J5_9GXX_004

3D structure

PDB id

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

Description

70S ribosome with doublet-decoding tRNASer3 bound to A-site GCA codon

Experimental method

ELECTRON MICROSCOPY

Resolution

2.61 Å

Loop

Sequence

G(4SU)GG*CG*UA*UCC*GC

Length

13 nucleotides

Bulged bases

9GXX|1|Y|4SU|8, 9GXX|1|Y|G|9, 9GXX|1|Y|C|48

QA status

Modified nucleotides: 4SU

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_9GXX_004 not in the Motif Atlas

Homologous match to J5_9QRP_001

Geometric discrepancy: 0.2868

The information below is about J5_9QRP_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_40900.1

Basepair signature

cWW-cWW-cWW-cWW-cWW

Number of instances in this motif group

3

Unit IDs

9GXX|1|Y|G|7
9GXX|1|Y|4SU|8
9GXX|1|Y|G|9
9GXX|1|Y|G|10
*
9GXX|1|Y|C|25
9GXX|1|Y|G|26
*
9GXX|1|Y|U|44
9GXX|1|Y|A|45
*
9GXX|1|Y|U|47|||P
9GXX|1|Y|C|48
9GXX|1|Y|C|49
*
9GXX|1|Y|G|65
9GXX|1|Y|C|66

Current chains

Chain Y

tRNA(Ser3)

Nearby chains

Chain a

Large subunit ribosomal RNA; LSU rRNA