Structure of PDB 7t02 Chain A Binding Site BS03

Receptor Information

>7t02 Chain A (length=1752) Species: 235443 (Cryptococcus neoformans var. grubii H99)

SDDLPPISDIEAMFDHLVSRIPDIVELVRQLNGRKLRVATMCSGTESPLL
ALNMIAKAIKAQHGLTLAFEHVFSCEIEPFKQAYIERNFTPPILFRDVTE
LGKKRAHTAYGSMVDVPGDVDILIAGTSCVDGRTFRGMLQWVKKHQPPIV
ILENVCNAPWDKVVEYFGQIDYDAQYTRLDTKEFYIPHTRTRVYLFATPS
DLPEKWAQTVKDLRRPWSSPFEAFLLHTDDPNIHRARLELASARAQTSRK
TTDWNRCESRHQRARQDEALGLLRPLTSWQEAGVCKGLDWTWNDWLLAQT
ERVVDLLEISTLRMAKDGIDSGFKACIWNVSQNVDRQTGSSKTALAPCLT
PNMIPWVTIRGGPVTGREALALQGIPVRELLLTSENEDQLADLAGNAMTT
TVVGSAMIAALKVACHKITEGANPEKEAALILEKEAVDDEQVANRIIGED
YLEHHDLDLAKVTKSNLSEILDLACRSSRHCQCEGQSGTAPNILECQECS
YRACKSCGGRPEHVYAPCANQRVEPAEFEKRFKGLLPMRVRIAGLTDQCL
NAVRKAAEKSNKGSVNDNDWQLWSTALLEGIHDAEFRFRYLKRQSTWTAV
YEARRAMLSLVLRNQIPEWRLTIKAPASEPNNSQLRALLLHPVARLQIDI
AGQDVLCGPWELCIPSMKTIDIEITGKGELLPSWQASLGLQGPFANTTRW
SEVEISLQAEDENTLDRKLSGTYQLLPRCGQAMSSLHKKRPDDGLPQLYF
FLDPTRCGESREDRYVFSTSTERLDYGTERPVIARLDSHWREGNEKQRKV
KLDVSGAWVKCPEAHLTAIRATFAIPSSASAISASLTTEGCSHAMALLSC
RVPLDPTHSESMWRAWAEIDLSHQGNTTFANLAWITERLPPLDGLKNWAH
IADDVSEHVCERCAPRPPKIHWIKTIIAFEDKLEAGQYEHALKHRPSPFV
VQLRLDQDIGSFRIGLNIVSLAHRALSRLPKISLSWRLTPGHVQPRRVFI
LPSNKQDPKEQLRSLWWMLEQEKATGKTHTFVEEEISESLLPAVGWRAEG
KAERPVMVRGGVIADTVISIALVAQTLSDLKATLIVVPGHLSKQWPNEIA
RFTGSMFKVIVIQGMKDLQEKTIAELGKADIIVMASEIFESDVYWSRLEY
LSAQPLHDRFFCDRLDAAMESLVSQTKILVLHMFRFRRVIADEFTYLQKK
SLAAVLRLSSSYRWILSGTPPVSDFAAIRSIATFMGIHLGVEDDGEGDVQ
YQKARAKDQTQAEKFHAFREVHSRAWHNRRDELAQEFLNVFVRQNIAEIP
TVEHIHTFKLPASEGAVYLELEHHLQALEMQARKETKFKNVSQGDRNARL
EEALSDSKTAEEALLKRCCHFTLDLSDKTQDAKSAQEACDHITSARARQL
LACQEDLSRSVNQAIALHGWIKKKGDDERQPFAEWIAFSSNISKHQGDIE
AARILLKVIEKCGVKDGNIPPSPSDKQSPAKMDDVKWQLREQTHLLRKLV
KELVARVRSLRFFEVVRKIQKGKSDAQIVLESSECGHKPSTNPDIEMAIL
SCCGHVACHKCMRKAAASQRCVKSGECQAAVRPTNIVKVSSLGVEGELSS
GRYGAKLEHLVNLIHSIPKNERVLVFLQWEDLAGKVSEALSAGRIPHVTL
AKSRANTLDRFQSARVLLLKMNSNLTTANHAVFLGPLFTNSLFNYRAVET
QAIGRVRRYGQQKKVHIHRLLALDTIDMTIFNARRTELKEKTDWEEIPQE
EY

Ligand information

• Ligand ID: ZN
• InChI: InChI=1S/Zn/q+2
• InChIKey: PTFCDOFLOPIGGS-UHFFFAOYSA-N
• SMILES:
  CACTVS 3.341: [Zn++]
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Zn+2]
• Formula: Zn
• Name: ZINC ION
• ChEMBL: CHEMBL1236970
• DrugBank: DB14532
• PDB chain: 7t02 Chain A Residue 2401

Receptor-Ligand Complex Structure

Structure summary

• PDB: 7t02 Structural insights into DNMT5-mediated ATP-dependent high-fidelity epigenome maintenance.
• Resolution: 3.8 Å
• Binding residue (original residue number in PDB): C817 C819 C843
• Binding residue (residue number reindexed from 1): C481 C483 C507
• Annotation score: 1

Enzymatic activity

• Enzyme Commision number: 3.6.4.-

Gene Ontology

Molecular Function

• GO:0003677 DNA binding
• GO:0003682 chromatin binding
• GO:0003886 DNA (cytosine-5-)-methyltransferase activity
• GO:0005524 ATP binding
• GO:0008094 ATP-dependent activity, acting on DNA
• GO:0008168 methyltransferase activity
• GO:0016787 hydrolase activity
• GO:0016887 ATP hydrolysis activity
• GO:0043565 sequence-specific DNA binding
• GO:0120328 ATP-dependent DNA (cytosine-5-)-methyltransferase activity
• GO:0140658 ATP-dependent chromatin remodeler activity

Biological Process

• GO:0006289 nucleotide-excision repair
• GO:0006338 chromatin remodeling
• GO:0006346 DNA methylation-dependent heterochromatin formation
• GO:0009889 regulation of biosynthetic process
• GO:0032259 methylation

Cellular Component

• GO:0005634 nucleus
• GO:0005694 chromosome

External links

• PDB: RCSB:7t02, PDBe:7t02, PDBj:7t02
• PDBsum: 7t02
• PubMed: 35202575
• UniProt: J9VI03|DMT5_CRYNH DNA (cytosine-5-)-methyltransferase DMT5 (Gene Name=DMT5)