J4_8CDR_002

3D structure

PDB id

8CDR (explore in PDB, NAKB, or RNA 3D Hub)

Description

Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin

Experimental method

ELECTRON MICROSCOPY

Resolution

2.04 Å

Loop

Sequence

CUAUG*CGUC*GAG*CGUGUG

Length

18 nucleotides

Bulged bases

None detected

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_8CDR_002 not in the Motif Atlas

Homologous match to J4_8P9A_013

Geometric discrepancy: 0.0967

The information below is about J4_8P9A_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_43318.1

Basepair signature

cWW-cWW-F-F-cSS-F-cWW-tHS-cWW-F-cWW

Number of instances in this motif group

2

Unit IDs

8CDR|1|AA|C|185
8CDR|1|AA|U|186
8CDR|1|AA|A|187
8CDR|1|AA|U|188
8CDR|1|AA|G|189
*
8CDR|1|AA|C|205
8CDR|1|AA|G|206
8CDR|1|AA|U|207
8CDR|1|AA|C|208
*
8CDR|1|AA|G|212
8CDR|1|AA|A|213
8CDR|1|AA|G|214
*
8CDR|1|AA|C|226
8CDR|1|AA|G|227
8CDR|1|AA|U|228
8CDR|1|AA|G|229
8CDR|1|AA|U|230
8CDR|1|AA|G|231

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain CC

5.8S ribosomal RNA; 5.8S rRNA

Chain GG

60S ribosomal protein L4-A

Chain K

60S ribosomal protein L26-A