Structure of PDB 5gag Chain F

Receptor sequence

>5gagF (length=177) Species: 562 (Escherichia coli)

AKLHDYYKDEVVKKLMTEFNYNSVMQVPRVEKITLNMGVGEAIADKKLLD
NAAADLAAISGQKPLITKARKSVAGFKIRQGYPIGCKVTLRGERMWEFFE
RLITIAVPRIRDFRGLSAKSFDGRGNYSMGVREQIIFPEIDYDKVDRVRG
LDITITTTAKSDEEGRALLAAFDFPFR

3D structure

• PDB: 5gag Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon.
• Chain: F
• Resolution: 3.8 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	F	K33 T35 N37 G39 V40 G41 T68 R71 F77 I85 K88 S121 F122 D123 R125 S129 G131 R133 G151 L152 D153 T155 T157	K32 T34 N36 G38 V39 G40 T67 R70 F76 I84 K87 S120 F121 D122 R124 S128 G130 R132 G150 L151 D152 T154 T156
BS02	rna	F	S24 M26 Q27 Q63 K64 L66 K69 V89 T90 R92	S23 M25 Q26 Q62 K63 L65 K68 V88 T89 R91

Gene Ontology

Molecular Function

• GO:0000049 tRNA binding
• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0008097 5S rRNA binding
• GO:0019843 rRNA binding

Biological Process

• GO:0000027 ribosomal large subunit assembly
• GO:0002181 cytoplasmic translation
• GO:0006412 translation

Cellular Component

• GO:0005737 cytoplasm
• GO:0005829 cytosol
• GO:0005840 ribosome
• GO:0022625 cytosolic large ribosomal subunit
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:5gag, PDBe:5gag, PDBj:5gag
• PDBsum: 5gag
• PubMed: 26804923
• UniProt: P62399|RL5_ECOLI Large ribosomal subunit protein uL5 (Gene Name=rplE)