J3_8XSY_026

3D structure

PDB id

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

Description

Cryo-EM structure of the human 80S ribosome with Tigecycline, e-tRNA and CCDC124 (40S head Swivelled)

Experimental method

ELECTRON MICROSCOPY

Resolution

3 Å

Loop

Sequence

UUGAAAAGAAC*GAGUUCAAGAGGGCG*CA

Length

28 nucleotides

Bulged bases

8XSY|1|L5|G|409, 8XSY|1|L5|G|413

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_8XSY_026 not in the Motif Atlas

Homologous match to J3_8C3A_049

Geometric discrepancy: 0.2758

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

8XSY|1|L5|U|380
8XSY|1|L5|U|381
8XSY|1|L5|G|382
8XSY|1|L5|A|383
8XSY|1|L5|A|384
8XSY|1|L5|A|385
8XSY|1|L5|A|386
8XSY|1|L5|G|387
8XSY|1|L5|A|388
8XSY|1|L5|A|389
8XSY|1|L5|C|390
*
8XSY|1|L5|G|401
8XSY|1|L5|A|402
8XSY|1|L5|G|403
8XSY|1|L5|U|404
8XSY|1|L5|U|405
8XSY|1|L5|C|406
8XSY|1|L5|A|407
8XSY|1|L5|A|408
8XSY|1|L5|G|409
8XSY|1|L5|A|410
8XSY|1|L5|G|411
8XSY|1|L5|G|412
8XSY|1|L5|G|413
8XSY|1|L5|C|414
8XSY|1|L5|G|415
*
8XSY|1|L8|C|19
8XSY|1|L8|A|20

Current chains

Chain L5

28S rRNA

Chain L8

5.8S rRNA

Nearby chains

Chain CA

Proliferation-associated protein 2G4

Chain LC

60S ribosomal protein L4

Chain LP

60S ribosomal protein L17

Chain LY

60S ribosomal protein L26

Chain Ll

60S ribosomal protein L39