Structure of PDB 4gfh Chain F Binding Site BS07

Receptor Information
>4gfh Chain F (length=1098) Species: 559292 (Saccharomyces cerevisiae S288C) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SASDKYQKISQLEHILKRPDTYIGSVETQEQLQWIYDEETDCMIEKNVTI
VPGLFKIFDEILVNAADNKVRDPSMKRIDVNIHAEEHTIEVKNDGKGIPI
EIHNKENIYIPEMIFGHLLTSSNYDDDEKKVTGGRNGYGAKLCNIFSTEF
ILETADLNVGQKYVQKWENNMSICHPPKITSYKKGPSYTKVTFKPDLTRF
GMKELDNDILGVMRRRVYDINGSVRDINVYLNGKSLKIRNFKNYVELYLK
SLIPTILYERINNRWEVAFAVSDISFQQISFVNSIATTMGGTHVNYITDQ
IVKKISEILKKKKKKSVKSFQIKNNMFIFINCLIENPAFTSQTKEQLTTR
VKDFGSRCEIPLEYINKIMKTDLATRMFEIASRITNYPKLEDANKAGTKE
GYKCTLVLTEGDSALSLAVAGLAVVGRDYYGCYPLRGKMLNVREASADQI
LKNAEIQAIKKIMGLQHRKKYEDTKSLRYGHLMIMTDQDHDGSHIKGLII
NFLESSFPGLLDIQGFLLEFITPIIKVSITKPTKNTIAFYNMPDYEKWRE
EESHKFTWKQKYYTSLAQEVREYFSNLDRHLKIFHSLQGNDKDYIDLAFS
KKKADDRKEWLRQYEPGTVLDPTLKEIPISDFINKELILFSLADNIRSIP
NVLDGFKPGQRKVLYGCFKKNLKSELKVAQLAPYVSECTAYHHGEQSLAQ
TIIGLAQNFVGSNNIYLLLPNGAFGTRATGGKDAAAARYIYTELNKLTRK
IFHPADDPLYKYIQEDEKTVEPEWYLPILPMILVNGAEGIGTGWSTYIPP
FNPLEIIKNIRHLMNDEELEQMHPWFRGWTGTIEEIEPLRYRMYGRIEQI
GDNVLEITELPARTWTSTIKEYLLLGLSGNDKIKPWIKDMEEQHDDNIKF
IITLSPEEMAKTRKIGFYERFKLISPISLMNMVAFDPHGKIKKYNSVNEI
LSEFYYVRLEYYQKRKDHMSERLQWEVEKYSFQVKFIKMIIEKELTVTNK
PRNAIIQELENLGFPRFNKEGKPYYGSEELYGTYEYLLGMRIWSLTKERY
QKLLKQKQEKETELENLLKLSAKDIWNTDLKAFEVGYQEFLQRDAEAR
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain4gfh Chain F Residue 1201 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4gfh Structure of a topoisomerase II-DNA-nucleotide complex reveals a new control mechanism for ATPase activity.
Resolution4.408 Å
Binding residue
(original residue number in PDB)		E66 N70
Binding residue
(residue number reindexed from 1)		E60 N64
Annotation score4
Enzymatic activity
Enzyme Commision number 5.6.2.2: DNA topoisomerase (ATP-hydrolyzing).
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

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:4gfh, PDBe:4gfh, PDBj:4gfh
PDBsum4gfh
PubMed23022727
UniProtP06786|TOP2_YEAST DNA topoisomerase 2 (Gene Name=TOP2)

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