Structure of PDB 6zy5 Chain B

Receptor sequence
>6zy5B (length=760) Species: 9606 (Homo sapiens) [Search protein sequence]
NRIKGIPKLDDANDAGGRNSTECTLILTEGDSAKTLAVSGLGVVGRDKYG
VFPLRGKILNVREASHKQIMENAEINNIIKIVGLQYKKNYEDEDSLKTLR
YGKIMIMTDQDQDGSHIKGLLINFIHHNWPSLLRHRFLEEFITPIVKVSK
NKQEMAFYSLPEFEEWKSSTPNHKKWKVKYYKGLGTSTSKEAKEYFADMK
RHRIQFKYSGPEDDAAISLAFSKKQIDDRKEWLTNFMEDRRQRKLLGLPE
DYLYGQTTTYLTYNDFINKELILFSNSDNERSIPSMVDGLKPGQRKVLFT
CFKRNDKREVKVAQLAGSVAEMSSYHHGEMSLMMTIINLAQNFVGSNNLN
LLQPIGQFGTRLHGGKDSASPRYIFTMLSSLARLLFPPKDDHTLKFLYDD
NQRVEPEWYIPIIPMVLINGAEGIGTGWSCKIPNFDVREIVNNIRRLMDG
EEPLPMLPSYKNFKGTIEELAPNQYVISGEVAILNSTTIEISELPVRTWT
QTYKEQVLEPMLNGTEKTPPLITDYREYHTDTTVKFVVKMTEEKLAEAER
VGLHKVFKLQTSLTCNSMVLFDHVGCLKKYDTVLDILRDFFELRLKYYGL
RKEWLLGMLGAESAKLNNQARFILEKIDGKIIIENKPKKELIKVLIQRGY
DSDPVKAWKEAQQKVSGPTFNYLLDMPLWYLTKEKKDELCRLRNEKEQEL
DTLKRKSPSDLWKEDLATFIEELEAVEAKEKQDEQVGLPGKGGKAKGKKT
QMAEVLPSPR
3D structure
PDB6zy5 Structural basis for allosteric regulation of Human Topoisomerase II alpha.
ChainB
Resolution3.6 Å
3D
structure
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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 B D463 M762 D31 M330
BS02 dna B K723 H759 S763 E854 K291 H327 S331 E422
BS03 dna B L491 F653 R661 K662 S802 I856 S861 K990 T993 S994 T996 N998 L59 F221 R229 K230 S370 I424 S429 K558 T561 S562 T564 N566
BS04 EVP B G462 R487 G30 R55 BindingDB: EC50=810nM,IC50=56000nM
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003723 RNA binding
GO:0003916 DNA topoisomerase activity
GO:0003918 DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity
GO:0005080 protein kinase C binding
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008094 ATP-dependent activity, acting on DNA
GO:0008301 DNA binding, bending
GO:0042803 protein homodimerization activity
GO:0043130 ubiquitin binding
GO:0046872 metal ion binding
GO:0046982 protein heterodimerization activity
Biological Process
GO:0000712 resolution of meiotic recombination intermediates
GO:0000819 sister chromatid segregation
GO:0002244 hematopoietic progenitor cell differentiation
GO:0006259 DNA metabolic process
GO:0006265 DNA topological change
GO:0006266 DNA ligation
GO:0006974 DNA damage response
GO:0007059 chromosome segregation
GO:0007143 female meiotic nuclear division
GO:0030261 chromosome condensation
GO:0030263 apoptotic chromosome condensation
GO:0040016 embryonic cleavage
GO:0042752 regulation of circadian rhythm
GO:0043065 positive regulation of apoptotic process
GO:0045870 positive regulation of single stranded viral RNA replication via double stranded DNA intermediate
GO:0045944 positive regulation of transcription by RNA polymerase II
GO:0048511 rhythmic process
GO:0060255 regulation of macromolecule metabolic process
GO:1905463 negative regulation of DNA duplex unwinding
Cellular Component
GO:0000228 nuclear chromosome
GO:0000775 chromosome, centromeric region
GO:0000793 condensed chromosome
GO:0001673 male germ cell nucleus
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005814 centriole
GO:0009330 DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex
GO:0032991 protein-containing complex
GO:1990904 ribonucleoprotein complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6zy5, PDBe:6zy5, PDBj:6zy5
PDBsum6zy5
PubMed34016969
UniProtP11388|TOP2A_HUMAN DNA topoisomerase 2-alpha (Gene Name=TOP2A)

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