J5_4UJD_004

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

AGAAGACC*GGAUAACUGGCU*GAUCCUUCGAUGU*GUUUAGA*UUAGUUU

Length

47 nucleotides

Bulged bases

4UJD|1|A2|A|3875, 4UJD|1|A2|A|4354, 4UJD|1|A2|U|4355, 4UJD|1|A2|G|4408, 4UJD|1|A2|U|4410, 4UJD|1|A2|U|4515

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|A|3872
4UJD|1|A2|G|3873
4UJD|1|A2|A|3874
4UJD|1|A2|A|3875
4UJD|1|A2|G|3876
4UJD|1|A2|A|3877
4UJD|1|A2|C|3878
4UJD|1|A2|C|3879
*
4UJD|1|A2|G|4352
4UJD|1|A2|G|4353
4UJD|1|A2|A|4354
4UJD|1|A2|U|4355
4UJD|1|A2|A|4356
4UJD|1|A2|A|4357
4UJD|1|A2|C|4358
4UJD|1|A2|U|4359
4UJD|1|A2|G|4360
4UJD|1|A2|G|4361
4UJD|1|A2|C|4362
4UJD|1|A2|U|4363
*
4UJD|1|A2|G|4400
4UJD|1|A2|A|4401
4UJD|1|A2|U|4402
4UJD|1|A2|C|4403
4UJD|1|A2|C|4404
4UJD|1|A2|U|4405
4UJD|1|A2|U|4406
4UJD|1|A2|C|4407
4UJD|1|A2|G|4408
4UJD|1|A2|A|4409
4UJD|1|A2|U|4410
4UJD|1|A2|G|4411
4UJD|1|A2|U|4412
*
4UJD|1|A2|G|4489
4UJD|1|A2|U|4490
4UJD|1|A2|U|4491
4UJD|1|A2|U|4492
4UJD|1|A2|A|4493
4UJD|1|A2|G|4494
4UJD|1|A2|A|4495
*
4UJD|1|A2|U|4511
4UJD|1|A2|U|4512
4UJD|1|A2|A|4513
4UJD|1|A2|G|4514
4UJD|1|A2|U|4515
4UJD|1|A2|U|4516
4UJD|1|A2|U|4517

Current chains

Chain A2

28S Ribosomal RNA

Nearby chains

Chain AA

60S RIBOSOMAL PROTEIN L8

Chain AB

60S RIBOSOMAL PROTEIN L3

Chain AC

60S RIBOSOMAL PROTEIN L4

Chain AI

60S RIBOSOMAL PROTEIN L10

Chain AP

60S RIBOSOMAL PROTEIN L17

Chain Ab

60S RIBOSOMAL PROTEIN L29

Chain BB

EIF5B