J4_4V88_011

3D structure

PDB id

4V88 (explore in PDB, NAKB, or RNA 3D Hub)

Description

The structure of the eukaryotic ribosome at 3.0 A resolution.

Experimental method

X-RAY DIFFRACTION

Resolution

3 Å

Loop

Sequence

AAG*CGAAAG*CCAUAAACUAUG*UU

Length

23 nucleotides

Bulged bases

4V88|1|A2|A|623, 4V88|1|A2|A|1026, 4V88|1|A2|U|1029, 4V88|1|A2|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_4V88_011 not in the Motif Atlas

Homologous match to J4_8P9A_022

Geometric discrepancy: 0.0494

The information below is about J4_8P9A_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61885.6

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

4V88|1|A2|A|622
4V88|1|A2|A|623
4V88|1|A2|G|624
*
4V88|1|A2|C|975
4V88|1|A2|G|976
4V88|1|A2|A|977
4V88|1|A2|A|978
4V88|1|A2|A|979
4V88|1|A2|G|980
*
4V88|1|A2|C|1021
4V88|1|A2|C|1022
4V88|1|A2|A|1023
4V88|1|A2|U|1024
4V88|1|A2|A|1025
4V88|1|A2|A|1026
4V88|1|A2|A|1027
4V88|1|A2|C|1028
4V88|1|A2|U|1029
4V88|1|A2|A|1030
4V88|1|A2|U|1031
4V88|1|A2|G|1032
*
4V88|1|A2|U|1103
4V88|1|A2|U|1104

Current chains

Chain A2

18S RIBOSOMAL RNA

Nearby chains

Chain A1

Large subunit ribosomal RNA; LSU rRNA

Chain AL

40S ribosomal protein S11-A

Chain AN

40S ribosomal protein S13

Chain AO

40S ribosomal protein S14-A

Chain AW

40S ribosomal protein S22-A

Chain AX

40S ribosomal protein S23-A

Chain Aa

40S ribosomal protein S26-A

Chain Bn

60S ribosomal protein L41-A