J5_7NRD_003

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

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

7NRD|1|LA|U|719, 7NRD|1|LA|A|784, 7NRD|1|LA|G|785

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

J5_7NRD_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.107

The information below is about J5_8P9A_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_56629.1

Basepair signature

cWW-F-F-tSS-F-cWW-cWW-F-F-cWW-F-cWW-F-F-F-F-F-F

Number of instances in this motif group

3

Unit IDs

7NRD|1|LA|C|675
7NRD|1|LA|G|676
7NRD|1|LA|A|677
7NRD|1|LA|G|678
*
7NRD|1|LA|C|702
7NRD|1|LA|G|703
7NRD|1|LA|U|704
7NRD|1|LA|A|705
7NRD|1|LA|A|706
*
7NRD|1|LA|U|713
7NRD|1|LA|G|714
7NRD|1|LA|A|715
7NRD|1|LA|A|716
7NRD|1|LA|C|717
7NRD|1|LA|G|718
7NRD|1|LA|U|719
7NRD|1|LA|A|720
7NRD|1|LA|G|721
*
7NRD|1|LA|C|749
7NRD|1|LA|G|750
7NRD|1|LA|A|751
*
7NRD|1|LA|U|782
7NRD|1|LA|A|783
7NRD|1|LA|A|784
7NRD|1|LA|G|785
7NRD|1|LA|A|786
7NRD|1|LA|G|787

Current chains

Chain LA

25S rRNA (3184-MER)

Nearby chains

Chain LF

60S ribosomal protein L4-A

Chain LN

60S ribosomal protein L13-A

Chain LS

60S ribosomal protein L18-A

Chain Lc

60S ribosomal protein L28

Chain Ld

60S ribosomal protein L29

Chain Lk

60S ribosomal protein L36-A