J4_7NRD_012

3D structure

PDB id

7NRD (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the yeast Gcn1 bound to a colliding stalled 80S ribosome with MBF1, A/P-tRNA and P/E-tRNA

Experimental method

ELECTRON MICROSCOPY

Resolution

4.36 Å

Loop

Sequence

GUGG*CGU*AAGGUCG*CC

Length

16 nucleotides

Bulged bases

7NRD|1|Sm|U|8, 7NRD|1|Sm|U|48, 7NRD|1|Sm|C|49

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_7NRD_012 not in the Motif Atlas

Homologous match to J4_6JXM_001

Geometric discrepancy: 0.1955

The information below is about J4_6JXM_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

7NRD|1|Sm|G|7
7NRD|1|Sm|U|8
7NRD|1|Sm|G|9
7NRD|1|Sm|G|10
*
7NRD|1|Sm|C|26
7NRD|1|Sm|G|27
7NRD|1|Sm|U|28
*
7NRD|1|Sm|A|44
7NRD|1|Sm|A|45
7NRD|1|Sm|G|46
7NRD|1|Sm|G|47
7NRD|1|Sm|U|48
7NRD|1|Sm|C|49
7NRD|1|Sm|G|50
*
7NRD|1|Sm|C|66
7NRD|1|Sm|C|67

Current chains

Chain Sm

tRNA (77-MER)

Nearby chains

Chain LA

Large subunit ribosomal RNA; LSU rRNA

Chain Lq

60S ribosomal protein L42-A

Chain S2

Small subunit ribosomal RNA; SSU rRNA

Chain SH

40S ribosomal protein S18-A