Structure of PDB 5d8b Chain YA

Receptor sequence

>5d8bYA (length=202) Species: 262724 (Thermus thermophilus HB27) [Search protein sequence]

MYQIPVLSPSGRRELAADLPAEINPHLLWEVVRWQLAKRRRGTASTKTRG
EVAYSGRKIWPQKHTGRARHGDIGAPIFVGGGVVFGPKPRDYSYTLPKKV
RKKGLAMAVADRAREGKLLLVEAFAGVNGKTKEFLAWAKEAGLDGSESVL
LVTGNELVRRAARNLPWVVTLAPEGLNVYDIVRTERLVMDLDAWEVFQNR
IG

3D structure

PDB

5d8b Ribosome Structure Reveals Preservation of Active Sites in the Presence of a P-Site Wobble Mismatch.

Chain

Resolution

3.63 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	YA	H31 L32 W34 E35 R38 Q40 L41 K43 R44 R45 R46 T48 A49 S50 T51 K52 R54 G55 A58 Y59 S60 R62 K63 Q67 H69 G71 R72 A73 R74 H75 P81 I82 F83 V84 G85 V88 V89 F90 P92 R95 Y99 T100 P102 K103 K104 R106 K107 K108 G134 K135 T136 K137 R165 R168 N169 P171 E179 G180 N182 Y184 R205	H26 L27 W29 E30 R33 Q35 L36 K38 R39 R40 R41 T43 A44 S45 T46 K47 R49 G50 A53 Y54 S55 R57 K58 Q62 H64 G66 R67 A68 R69 H70 P76 I77 F78 V79 G80 V83 V84 F85 P87 R90 Y94 T95 P97 K98 K99 R101 K102 K103 G129 K130 T131 K132 R160 R163 N164 P166 E174 G175 N177 Y179 R200
BS02	MG	YA	E179 L181	E174 L176

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:5d8b, PDBe:5d8b, PDBj:5d8b
PDBsum	5d8b
PubMed	26412335
UniProt	Q5SHN9\|RL4_THET8 Large ribosomal subunit protein uL4 (Gene Name=rplD)

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