Structure of PDB 5fdv Chain 1t

Receptor sequence

>5fdv1t (length=96) Species: 300852 (Thermus thermophilus HB8)

RNLSALKRHRQSLKRRLRNKAKKSAIKTLSKKAIQLAQEGKAEEALKIMR
KAESLIDKAAKGSTLHKNAAARRKSRLMRKVRQLLEAAGAPLIGGG

3D structure

• PDB: 5fdv Structure of the mammalian antimicrobial peptide Bac7(1-16) bound within the exit tunnel of a bacterial ribosome.
• Chain: 1t
• Resolution: 2.8 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	1t	L10 K14 R15 H16 R17 S19 R22 R23 R25 N26 K29 S31 A32 T35 E51 K54 R57 E60 S61 D64 K65 K68 S70 H73 K74 N75 A78 R79 K81 S82 R83 M85 R89 G101 G102 G103	L3 K7 R8 H9 R10 S12 R15 R16 R18 N19 K22 S24 A25 T28 E44 K47 R50 E53 S54 D57 K58 K61 S63 H66 K67 N68 A71 R72 K74 S75 R76 M78 R82 G94 G95 G96
BS02	MG	1t	A67 G69	A60 G62

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding
• GO:0070181 small ribosomal subunit rRNA binding

Biological Process

• GO:0006412 translation

Cellular Component

• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5fdv, PDBe:5fdv, PDBj:5fdv
• PDBsum: 5fdv
• PubMed: 26792896
• UniProt: P80380|RS20_THET8 Small ribosomal subunit protein bS20 (Gene Name=rpsT)