HL_9YPO_004

3D structure

PDB id

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

Description

GTPBP1*GCP*Phe-tRNA*ribosome in the open state, Structure IIa

Experimental method

ELECTRON MICROSCOPY

Resolution

3 Å

Loop

Sequence

CAGUUGGGAG

Length

10 nucleotides

Bulged bases

9YPO|1|12|U|17, 9YPO|1|12|G|18, 9YPO|1|12|G|19, 9YPO|1|12|G|20

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_9YPO_004 not in the Motif Atlas

Homologous match to HL_1QF6_001

Geometric discrepancy: 0.1923

The information below is about HL_1QF6_001

Detailed Annotation

tRNA D-loop

Broad Annotation

No text annotation

Motif group

HL_20490.1

Basepair signature

cWW-cWS-F

Number of instances in this motif group

13

Unit IDs

9YPO|1|12|C|13
9YPO|1|12|A|14
9YPO|1|12|G|15
9YPO|1|12|U|16
9YPO|1|12|U|17
9YPO|1|12|G|18
9YPO|1|12|G|19
9YPO|1|12|G|20
9YPO|1|12|A|21
9YPO|1|12|G|22

Current chains

Chain 12

Phe-tRNA

Nearby chains

Chain 5

Large subunit ribosomal RNA; LSU rRNA