J3_5NDK_021

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA

Experimental method

X-RAY DIFFRACTION

Resolution

2.95 Å

Loop

Sequence

GCGGGAC*GGCAG*CC

Length

14 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

J3_5NDK_021 not in the Motif Atlas

Homologous match to J3_7RQB_009

Geometric discrepancy: 0.1175

The information below is about J3_7RQB_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_04858.2

Basepair signature

cWW-F-cWW-F-F-F-F-F-cWW

Number of instances in this motif group

3

Unit IDs

5NDK|1|14|G|1393
5NDK|1|14|C|1394
5NDK|1|14|G|1395
5NDK|1|14|G|1396
5NDK|1|14|G|1397
5NDK|1|14|A|1398
5NDK|1|14|C|1399
*
5NDK|1|14|G|1430
5NDK|1|14|G|1431
5NDK|1|14|C|1432
5NDK|1|14|A|1433
5NDK|1|14|G|1434
*
5NDK|1|14|C|1451
5NDK|1|14|C|1452

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain B5

50S ribosomal protein L23