Structure of PDB 1vy5 Chain DQ

Receptor sequence

>1vy5DQ (length=141) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence]

MLMPRRMKYRKQQRGRLKGATKGGDYVAFGDYGLVALEPAWITAQQIEAA
RVAMVRHFRRGGKIFIRIFPDKPYTKKPLEVRMGKGKGNVEGYVAVVKPG
RVMFEVAGVTEEQAMEALRIAGHKLPIKTKIVRRDAYDEAQ

3D structure

PDB

1vy5 A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.

Chain

Resolution

2.55 Å

3D
structure

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)
BS01	rna	DQ	R51 R60	R51 R60
BS02	rna	DQ	P4 R5 R6 K8 Y9 K11 Q12 Q13 R14 G15 R16 K18 K22 G24 Y26 F29 W41 Q46 A49 R56 K63 R67 F69 D71 Y74 K76 K77 E80 V81 R82 M83 G84 K85 G86 K87 R101 R119 H123 K124 P126 K128	P4 R5 R6 K8 Y9 K11 Q12 Q13 R14 G15 R16 K18 K22 G24 Y26 F29 W41 Q46 A49 R56 K63 R67 F69 D71 Y74 K76 K77 E80 V81 R82 M83 G84 K85 G86 K87 R101 R119 H123 K124 P126 K128
BS03	rna	DQ	R16 L17 G19	R16 L17 G19
BS04	MG	DQ	G122 L125 I127	G122 L125 I127
BS05	MG	DQ	P78 N89 E91	P78 N89 E91
BS06	MG	DQ	K77 G84 G86	K77 G84 G86

Gene Ontology

	Molecular Function
GO:0000049	tRNA binding
GO:0003735	structural constituent of ribosome
GO:0019843	rRNA binding

	Biological Process
GO:0006412	translation

	Cellular Component
GO:0005840	ribosome
GO:0022625	cytosolic large ribosomal subunit
GO:1990904	ribonucleoprotein complex

External links

PDB	RCSB:1vy5, PDBe:1vy5, PDBj:1vy5
PDBsum	1vy5
PubMed	25132179
UniProt	P60489\|RL16_THET8 Large ribosomal subunit protein uL16 (Gene Name=rplP)