J3_4UJD_023

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

CCAG*CCAGUAA*UGAUUAAG

Length

19 nucleotides

Bulged bases

4UJD|1|C1|G|1648, 4UJD|1|C1|A|1679

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

J3_4UJD_023 not in the Motif Atlas

Homologous match to J3_8C3A_038

Geometric discrepancy: 0.5924

The information below is about J3_8C3A_038

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_25303.2

Basepair signature

cWW-tSH-tHW-cSH-cSS-tHH-cSS-tWW-F-tHS-cWW-cWW

Number of instances in this motif group

5

Unit IDs

4UJD|1|C1|C|1218
4UJD|1|C1|C|1219
4UJD|1|C1|A|1220
4UJD|1|C1|G|1221
*
4UJD|1|C1|C|1645
4UJD|1|C1|C|1646
4UJD|1|C1|A|1647
4UJD|1|C1|G|1648
4UJD|1|C1|U|1649
4UJD|1|C1|A|1650
4UJD|1|C1|A|1651
*
4UJD|1|C1|U|1673
4UJD|1|C1|G|1674
4UJD|1|C1|A|1675
4UJD|1|C1|U|1676
4UJD|1|C1|U|1677
4UJD|1|C1|A|1678
4UJD|1|C1|A|1679
4UJD|1|C1|G|1680

Current chains

Chain C1

18S Ribosomal RNA

Nearby chains

Chain CF

40S RIBOSOMAL PROTEIN US7

Chain CQ

40S RIBOSOMAL PROTEIN US9

Chain Cc

40S RIBOSOMAL PROTEIN ES28