J5_4UJD_001

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

CCAGCGCCGAAUCCC*GACAUGUGGCGUACG*CCGGAGUCG*CAAAGCG*UAAG

Length

50 nucleotides

Bulged bases

4UJD|1|A2|G|116, 4UJD|1|A2|G|119, 4UJD|1|A2|A|120, 4UJD|1|A2|G|148, 4UJD|1|A2|U|149, 4UJD|1|A2|A|155, 4UJD|1|A2|C|156, 4UJD|1|A2|C|300

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

4UJD|1|A2|C|111
4UJD|1|A2|C|112
4UJD|1|A2|A|113
4UJD|1|A2|G|114
4UJD|1|A2|C|115
4UJD|1|A2|G|116
4UJD|1|A2|C|117
4UJD|1|A2|C|118
4UJD|1|A2|G|119
4UJD|1|A2|A|120
4UJD|1|A2|A|121
4UJD|1|A2|U|122
4UJD|1|A2|C|123
4UJD|1|A2|C|124
4UJD|1|A2|C|125
*
4UJD|1|A2|G|143
4UJD|1|A2|A|144
4UJD|1|A2|C|145
4UJD|1|A2|A|146
4UJD|1|A2|U|147
4UJD|1|A2|G|148
4UJD|1|A2|U|149
4UJD|1|A2|G|150
4UJD|1|A2|G|151
4UJD|1|A2|C|152
4UJD|1|A2|G|153
4UJD|1|A2|U|154
4UJD|1|A2|A|155
4UJD|1|A2|C|156
4UJD|1|A2|G|157
*
4UJD|1|A2|C|266
4UJD|1|A2|C|267
4UJD|1|A2|G|268
4UJD|1|A2|G|269
4UJD|1|A2|A|270
4UJD|1|A2|G|271
4UJD|1|A2|U|272
4UJD|1|A2|C|273
4UJD|1|A2|G|274
*
4UJD|1|A2|C|295
4UJD|1|A2|A|296
4UJD|1|A2|A|297
4UJD|1|A2|A|298
4UJD|1|A2|G|299
4UJD|1|A2|C|300
4UJD|1|A2|G|301
*
4UJD|1|A2|U|318
4UJD|1|A2|A|319
4UJD|1|A2|A|320
4UJD|1|A2|G|321

Current chains

Chain A2

28S Ribosomal RNA

Nearby chains

Chain A3

5.8S ribosomal RNA; 5.8S rRNA

Chain AG

60S RIBOSOMAL PROTEIN L7A

Chain AL

60S RIBOSOMAL PROTEIN L13

Chain AN

60S RIBOSOMAL PROTEIN L15

Chain Ah

60S RIBOSOMAL PROTEIN L35

Chain Ai

60S RIBOSOMAL PROTEIN L36