Structure of PDB 5hmm Chain A Binding Site BS01

Receptor Information
>5hmm Chain A (length=266) Species: 10726 (Tequintavirus T5) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RNLMIVDGTNLGFRFKKPFASSYVSTIQSLAKSYSARTTIVLGDKGKSVF
RLEHLPEYKGNRDEKYAQRTEEEKALDEQFFEYLKDAFELCKTTFPTFTI
RGVEADDMAAYIVKLIGHLYDHVWLISTDGDWDTLLTDKVSRFSFTTRRE
YHLRDMYEHHNVDDVEQFISLKAIMGDLGDNIRGVEGIGAKRGYNIIREF
GNVLDIIDQLPLPGKQKYIQNLNASEELLFRNLILVDLPTYCVDAIAAVG
QDVLDKFTKDILEIAE
Ligand information
Ligand IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain5hmm Chain A Residue 303 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5hmm Direct observation of DNA threading in flap endonuclease complexes.
Resolution1.5 Å
Binding residue
(original residue number in PDB)		D130 D153 D155
Binding residue
(residue number reindexed from 1)		D106 D129 D131
Annotation score4
Enzymatic activity
Catalytic site (original residue number in PDB) D26 D68 K83 R86 E128 D131 D153 D155 D201 D204
Catalytic site (residue number reindexed from 1) D7 D44 K59 R62 E104 D107 D129 D131 D177 D180
Enzyme Commision number 3.1.11.-
3.1.11.3: exodeoxyribonuclease (lambda-induced).
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003824 catalytic activity
GO:0004519 endonuclease activity
GO:0004527 exonuclease activity
GO:0004529 DNA exonuclease activity
GO:0008409 5'-3' exonuclease activity
GO:0016788 hydrolase activity, acting on ester bonds
GO:0017108 5'-flap endonuclease activity
GO:0035312 5'-3' DNA exonuclease activity
GO:0046872 metal ion binding
GO:0048256 flap endonuclease activity
GO:0051908 double-stranded DNA 5'-3' DNA exonuclease activity
GO:1990238 double-stranded DNA endonuclease activity
Biological Process
GO:0006260 DNA replication
GO:0019086 late viral transcription
GO:0033567 DNA replication, Okazaki fragment processing
GO:0039693 viral DNA genome replication
Cellular Component
GO:0019034 viral replication complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:5hmm, PDBe:5hmm, PDBj:5hmm
PDBsum5hmm
PubMed27273516
UniProtP06229|FEN_BPT5 Flap endonuclease (Gene Name=D15)

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