Structure of PDB 5eaw Chain B Binding Site BS01

Receptor Information
>5eaw Chain B (length=1046) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MEPLDELDLLLLEAVPRVELLRKKADALFPETVLSRGVDNRYLVLAVETS
QNERGAEEKRLHVTASQDREHEVLCILRNGWSSVPVEPGDIVHLEGDCTS
EPWIIDDDFGYFILYPDMMISGTSVASSIRCLRRAVLSETFRGSDPATRQ
MLIGTILHEVFQKAISESFAPERLQELALQTLREVRHLKEMYRLNLSQDE
ILCEVEEYLPSFSKWAEDFMRKGPSSEFPQMQLSLPSDGRSSPCNIEVVK
SLDIEESIWSPRFGLKGKIDVTVGVKIHRDCKMKYKVMPLELKTGKESNS
IEHRSQVVLYTLLSQERREDPEAGWLLYLKTGQMYPVPANHLDKRELLKL
RNWLAASLLHRVSRAAPGEEARLSALPQIIEEEKTCKYCSQIGNCALYSR
AVEEDDASIPEAMLSKIQEETRHLQLAHLKYFSLWCLMLTLESQSKDNRK
THQSIWLTPASELEESGNCVGNLVRTEPVSRVCDGQYLHNFQRKNGPMPA
TNLMAGDRIILSGEERKLFALSKGYVKKMNKAAVTCLLDRNLSTLPATTV
FRLDREERHGDISTPLGNLSKLMESTDPSKRLRELIIDFREPQFIAYLSS
VLPHDAKDTVANILKGLNKPQRQAMKRVLLSKDYTLIVGMPGTGKTTTIC
ALVRILSACGFSVLLTSYTHSAVDNILLKLAKFKVGFLRLGQSHKVHPDI
QKFTEEEICRSRSIASLAHLEELYNSHPIVATTCMGINHPIFSRKTFDFC
IVDEASQISQPVCLGPLFFSRRFVLVGDHQQLPPLVVNREARALGMSESL
FKRLERNESAVVQLTVQYRMNRKIMSLSNKLTYAGKLECGSDRVANAVLA
LPNLKDARLSLQLYADYSDSPWLAGVLEPDNPVCFLNTDKVPAPEQVENG
GVSNVTEARLIVFLTSTFIKAGCSPSDIGVIAPYRQQLRIISDLLARSSV
GMVEVNTVDKYQGRDKSLILVSFVRSNEDGTLGELLKDWRRLNVALTRAK
HKLILLGSVSSLKRFPPLGTLFDHLNAEQLILDLPSREHESLSHIL
Ligand information
Ligand IDSF4
InChIInChI=1S/4Fe.4S
InChIKeyLJBDFODJNLIPKO-UHFFFAOYSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 2.0.7[S]12[Fe]3[S]4[Fe]1[S]5[Fe]2[S]3[Fe]45
CACTVS 3.385S1[Fe]S[Fe]1.S2[Fe]S[Fe]2
FormulaFe4 S4
NameIRON/SULFUR CLUSTER
ChEMBL
DrugBank
ZINC
PDB chain5eaw Chain B Residue 1101 [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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PDB5eaw Dna2 nuclease-helicase structure, mechanism and regulation by Rpa.
Resolution3.0 Å
Binding residue
(original residue number in PDB)		C137 R139 R140 I387 I388 C394 C397 C403 M423
Binding residue
(residue number reindexed from 1)		C131 R133 R134 I379 I380 C386 C389 C395 M413
Annotation score1
Enzymatic activity
Enzyme Commision number 3.1.-.-
3.6.4.12: DNA helicase.
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003678 DNA helicase activity
GO:0004386 helicase activity
GO:0004518 nuclease activity
GO:0004519 endonuclease activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0016887 ATP hydrolysis activity
GO:0016890 site-specific endodeoxyribonuclease activity, specific for altered base
GO:0017108 5'-flap endonuclease activity
GO:0017116 single-stranded DNA helicase activity
GO:0043139 5'-3' DNA helicase activity
GO:0046872 metal ion binding
GO:0051539 4 iron, 4 sulfur cluster binding
Biological Process
GO:0000076 DNA replication checkpoint signaling
GO:0000723 telomere maintenance
GO:0000729 DNA double-strand break processing
GO:0006259 DNA metabolic process
GO:0006260 DNA replication
GO:0006264 mitochondrial DNA replication
GO:0006281 DNA repair
GO:0006284 base-excision repair
GO:0032508 DNA duplex unwinding
GO:0033567 DNA replication, Okazaki fragment processing
GO:0043137 DNA replication, removal of RNA primer
GO:0043504 mitochondrial DNA repair
GO:0045740 positive regulation of DNA replication
GO:0090304 nucleic acid metabolic process
GO:1902990 mitotic telomere maintenance via semi-conservative replication
Cellular Component
GO:0000781 chromosome, telomeric region
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005739 mitochondrion
GO:0005760 gamma DNA polymerase complex
GO:0042645 mitochondrial nucleoid

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5eaw, PDBe:5eaw, PDBj:5eaw
PDBsum5eaw
PubMed26491943
UniProtQ6ZQJ5|DNA2_MOUSE DNA replication ATP-dependent helicase/nuclease DNA2 (Gene Name=Dna2)

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