J4_6SV4_040

3D structure

PDB id

6SV4 (explore in PDB, NAKB, or RNA 3D Hub)

Description

The cryo-EM structure of SDD1-stalled collided trisome.

Experimental method

ELECTRON MICROSCOPY

Resolution

3.3 Å

Loop

Sequence

GUGG*CGU*AAGGUCG*CC

Length

16 nucleotides

Bulged bases

6SV4|1|mb|U|8, 6SV4|1|mb|U|48, 6SV4|1|mb|C|49

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

J4_6SV4_040 not in the Motif Atlas

Homologous match to J4_6UFG_001

Geometric discrepancy: 0.1883

The information below is about J4_6UFG_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_70449.29

Basepair signature

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

Number of instances in this motif group

54

Unit IDs

6SV4|1|mb|G|7
6SV4|1|mb|U|8
6SV4|1|mb|G|9
6SV4|1|mb|G|10
*
6SV4|1|mb|C|26
6SV4|1|mb|G|27
6SV4|1|mb|U|28
*
6SV4|1|mb|A|44
6SV4|1|mb|A|45
6SV4|1|mb|G|46
6SV4|1|mb|G|47
6SV4|1|mb|U|48
6SV4|1|mb|C|49
6SV4|1|mb|G|50
*
6SV4|1|mb|C|66
6SV4|1|mb|C|67

Current chains

Chain mb

tRNA (P/E)

Nearby chains

Chain 2b

Small subunit ribosomal RNA; SSU rRNA

Chain XP

60S ribosomal protein L42-A

Chain YQ

Large subunit ribosomal RNA; LSU rRNA