J4_9YPZ_001

3D structure

PDB id

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

Description

Vacant ribosome with P-site tRNA, substate 1, Structure Ia

Experimental method

ELECTRON MICROSCOPY

Resolution

2.9 Å

Loop

Sequence

GUGG*UGC*GAGGUCG*CC

Length

16 nucleotides

Bulged bases

9YPZ|1|11|U|9, 9YPZ|1|11|U|47, 9YPZ|1|11|C|48

QA status

Unknown status

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

J4_9YPZ_001 not in the Motif Atlas

Homologous match to J4_5AXM_001

Geometric discrepancy: 0.221

The information below is about J4_5AXM_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_95067.1

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

48

Unit IDs

9YPZ|1|11|G|8
9YPZ|1|11|U|9
9YPZ|1|11|G|10
9YPZ|1|11|G|11
*
9YPZ|1|11|U|25
9YPZ|1|11|G|26
9YPZ|1|11|C|27
*
9YPZ|1|11|G|43
9YPZ|1|11|A|44
9YPZ|1|11|G|45
9YPZ|1|11|G|46
9YPZ|1|11|U|47
9YPZ|1|11|C|48
9YPZ|1|11|G|49
*
9YPZ|1|11|C|65
9YPZ|1|11|C|66

Current chains

Chain 11

Met-tRNA

Nearby chains

Chain FF

Ribosomal protein S5

Chain OO

Small ribosomal subunit protein uS11

Chain o

Large ribosomal subunit protein eL42