IL_9YPV_081

3D structure

PDB id

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

Description

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

Experimental method

ELECTRON MICROSCOPY

Resolution

3 Å

Loop

Sequence

GAGUG*CUC

Length

8 nucleotides

Bulged bases

9YPV|1|5|A|2002

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

IL_9YPV_081 not in the Motif Atlas

Geometric match to IL_5D8H_003

Geometric discrepancy: 0.115

The information below is about IL_5D8H_003

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_36931.4

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

25

Unit IDs

9YPV|1|5|G|2001
9YPV|1|5|A|2002
9YPV|1|5|G|2003
9YPV|1|5|U|2004
9YPV|1|5|G|2005
*
9YPV|1|5|C|2014
9YPV|1|5|U|2015
9YPV|1|5|C|2016

Current chains

Chain 5

28S ribosomal RNA

Nearby chains

Chain I

60S ribosomal protein L10