IL_4UJD_102

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

GAA*UACC

Length

7 nucleotides

Bulged bases

4UJD|1|A2|A|3870, 4UJD|1|A2|C|4520

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

IL_4UJD_102 not in the Motif Atlas

Homologous match to IL_5TBW_092

Geometric discrepancy: 0.3328

The information below is about IL_5TBW_092

Detailed Annotation

Major groove platform with intercalation

Broad Annotation

Major groove platform

Motif group

IL_54678.7

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

5

Unit IDs

4UJD|1|A2|G|3869
4UJD|1|A2|A|3870
4UJD|1|A2|A|3871
*
4UJD|1|A2|U|4518
4UJD|1|A2|A|4519
4UJD|1|A2|C|4520
4UJD|1|A2|C|4521

Current chains

Chain A2

28S Ribosomal RNA

Nearby chains

Chain AB

60S RIBOSOMAL PROTEIN L3

Chain AP

60S RIBOSOMAL PROTEIN L17