Structure of PDB 6oxa Chain YF

Receptor sequence

>6oxaYF (length=202) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence]

VYQIPVLSPSGRRELAADLPAEINPHLLWEVVRWQLAKRRRGTASTKTRG
EVAYSGRKIWPQKHTGRARHGDIGAPIFVGGGVVFGPKPRDYSYTLPKKV
RKKGLAMAVADRAREGKLLLVEAFAGVNGKTKEFLAWAKEAGLDGSESVL
LVTGNELVRRAARNLPWVVTLAPEGLNVYDIVRTERLVMDLDAWEVFQNR
IG

3D structure

PDB

6oxa Monomeric YoeB toxin retains RNase activity but adopts an obligate dimeric form for thermal stability.

Chain

Resolution

3.25 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	YF	N29 H31 W34 E35 R38 Q40 L41 R44 R45 R46 T48 S50 T51 R54 G55 V57 A58 Y59 S60 G61 R62 K63 Q67 K68 H69 R72 A73 R74 H75 G76 P81 I82 F83 V84 G85 V88 V89 F90 P92 R95 Y99 T100 P102 K103 K104 R106 K135 T136 K137 R165 R168 N169 P171 A177 G180 Y184 R205	N24 H26 W29 E30 R33 Q35 L36 R39 R40 R41 T43 S45 T46 R49 G50 V52 A53 Y54 S55 G56 R57 K58 Q62 K63 H64 R67 A68 R69 H70 G71 P76 I77 F78 V79 G80 V83 V84 F85 P87 R90 Y94 T95 P97 K98 K99 R101 K130 T131 K132 R160 R163 N164 P166 A172 G175 Y179 R200
BS02	MG	YF	R168 L170	R163 L165

Gene Ontology

	Molecular Function
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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Molecular Function

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Biological Process

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Cellular Component

External links

PDB	RCSB:6oxa, PDBe:6oxa, PDBj:6oxa
PDBsum	6oxa
PubMed	31501867
UniProt	Q5SHN9\|RL4_THET8 Large ribosomal subunit protein uL4 (Gene Name=rplD)

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