J4_8SYL_014

3D structure

PDB id

8SYL (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the Escherichia coli 70S ribosome in complex with amikacin, mRNA, and A-, P-, and E-site tRNAs

Experimental method

ELECTRON MICROSCOPY

Resolution

2.9 Å

Loop

Sequence

GCG*CGAAAG*CCGUAAACGAUG*CC

Length

23 nucleotides

Bulged bases

8SYL|1|a|C|576, 8SYL|1|a|A|815

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

J4_8SYL_014 not in the Motif Atlas

Homologous match to J4_5J7L_003

Geometric discrepancy: 0.063

The information below is about J4_5J7L_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61885.6

Basepair signature

cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F

Number of instances in this motif group

4

Unit IDs

8SYL|1|a|G|575
8SYL|1|a|C|576
8SYL|1|a|G|577
*
8SYL|1|a|C|764
8SYL|1|a|G|765
8SYL|1|a|A|766
8SYL|1|a|A|767
8SYL|1|a|A|768
8SYL|1|a|G|769
*
8SYL|1|a|C|810
8SYL|1|a|C|811
8SYL|1|a|G|812
8SYL|1|a|U|813
8SYL|1|a|A|814
8SYL|1|a|A|815
8SYL|1|a|A|816
8SYL|1|a|C|817
8SYL|1|a|G|818
8SYL|1|a|A|819
8SYL|1|a|U|820
8SYL|1|a|G|821
*
8SYL|1|a|C|879
8SYL|1|a|C|880

Current chains

Chain a

16S Ribosomal RNA

Nearby chains

Chain A

Large subunit ribosomal RNA; LSU rRNA

Chain h

30S ribosomal protein S8

Chain l

30S ribosomal protein S12

Chain o

30S ribosomal protein S15

Chain q

30S ribosomal protein S17

Chain u

30S ribosomal protein S21