Structure of PDB 5vp2 Chain 2Y

Receptor sequence
>5vp22Y (length=107) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence]
MRVKMHVKKGDTVLVASGKYKGRVGKVKEVLPKKYAVIVEGVNIVKKAVR
VSPKYPQGGFIEKEAPLHASKVRPICPACGKPTRVRKKFLENGKKIRVCA
KCGGALD
3D structure
PDB5vp2 Madumycin II inhibits peptide bond formation by forcing the peptidyl transferase center into an inactive state.
Chain2Y
Resolution2.8 Å
3D
structure
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Enzymatic activity
Enzyme Commision number ?
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 rna 2Y M1 K4 H6 K8 K9 S17 G18 K19 K21 V30 P32 Y35 K46 K47 A48 V49 V51 G58 G59 F60 H68 S70 K71 R73 R84 R86 K87 K95 M1 K4 H6 K8 K9 S17 G18 K19 K21 V30 P32 Y35 K46 K47 A48 V49 V51 G58 G59 F60 H68 S70 K71 R73 R84 R86 K87 K95
BS02 ZN 2Y C76 C79 C99 C102 C76 C79 C99 C102
Gene Ontology
Molecular Function
GO:0003723 RNA binding
GO:0003735 structural constituent of ribosome
GO:0019843 rRNA binding
Biological Process
GO:0006412 translation
Cellular Component
GO:0005840 ribosome
GO:1990904 ribonucleoprotein complex

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Cellular Component
External links
PDB RCSB:5vp2, PDBe:5vp2, PDBj:5vp2
PDBsum5vp2
PubMed28505372
UniProtQ5SHP9|RL24_THET8 Large ribosomal subunit protein uL24 (Gene Name=rplX)

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