Structure of PDB 4yik Chain A

Receptor sequence
>4yikA (length=201) Species: 9606 (Homo sapiens) [Search protein sequence]
SNAASGGRALRVLVDMDGVLADFEGGFLRKFRARFPDQPFIALEDRRGFW
VSEQYGRLRPGLSEKAISIWESKNFFFELEPLPGAVEAVKEMASLQNTDV
FICTSPIKMFKYCPYEKYAWVEKYFGPDFLEQIVLTRDKTVVSADLLIDD
RPDITGAEPTPSWEHVLFTACHNQHLQLQPPRRRLHSWADDWKAILDSKR
P
3D structure
PDB4yik Structure-based design of a bisphosphonate 5'(3')-deoxyribonucleotidase inhibitor
ChainA
Resolution1.483 Å
3D
structure
Catalytic site residues are labeled in the structure
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Enzymatic activity
Catalytic site (original residue number in PDB) D41 D43 D176
Catalytic site (residue number reindexed from 1) D15 D17 D150
Enzyme Commision number 3.1.3.-
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 MG A D41 D43 D176 D15 D17 D150
BS02 2O2 A D41 D43 F49 F75 W76 V77 W96 S131 I133 K134 R163 D15 D17 F23 F49 W50 V51 W70 S105 I107 K108 R137 PDBbind-CN: -logKd/Ki=6.89,Ki=0.128uM
Gene Ontology
Molecular Function
GO:0008253 5'-nucleotidase activity
Biological Process
GO:0009264 deoxyribonucleotide catabolic process

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Molecular Function
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Biological Process
External links
PDB RCSB:4yik, PDBe:4yik, PDBj:4yik
PDBsum4yik
PubMed
UniProtQ9NPB1|NT5M_HUMAN 5'(3')-deoxyribonucleotidase, mitochondrial (Gene Name=NT5M)

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