J5_5DOX_001

3D structure

PDB id

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

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with Hygromycin-A at 3.1A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

CGAUGAAG*CGAAUG*CG*CAC*GGG

Length

22 nucleotides

Bulged bases

5DOX|1|1A|U|50

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

J5_5DOX_001 not in the Motif Atlas

Homologous match to J5_9DFE_001

Geometric discrepancy: 0.0474

The information below is about J5_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

5DOX|1|1A|C|47
5DOX|1|1A|G|48
5DOX|1|1A|A|49
5DOX|1|1A|U|50
5DOX|1|1A|G|51
5DOX|1|1A|A|52
5DOX|1|1A|A|53
5DOX|1|1A|G|54
*
5DOX|1|1A|C|116
5DOX|1|1A|G|117
5DOX|1|1A|A|118
5DOX|1|1A|A|119
5DOX|1|1A|U|120
5DOX|1|1A|G|121
*
5DOX|1|1A|C|130
5DOX|1|1A|G|131
*
5DOX|1|1A|C|148
5DOX|1|1A|A|149
5DOX|1|1A|C|150
*
5DOX|1|1A|G|176
5DOX|1|1A|G|177
5DOX|1|1A|G|178

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 17

50S ribosomal protein L34

Chain 1X

50S ribosomal protein L23