HL_4UJD_031

3D structure

PDB id

4UJD (explore in PDB, NAKB, or RNA 3D Hub)

Description

mammalian 80S HCV-IRES initiation complex with eIF5B PRE-like state

Experimental method

ELECTRON MICROSCOPY

Resolution

8.9 Å

Loop

Sequence

ACGAGAACU

Length

9 nucleotides

Bulged bases

4UJD|1|A2|A|2359, 4UJD|1|A2|C|2360

QA status

Unknown status

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_4UJD_031 not in the Motif Atlas

Homologous match to HL_5TBW_031

Geometric discrepancy: 0.2075

The information below is about HL_5TBW_031

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_43993.1

Basepair signature

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

Number of instances in this motif group

141

Unit IDs

4UJD|1|A2|A|2353
4UJD|1|A2|C|2354
4UJD|1|A2|G|2355
4UJD|1|A2|A|2356
4UJD|1|A2|G|2357
4UJD|1|A2|A|2358
4UJD|1|A2|A|2359
4UJD|1|A2|C|2360
4UJD|1|A2|U|2361

Current chains

Chain A2

28S Ribosomal RNA

Nearby chains

Chain AR

60S RIBOSOMAL PROTEIN L19

Chain Ad

60S RIBOSOMAL PROTEIN L31