Structure of PDB 4v97 Chain CD

Receptor sequence

>4v97CD (length=208) Species: 300852 (Thermus thermophilus HB8)

GRYIGPVCRLCRREGVKLYLKGERCYSPKCAMERRPYPPGQHGQKRARRP
SDYAVRLREKQKLRRIYGISERQFRNLFEEASKKKGVTGSVFLGLLESRL
DNVVYRLGFAVSRRQARQLVRHGHITVNGRRVDLPSYRVRPGDEIAVAEK
SRNLELIRQNLEAMKGRKVGPWLSLDVEGMKGKFLRLPDREDLALPVNEQ
LVIEFYSR

3D structure

• PDB: 4v97 Reorganization of an intersubunit bridge induced by disparate 16S ribosomal ambiguity mutations mimics an EF-Tu-bound state.
• Chain: CD
• Resolution: 3.516 Å

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	CD	G2 R3 I5 P7 C9 R10 R13 R14 E24 R25 K30 R35 R36 G41 Q42 H43 Q45 K46 S52 R59 Q62 E72 R73 Q74 S113 R115 Q116 Q119 R122 H123 H125 R132 V133 D134 L135 S137 R141 E205 S208 R209	G1 R2 I4 P6 C8 R9 R12 R13 E23 R24 K29 R34 R35 G40 Q41 H42 Q44 K45 S51 R58 Q61 E71 R72 Q73 S112 R114 Q115 Q118 R121 H122 H124 R131 V132 D133 L134 S136 R140 E204 S207 R208
BS02	ZN	CD	K22 C26 C31	K21 C25 C30

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

External links

• PDB: RCSB:4v97, PDBe:4v97, PDBj:4v97
• PDBsum: 4v97
• PubMed: 23630274
• UniProt: P80373|RS4_THET8 Small ribosomal subunit protein uS4 (Gene Name=rpsD)