Structure of PDB 6s85 Chain D Binding Site BS03

Receptor Information
>6s85 Chain D (length=375) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MKILSLRLKNLNSLKGEWKIDFTREPFASNGLFAITGPTGAGKTTLLDAI
CLALYHETPRLSNVSQSQNDLMTRDTAECLAEVEFEVKGEAYRAFWSQNR
ARNQPDGNLQVPRVELARCADGKILADKVKDKLELTATLTGLDYGRFTRS
MLLSQGQFAAFLNAKPKERAELLEELTGTEIYGQISAMVFEQHKSARTEL
ETQQVEDWGYLNSLIGSKEGDKFRKFAQGLTLDNLVHLANQQLTRLHGRY
LLQRKASEALEVEVVDTWQADAVRDTRTLSGGESFLVSLALALALSDLVS
HKTRIDSLFLDEGFGTLDSETLDTALDALDALNASGKTIGVISHVEAMKE
RIPVQIKVKKINGLGYSKLESTFAV
Ligand information
Ligand IDADP
InChIInChI=1S/C10H15N5O10P2/c11-8-5-9(13-2-12-8)15(3-14-5)10-7(17)6(16)4(24-10)1-23-27(21,22)25-26(18,19)20/h2-4,6-7,10,16-17H,1H2,(H,21,22)(H2,11,12,13)(H2,18,19,20)/t4-,6-,7-,10-/m1/s1
InChIKeyXTWYTFMLZFPYCI-KQYNXXCUSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)[C@H]3[C@@H]([C@@H]([C@H](O3)CO[P@](=O)(O)OP(=O)(O)O)O)O)N
CACTVS 3.341Nc1ncnc2n(cnc12)[CH]3O[CH](CO[P](O)(=O)O[P](O)(O)=O)[CH](O)[CH]3O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OCC3OC(n2cnc1c(ncnc12)N)C(O)C3O
CACTVS 3.341Nc1ncnc2n(cnc12)[C@@H]3O[C@H](CO[P@@](O)(=O)O[P](O)(O)=O)[C@@H](O)[C@H]3O
OpenEye OEToolkits 1.5.0c1nc(c2c(n1)n(cn2)C3C(C(C(O3)COP(=O)(O)OP(=O)(O)O)O)O)N
FormulaC10 H15 N5 O10 P2
NameADENOSINE-5'-DIPHOSPHATE
ChEMBLCHEMBL14830
DrugBankDB16833
ZINCZINC000012360703
PDB chain6s85 Chain C 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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PDB6s85 Mechanism of DNA End Sensing and Processing by the Mre11-Rad50 Complex.
Resolution4.2 Å
Binding residue
(original residue number in PDB)		R946 T950 S952
Binding residue
(residue number reindexed from 1)		R274 T278 S280
Annotation score5
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000014 single-stranded DNA endodeoxyribonuclease activity
GO:0004519 endonuclease activity
GO:0004527 exonuclease activity
GO:0004529 DNA exonuclease activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008296 3'-5'-DNA exonuclease activity
GO:0016887 ATP hydrolysis activity
GO:1990238 double-stranded DNA endonuclease activity
Biological Process
GO:0006260 DNA replication
GO:0006274 DNA replication termination
GO:0006281 DNA repair
GO:0006302 double-strand break repair
GO:0006310 DNA recombination
Cellular Component
GO:1990391 DNA repair complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6s85, PDBe:6s85, PDBj:6s85
PDBsum6s85
PubMed31492634
UniProtP13458|SBCC_ECOLI Nuclease SbcCD subunit C (Gene Name=sbcC)

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