J4_5KCS_016

3D structure

PDB id

5KCS (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the Escherichia coli 70S ribosome in complex with antibiotic Evernimycin, mRNA, TetM and P-site tRNA at 3.9A resolution

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

GCG*CGAAAG*CCGUAAACGAUG*CC

Length

23 nucleotides

Bulged bases

5KCS|1|1a|C|576, 5KCS|1|1a|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_5KCS_016 not in the Motif Atlas

Homologous match to J4_5J7L_003

Geometric discrepancy: 0.1203

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

5KCS|1|1a|G|575
5KCS|1|1a|C|576
5KCS|1|1a|G|577
*
5KCS|1|1a|C|764
5KCS|1|1a|G|765
5KCS|1|1a|A|766
5KCS|1|1a|A|767
5KCS|1|1a|A|768
5KCS|1|1a|G|769
*
5KCS|1|1a|C|810
5KCS|1|1a|C|811
5KCS|1|1a|G|812
5KCS|1|1a|U|813
5KCS|1|1a|A|814
5KCS|1|1a|A|815
5KCS|1|1a|A|816
5KCS|1|1a|C|817
5KCS|1|1a|G|818
5KCS|1|1a|A|819
5KCS|1|1a|U|820
5KCS|1|1a|G|821
*
5KCS|1|1a|C|879
5KCS|1|1a|C|880

Current chains

Chain 1a

16S Ribosomal RNA

Nearby chains

Chain 1A

Large subunit ribosomal RNA; LSU rRNA

Chain 1h

30S ribosomal protein S8

Chain 1k

30S ribosomal protein S11

Chain 1l

30S ribosomal protein S12

Chain 1o

30S ribosomal protein S15

Chain 1q

30S ribosomal protein S17

Chain 1u

30S ribosomal protein S21