J4_12DP_001

3D structure

PDB id

12DP (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with sparsomycin, mRNA, and aminoacylated initiator P-site fMet-tRNAmet at 2.95A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.95 Å

Loop

Sequence

CU*GAGUAC*GGAAUCUG*UAAG

Length

20 nucleotides

Bulged bases

12DP|1|1A|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_12DP_001 not in the Motif Atlas

Homologous match to J4_7A0S_001

Geometric discrepancy: 0.255

The information below is about J4_7A0S_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_94698.4

Basepair signature

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

Number of instances in this motif group

12

Unit IDs

12DP|1|1A|C|268
12DP|1|1A|U|269
*
12DP|1|1A|G|370
12DP|1|1A|A|371
12DP|1|1A|G|372
12DP|1|1A|U|373
12DP|1|1A|A|374
12DP|1|1A|C|375
*
12DP|1|1A|G|399
12DP|1|1A|G|400
12DP|1|1A|A|401
12DP|1|1A|A|402
12DP|1|1A|U|403
12DP|1|1A|C|404
12DP|1|1A|U|405
12DP|1|1A|G|406
*
12DP|1|1A|U|421
12DP|1|1A|A|422
12DP|1|1A|A|423
12DP|1|1A|G|424

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 11

50S ribosomal protein L28

Chain 1I

50S ribosomal protein L9