J4_5D8B_022

3D structure

PDB id

5D8B (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch

Experimental method

X-RAY DIFFRACTION

Resolution

3.63 Å

Loop

Sequence

CU*GAGUAC*GGAAUCUG*UAAG

Length

20 nucleotides

Bulged bases

5D8B|1|ZC|U|405

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_5D8B_022 not in the Motif Atlas

Homologous match to J4_9DFE_001

Geometric discrepancy: 0.1625

The information below is about J4_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_94698.1

Basepair signature

cWW-cWW-cSS-F-tHH-cWW-cSH-tWH-F-tHS-cWW

Number of instances in this motif group

10

Unit IDs

5D8B|1|ZC|C|268
5D8B|1|ZC|U|269
*
5D8B|1|ZC|G|370
5D8B|1|ZC|A|371
5D8B|1|ZC|G|372
5D8B|1|ZC|U|373
5D8B|1|ZC|A|374
5D8B|1|ZC|C|375
*
5D8B|1|ZC|G|399
5D8B|1|ZC|G|400
5D8B|1|ZC|A|401
5D8B|1|ZC|A|402
5D8B|1|ZC|U|403
5D8B|1|ZC|C|404
5D8B|1|ZC|U|405
5D8B|1|ZC|G|406
*
5D8B|1|ZC|U|421
5D8B|1|ZC|A|422
5D8B|1|ZC|A|423
5D8B|1|ZC|G|424

Current chains

Chain ZC

23S ribosomal RNA

Nearby chains

Chain BB

50S ribosomal protein L9

Chain RB

50S ribosomal protein L28