J3_6GQB_033

3D structure

PDB id

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

Description

Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GDP+AlF4/sordarin)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

AUGAAAAGAAC*GAGUGAAAAAGUACG*CU

Length

28 nucleotides

Bulged bases

6GQB|1|1|A|398, 6GQB|1|1|A|402

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

J3_6GQB_033 not in the Motif Atlas

Homologous match to J3_8C3A_049

Geometric discrepancy: 0.1215

The information below is about J3_8C3A_049

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_91149.1

Basepair signature

cWW-cWS-tSH-F-tWH-cSS-cWW-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-F-cWW-cWW

Number of instances in this motif group

6

Unit IDs

6GQB|1|1|A|369
6GQB|1|1|U|370
6GQB|1|1|G|371
6GQB|1|1|A|372
6GQB|1|1|A|373
6GQB|1|1|A|374
6GQB|1|1|A|375
6GQB|1|1|G|376
6GQB|1|1|A|377
6GQB|1|1|A|378
6GQB|1|1|C|379
*
6GQB|1|1|G|390
6GQB|1|1|A|391
6GQB|1|1|G|392
6GQB|1|1|U|393
6GQB|1|1|G|394
6GQB|1|1|A|395
6GQB|1|1|A|396
6GQB|1|1|A|397
6GQB|1|1|A|398
6GQB|1|1|A|399
6GQB|1|1|G|400
6GQB|1|1|U|401
6GQB|1|1|A|402
6GQB|1|1|C|403
6GQB|1|1|G|404
*
6GQB|1|4|C|19
6GQB|1|4|U|20

Current chains

Chain 1

Saccharomyces cerevisiae S288C 35S pre-ribosomal RNA (RDN37-1), miscRNA

Chain 4

5.8S ribosomal RNA

Nearby chains

Chain C

60S ribosomal protein L4-A

Chain P

60S ribosomal protein L17-A

Chain Y

60S ribosomal protein L26-A

Chain l

60S ribosomal protein L39