Structure of PDB 7abz Chain 6

Receptor sequence

>7abz6 (length=371) Species: 83333 (Escherichia coli K-12)

SKEKFERTKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGNTSHVEYDTP
TRHYAHVDCPGHADYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLG
RQVGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRG
SALKALEGDAEWEAKILELAGFLDSYIPEPERAIDKPFLLPIEDVFSISG
RGTVVTGRVERGIIKVGEEVEIVGIKETQKSTCTGVEMFRKLLDEGRAGE
NVGVLLRGIKREEIERGQVLAKPGTIKPHTKFESEVYILSKDEGGRHTPF
FKGYRPQFYFRTTDVTGTIELPEGVEMVMPGDNIKMVVTLIHPIAMDDGL
RFAIREGGRTVGAGVVAKVLS

3D structure

• PDB: 7abz Structures of tmRNA and SmpB as they transit through the ribosome.
• Chain: 6
• Resolution: 3.21 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	6	S221 G222 R223 R279	S199 G200 R201 R257
BS02	rna	6	D86 Y87 F218 V226 E259 F261 R262 L277 R288 R318 H319 T320 F323 G325 Y326 R327 Q329 E378 G379 G380	D64 Y65 F196 V204 E237 F239 R240 L255 R266 R296 H297 T298 F301 G303 Y304 R305 Q307 E356 G357 G358
BS03	KIR	6	I92 R123 Q124 V125 Y160 D161 D314 E315 R373 F374 A375 G384 A385	I70 R101 Q102 V103 Y138 D139 D292 E293 R351 F352 A353 G362 A363
BS04	GDP	6	V20 D21 G23 K24 T25 K136 S173 A174 L175	V20 D21 G23 K24 T25 K114 S151 A152 L153

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003746 translation elongation factor activity
• GO:0003924 GTPase activity
• GO:0005515 protein binding
• GO:0005525 GTP binding
• GO:0097216 guanosine tetraphosphate binding

Biological Process

• GO:0006412 translation
• GO:0006414 translational elongation
• GO:0046677 response to antibiotic

Cellular Component

• GO:0005737 cytoplasm
• GO:0005886 plasma membrane
• GO:0032045 guanyl-nucleotide exchange factor complex

External links

• PDB: RCSB:7abz, PDBe:7abz, PDBj:7abz
• PDBsum: 7abz
• PubMed: 34389707
• UniProt: P0CE48|EFTU2_ECOLI Elongation factor Tu 2 (Gene Name=tufB)