HL_5AFI_104

3D structure

PDB id

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

Description

2.9A Structure of E. coli ribosome-EF-TU complex by cs-corrected cryo-EM

Experimental method

ELECTRON MICROSCOPY

Resolution

2.9 Å

Loop

Sequence

CAGCCGG(H2U)AG*G

Length

11 nucleotides

Bulged bases

5AFI|1|w|C|17||||P_1, 5AFI|1|w|G|18||||P_1, 5AFI|1|w|G|19||||P_1

QA status

Missing nucleotides

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

HL_5AFI_104 not in the Motif Atlas

Homologous match to HL_1QF6_001

Geometric discrepancy: 0.2332

The information below is about HL_1QF6_001

Detailed Annotation

tRNA D-loop

Broad Annotation

No text annotation

Motif group

HL_20811.4

Basepair signature

cWW-cWS-F

Number of instances in this motif group

14

Unit IDs

5AFI|1|w|C|13||||P_1
5AFI|1|w|A|14||||P_1
5AFI|1|w|G|15||||P_1
5AFI|1|w|C|16||||P_1
5AFI|1|w|C|17||||P_1
5AFI|1|w|G|18||||P_1
5AFI|1|w|G|19||||P_1
5AFI|1|w|H2U|20||||P_1
5AFI|1|w|A|21||||P_1
5AFI|1|w|G|22||||P_1
*
5AFI|1|w|G|22||||P_1

Current chains

Chain w

P-site fMet-tRNAfMet

Nearby chains

Chain A

Large subunit ribosomal RNA; LSU rRNA