HL_4UJD_007

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

GUGUGAGGC

Length

9 nucleotides

Bulged bases

4UJD|1|A2|G|229, 4UJD|1|A2|U|230, 4UJD|1|A2|G|231

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_007 not in the Motif Atlas

Homologous match to HL_8C3A_007

Geometric discrepancy: 0.1837

The information below is about HL_8C3A_007

Detailed Annotation

T-loop with unstacked turn

Broad Annotation

T-loop

Motif group

HL_08002.12

Basepair signature

cWW-cWW-F-tWH

Number of instances in this motif group

16

Unit IDs

4UJD|1|A2|G|227
4UJD|1|A2|U|228
4UJD|1|A2|G|229
4UJD|1|A2|U|230
4UJD|1|A2|G|231
4UJD|1|A2|A|232
4UJD|1|A2|G|233
4UJD|1|A2|G|234
4UJD|1|A2|C|235

Current chains

Chain A2

28S Ribosomal RNA

Nearby chains

Chain A3

5.8S ribosomal RNA; 5.8S rRNA

Chain AC

60S RIBOSOMAL PROTEIN L4

Chain AY

60S RIBOSOMAL PROTEIN L26