J5_6ND5_004

3D structure

PDB id

6ND5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with chloramphenicol and bound to mRNA and A-, P-, and E-site tRNAs at 2.60A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

CGACUC*GGAC*GUUC*GC*GCGAAUG

Length

23 nucleotides

Bulged bases

6ND5|1|1A|U|1255

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_6ND5_004 not in the Motif Atlas

Homologous match to J5_9DFE_004

Geometric discrepancy: 0.0375

The information below is about J5_9DFE_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_74302.5

Basepair signature

cWW-tSH-tSS-tHW-F-cHS-F-tWS-cWW-cWW-F-cWW-cWW-F

Number of instances in this motif group

4

Unit IDs

6ND5|1|1A|C|584
6ND5|1|1A|G|585
6ND5|1|1A|A|586
6ND5|1|1A|C|587
6ND5|1|1A|U|588
6ND5|1|1A|C|589
*
6ND5|1|1A|G|668
6ND5|1|1A|G|669
6ND5|1|1A|A|670
6ND5|1|1A|C|671
*
6ND5|1|1A|G|809
6ND5|1|1A|U|810
6ND5|1|1A|U|811
6ND5|1|1A|C|812
*
6ND5|1|1A|G|1195
6ND5|1|1A|C|1196
*
6ND5|1|1A|G|1250
6ND5|1|1A|C|1251
6ND5|1|1A|G|1252
6ND5|1|1A|A|1253
6ND5|1|1A|A|1254
6ND5|1|1A|U|1255
6ND5|1|1A|G|1256

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 18

50S ribosomal protein L35

Chain 1F

50S ribosomal protein L4

Chain 1P

50S ribosomal protein L15

Chain 1U

50S ribosomal protein L20

Chain 1V

50S ribosomal protein L21