HL_9DOV_046

3D structure

PDB id

9DOV (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES) and hygromycin B

Experimental method

ELECTRON MICROSCOPY

Resolution

2.49 Å

Loop

Sequence

A(A2M)GAAAUU

Length

8 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: A2M

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

HL_9DOV_046 not in the Motif Atlas

Geometric match to HL_3RG5_006

Geometric discrepancy: 0.2516

The information below is about HL_3RG5_006

Detailed Annotation

tRNA anticodon loop

Broad Annotation

tRNA anticodon loop

Motif group

HL_87268.5

Basepair signature

cWW-F-F-F-F-F-F

Number of instances in this motif group

17

Unit IDs

9DOV|1|A1|A|2219
9DOV|1|A1|A2M|2220
9DOV|1|A1|G|2221
9DOV|1|A1|A|2222
9DOV|1|A1|A|2223
9DOV|1|A1|A|2224
9DOV|1|A1|U|2225
9DOV|1|A1|U|2226

Current chains

Chain A1

25S rRNA

Nearby chains

Chain Ai

60S ribosomal protein L36-A

Chain Ao

60S ribosomal protein L42-A

Chain E

Large ribosomal subunit protein uL1A