Structure of PDB 4v6m Chain BF

Receptor sequence

>4v6mBF (length=178) Species: 83333 (Escherichia coli K-12)

AKLHDYYKDEVVKKLMTEFNYNSVMQVPRVEKITLNMGVGEAIADKKLLD
NAAADLAAISGQKPLITKARKSVAGFKIRQGYPIGCKVTLRGERMWEFFE
RLITIAVPRIRDFRGLSAKSFDGRGNYSMGVREQIIFPEIDYDKVDRVRG
LDITITTTAKSDEEGRALLAAFDFPFRK

3D structure

• PDB: 4v6m Cryo-EM structure of the ribosome-SecYE complex in the membrane environment.
• Chain: BF
• Resolution: 7.1 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	BF	K77 R79	K77 R79
BS02	rna	BF	N22 S23 M25 Q26 K32 L65 V88 T89 R91 K160	N22 S23 M25 Q26 K32 L65 V88 T89 R91 K160
BS03	rna	BF	N36 M37 G38 G40 E41 T67 K68 A69 R70 K71 S72 V73 A74 G75 F76 K77 I78 I84 G85 S117 K119 S120 D122 G123 S128 M129 G130 R132 V148 R149 G150 L151 D152 K178	N36 M37 G38 G40 E41 T67 K68 A69 R70 K71 S72 V73 A74 G75 F76 K77 I78 I84 G85 S117 K119 S120 D122 G123 S128 M129 G130 R132 V148 R149 G150 L151 D152 K178

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:4v6m, PDBe:4v6m, PDBj:4v6m
• PDBsum: 4v6m
• PubMed: 21499241
• UniProt: P62399|RL5_ECOLI Large ribosomal subunit protein uL5 (Gene Name=rplE)