J5_8EVS_006

3D structure

PDB id

8EVS (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES), eEF2 and GDP, Structure II

Experimental method

ELECTRON MICROSCOPY

Resolution

2.62 Å

Loop

Sequence

U(OMU)GA*UUUG*CA*UG*CAGAAAA

Length

19 nucleotides

Bulged bases

8EVS|1|A1|G|2418, 8EVS|1|A1|A|2799, 8EVS|1|A1|G|2800, 8EVS|1|A1|A|2801, 8EVS|1|A1|A|2802

QA status

Modified nucleotides: OMU

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

J5_8EVS_006 not in the Motif Atlas

Homologous match to J5_8P9A_015

Geometric discrepancy: 0.2427

The information below is about J5_8P9A_015

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_08912.1

Basepair signature

cWW-cWH-cWH-tSS-cWW-cWW-cWW-F-cWW

Number of instances in this motif group

3

Unit IDs

8EVS|1|A1|U|2416
8EVS|1|A1|OMU|2417
8EVS|1|A1|G|2418
8EVS|1|A1|A|2419
*
8EVS|1|A1|U|2611
8EVS|1|A1|U|2612
8EVS|1|A1|U|2613
8EVS|1|A1|G|2614
*
8EVS|1|A1|C|2627
8EVS|1|A1|A|2628
*
8EVS|1|A1|U|2650
8EVS|1|A1|G|2651
*
8EVS|1|A1|C|2798
8EVS|1|A1|A|2799
8EVS|1|A1|G|2800
8EVS|1|A1|A|2801
8EVS|1|A1|A|2802
8EVS|1|A1|A|2803
8EVS|1|A1|A|2804

Current chains

Chain A1

25S rRNA

Nearby chains

Chain AA

60S ribosomal protein L2-A

Chain AN

60S ribosomal protein L15-A

Chain AQ

60S ribosomal protein L18-A

Chain AT

60S ribosomal protein L21-A

Chain Aa

60S ribosomal protein L28

Chain Ab

RPL29 isoform 1

Chain Ao

60S ribosomal protein L42-A