J4_8EKC_015

3D structure

PDB id

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

Description

Escherichia coli 70S ribosome bound to thermorubin, deacylated P-site tRNAfMet and aminoacylated A-site Phe-tRNA

Experimental method

ELECTRON MICROSCOPY

Resolution

2.7 Å

Loop

Sequence

A(4SU)AG*CAG*CGU(7MG)UCC*GU

Length

16 nucleotides

Bulged bases

8EKC|1|w|4SU|8, 8EKC|1|w|U|47, 8EKC|1|w|C|48

QA status

Modified nucleotides: 4SU, 7MG

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_8EKC_015 not in the Motif Atlas

Homologous match to J4_3TUP_001

Geometric discrepancy: 0.2359

The information below is about J4_3TUP_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_95067.1

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

48

Unit IDs

8EKC|1|w|A|7
8EKC|1|w|4SU|8
8EKC|1|w|A|9
8EKC|1|w|G|10
*
8EKC|1|w|C|25
8EKC|1|w|A|26
8EKC|1|w|G|27
*
8EKC|1|w|C|43
8EKC|1|w|G|44
8EKC|1|w|U|45
8EKC|1|w|7MG|46
8EKC|1|w|U|47
8EKC|1|w|C|48
8EKC|1|w|C|49
*
8EKC|1|w|G|65
8EKC|1|w|U|66

Current chains

Chain w

A-site phenylalanine tRNA

Nearby chains

Chain A

Large subunit ribosomal RNA; LSU rRNA

Chain a

Small subunit ribosomal RNA; SSU rRNA