J4_6SV4_002

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

AAG*CGAAAG*CCAUAAACUAUG*UU

Length

23 nucleotides

Bulged bases

6SV4|1|2|A|623, 6SV4|1|2|U|1029, 6SV4|1|2|U|1031

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_002 not in the Motif Atlas

Homologous match to J4_8C3A_022

Geometric discrepancy: 0.1035

The information below is about J4_8C3A_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61885.4

Basepair signature

cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F-F-F

Number of instances in this motif group

5

Unit IDs

6SV4|1|2|A|622
6SV4|1|2|A|623
6SV4|1|2|G|624
*
6SV4|1|2|C|975
6SV4|1|2|G|976
6SV4|1|2|A|977
6SV4|1|2|A|978
6SV4|1|2|A|979
6SV4|1|2|G|980
*
6SV4|1|2|C|1021
6SV4|1|2|C|1022
6SV4|1|2|A|1023
6SV4|1|2|U|1024
6SV4|1|2|A|1025
6SV4|1|2|A|1026
6SV4|1|2|A|1027
6SV4|1|2|C|1028
6SV4|1|2|U|1029
6SV4|1|2|A|1030
6SV4|1|2|U|1031
6SV4|1|2|G|1032
*
6SV4|1|2|U|1103
6SV4|1|2|U|1104

Current chains

Chain 2

18S rRNA

Nearby chains

Chain AS

60S ribosomal protein L41-B

Chain AT

60S ribosomal protein L43-A

Chain BQ

Large subunit ribosomal RNA; LSU rRNA

Chain X

40S ribosomal protein S11-A

Chain Y

40S ribosomal protein S13

Chain Z

40S ribosomal protein S14-A

Chain b

40S ribosomal protein S22-A

Chain c

40S ribosomal protein S23-A

Chain e

40S ribosomal protein S26-A