Structure of PDB 4v6m Chain BD

Receptor sequence

>4v6mBD (length=209) Species: 83333 (Escherichia coli K-12)

MIGLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLANDGYRAIQV
TTGAKKANRVTKPEAGHFAKAGVEAGRGLWEFRLAEGEEFTVGQSISVEL
FADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQ
TPGKVFKGKKMAGQMGNERVTVQSLDVVRVDAERNLLLVKGAVPGATGSD
LIVKPAVKA

3D structure

• PDB: 4v6m Cryo-EM structure of the ribosome-SecYE complex in the membrane environment.
• Chain: BD
• 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	BD	M11 T12 R13 P23 K38 Y45 K55 K56 R59 T61 K62 P63 E64 K70 L79 E81 R83 K114 G115 K116 F118 K123 F127 R128 T129 Q130 D131 T133 H134 G135 N136 S137 L138 S139 H140 R141 V142 P143 G144 S145 I146 G147 Q148 N149 Q150 T151 P152 G153 K154 V155 K157 K159 K160 M161 A162 G163 Q164 M165 N167 E168 R169 V172 Q173 S174 L175 K190 A192 V193 P194 G195 A196 T197 G198 K208 A209	M11 T12 R13 P23 K38 Y45 K55 K56 R59 T61 K62 P63 E64 K70 L79 E81 R83 K114 G115 K116 F118 K123 F127 R128 T129 Q130 D131 T133 H134 G135 N136 S137 L138 S139 H140 R141 V142 P143 G144 S145 I146 G147 Q148 N149 Q150 T151 P152 G153 K154 V155 K157 K159 K160 M161 A162 G163 Q164 M165 N167 E168 R169 V172 Q173 S174 L175 K190 A192 V193 P194 G195 A196 T197 G198 K208 A209

Gene Ontology

Molecular Function

• GO:0003735 structural constituent of ribosome
• GO:0005515 protein 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: P60438|RL3_ECOLI Large ribosomal subunit protein uL3 (Gene Name=rplC)