HL_5NDK_063

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

CGCGAG

Length

6 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

HL_5NDK_063 not in the Motif Atlas

Homologous match to HL_7RQB_032

Geometric discrepancy: 0.1073

The information below is about HL_7RQB_032

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_35490.2

Basepair signature

cWW-tSH-F-F

Number of instances in this motif group

299

Unit IDs

5NDK|1|14|C|1271
5NDK|1|14|G|1272
5NDK|1|14|C|1273
5NDK|1|14|G|1274
5NDK|1|14|A|1275
5NDK|1|14|G|1276

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 35

50S ribosomal protein L15

Chain 85

50S ribosomal protein L20

Chain 95

50S ribosomal protein L21