J3_5DOX_036

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

CUCG*CGAUAGCGCACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

5DOX|1|1A|C|34, 5DOX|1|1A|U|448, 5DOX|1|1A|C|456

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_5DOX_036 not in the Motif Atlas

Homologous match to J3_9DFE_003

Geometric discrepancy: 0.0549

The information below is about J3_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_30040.2

Basepair signature

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

Number of instances in this motif group

7

Unit IDs

5DOX|1|1A|C|32
5DOX|1|1A|U|33
5DOX|1|1A|C|34
5DOX|1|1A|G|35
*
5DOX|1|1A|C|445
5DOX|1|1A|G|446
5DOX|1|1A|A|447
5DOX|1|1A|U|448
5DOX|1|1A|A|449
5DOX|1|1A|G|450
5DOX|1|1A|C|451
5DOX|1|1A|G|452
5DOX|1|1A|C|453
5DOX|1|1A|A|454
5DOX|1|1A|C|455
5DOX|1|1A|C|456
5DOX|1|1A|A|457
5DOX|1|1A|G|458
5DOX|1|1A|U|459
5DOX|1|1A|A|460
5DOX|1|1A|C|461
*
5DOX|1|1A|G|468
5DOX|1|1A|G|469
5DOX|1|1A|A|470
5DOX|1|1A|A|471
5DOX|1|1A|A|472
5DOX|1|1A|G|473

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 17

50S ribosomal protein L34

Chain 1F

50S ribosomal protein L4

Chain 1U

50S ribosomal protein L20

Chain 1X

50S ribosomal protein L23