number: 5.6.2.2: DNA topoisomerase (ATP-hydrolyzing).

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	dna	A	R28 K38 V40 H74 H76 R87 I170	R26 K36 V38 H72 H74 R85 I168
BS02	dna	A	R117 Y118 I170 S171 G173 Y174 A175 N326	R115 Y116 I168 S169 G171 Y172 A173 N324
BS03	MG	A	F316 K317 T319 Q322	F314 K315 T317 Q320

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003918 DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
• GO:0005524 ATP binding

Biological Process

• GO:0006259 DNA metabolic process
• GO:0006265 DNA topological change

Cellular Component

• GO:0005694 chromosome

External links

• PDB: RCSB:3rae, PDBe:3rae, PDBj:3rae
• PDBsum: 3rae
• PubMed: 27050128
• UniProt: P72525|PARC_STRPN DNA topoisomerase 4 subunit A (Gene Name=parC)