HL_9DOU_001

3D structure

PDB id

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

Description

Taeniopygia guttata R2 retrotransposon (R2Tg) initiating target-primed reverse transcription

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

GACGGGC

Length

7 nucleotides

Bulged bases

None detected

QA status

Valid loop

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_9DOU_001 not in the Motif Atlas

Geometric match to HL_4AOB_001

Geometric discrepancy: 0.1956

The information below is about HL_4AOB_001

Detailed Annotation

Pseudoknot geometry

Broad Annotation

No text annotation

Motif group

HL_30680.5

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

16

Unit IDs

9DOU|1|R|G|265
9DOU|1|R|A|266
9DOU|1|R|C|267
9DOU|1|R|G|268
9DOU|1|R|G|269
9DOU|1|R|G|270
9DOU|1|R|C|271

Current chains

Chain R

R2Tg 3'UTR RNA

Nearby chains

Chain A

R2Tg retrotransposon ORF

Chain T

28S DNA top strand