HL_5AFI_115

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

G(5MU)(PSU)CAAAUC

Length

9 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: 5MU, PSU

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_115 not in the Motif Atlas

Homologous match to HL_5UD5_003

Geometric discrepancy: 0.2965

The information below is about HL_5UD5_003

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_33597.1

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

96

Unit IDs

5AFI|1|w|G|53||||P_1
5AFI|1|w|5MU|54||||P_1
5AFI|1|w|PSU|55||||P_1
5AFI|1|w|C|56||||P_1
5AFI|1|w|A|57||||P_1
5AFI|1|w|A|58||||P_1
5AFI|1|w|A|59||||P_1
5AFI|1|w|U|60||||P_1
5AFI|1|w|C|61||||P_1

Current chains

Chain w

P-site fMet-tRNAfMet

Nearby chains

Chain A

Large subunit ribosomal RNA; LSU rRNA