Structure of PDB 5bk4 Chain D

Receptor sequence
>5bk4D (length=661) Species: 4932 (Saccharomyces cerevisiae) [Search protein sequence]
SFDRPEIYSAPVLQGESPNDDDNTEIIKSFKNFILEFRLDSQFIYRDQLR
NNILVKNYSLTVNMEHLIGYNEDIYKKLSDEPSDIIPLFETAITQVAKRI
SILSRAQSANSLPTFQLILNSNANQIPLRDLDSEHVSKIVRLSGIIISTS
VLSSRATYLSIMCRNCRHTTSITINNFNSITGNTVSLPRSCLSTIESESS
MANESNIGDESTKKNCGPDPYIIIHESSKFIDQQFLKLQEIPELVPVGEM
PRNLTMTCDRYLTNKVIPGTRVTIVGIYSIYNSKNGSGVAIRTPYIKILG
IQSDVETSSIWNSVTMFTEEEEEEFLQLSRNPKLYEILTNSIAPSIFGNE
DIKKAIVCLLMGGSKKILPDGMRLRGDINVLLLGDPGTAKSQLLKFVEKV
SPIAVYTSGKGSSAAGLTASVQRDPMTREFYLEGGAMVLADGGVVCIDEF
DKMRDEDRVAIHEAMEQQTISIAKAGITTVLNSRTSVLAAANPIYGRYDD
LKSPGDNIDFQTTILSRFDMIFIVKDDHNEERDISIANHVINIHTGNANA
MQNQQEENGSEISIEKMKRYITYCRLKCAPRLSPQAAEKLSSNFVTIRKQ
LLINELESTERSSIPITIRQLEAIIRITESLAKLELSPIAQERHVDEAIR
LFQASTMDAAS
3D structure
PDB5bk4 Cryo-EM structure of Mcm2-7 double hexamer on DNA suggests a lagging-strand DNA extrusion model.
ChainD
Resolution3.9 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 3.6.4.12: DNA helicase.
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 D K304 R460 K284 R428
BS02 ADP D I650 R651 I618 R619
BS03 ADP D S377 F379 G419 A421 K422 S423 I568 S345 F347 G387 A389 K390 S391 I536
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003688 DNA replication origin binding
GO:0003697 single-stranded DNA binding
GO:0004386 helicase activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008270 zinc ion binding
GO:0016787 hydrolase activity
GO:0016887 ATP hydrolysis activity
GO:0017116 single-stranded DNA helicase activity
GO:0043138 3'-5' DNA helicase activity
Biological Process
GO:0000727 double-strand break repair via break-induced replication
GO:0006260 DNA replication
GO:0006267 pre-replicative complex assembly involved in nuclear cell cycle DNA replication
GO:0006268 DNA unwinding involved in DNA replication
GO:0006270 DNA replication initiation
GO:0006279 premeiotic DNA replication
GO:0006368 transcription elongation by RNA polymerase II
GO:0030174 regulation of DNA-templated DNA replication initiation
GO:0031507 heterochromatin formation
GO:0031509 subtelomeric heterochromatin formation
GO:0032508 DNA duplex unwinding
GO:0033260 nuclear DNA replication
Cellular Component
GO:0000781 chromosome, telomeric region
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005656 nuclear pre-replicative complex
GO:0005737 cytoplasm
GO:0031261 DNA replication preinitiation complex
GO:0031298 replication fork protection complex
GO:0042555 MCM complex
GO:0043596 nuclear replication fork
GO:0071162 CMG complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5bk4, PDBe:5bk4, PDBj:5bk4
PDBsum5bk4
PubMed29078375
UniProtP29496|MCM5_YEAST Minichromosome maintenance protein 5 (Gene Name=MCM5)

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