BioLiP

Structure of PDB 4gkj Chain D

Receptor sequence

>4gkjD (length=208) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence]

GRYIGPVCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRP
SDYAVRLREKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRL
DNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEK
SRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFLRLPDREDLALPVNEQ
LVIEFYSR

3D structure

PDB

4gkj Expanded use of sense codons is regulated by modified cytidines in tRNA.

Chain

Resolution

3.298 Å

3D
structure

[Spin on]
[Spin off]
[Reset orientation]

[High quality]
[Low quality]

[White background]
[Black background]

[Download]
[Download structure with residue number starting from 1]

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	D	G2 R3 P7 V8 C9 R10 R13 R14 K22 E24 R25 K30 R35 R36 P40 G41 Q42 H43 Q45 S52 A55 L58 R59 Q62 R65 R66 E72 R73 Q74 R115 Q116 R118 Q119 R122 H123 H125 R132 V133 D134 L135 P136 S137 Y138 L155 E156 E205 S208 R209	G1 R2 P6 V7 C8 R9 R12 R13 K21 E23 R24 K29 R34 R35 P39 G40 Q41 H42 Q44 S51 A54 L57 R58 Q61 R64 R65 E71 R72 Q73 R114 Q115 R117 Q118 R121 H122 H124 R131 V132 D133 L134 P135 S136 Y137 L154 E155 E204 S207 R208

Gene Ontology

	Molecular Function
GO:0003723	RNA binding
GO:0003735	structural constituent of ribosome
GO:0019843	rRNA binding
GO:0046872	metal ion binding

	Biological Process
GO:0006412	translation
GO:0042274	ribosomal small subunit biogenesis

	Cellular Component
GO:0005840	ribosome
GO:0015935	small ribosomal subunit
GO:1990904	ribonucleoprotein complex

View graph for
Molecular Function

View graph for
Biological Process

View graph for
Cellular Component

PDB	RCSB:4gkj, PDBe:4gkj, PDBj:4gkj
PDBsum	4gkj
PubMed	23781103
UniProt	P80373\|RS4_THET8 Small ribosomal subunit protein uS4 (Gene Name=rpsD)