J3_9D0I_064

3D structure

PDB id

9D0I (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Se-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.45 Å

Loop

Sequence

UUUAAUUC*GAAGAACCUUAC*GGCGA

Length

25 nucleotides

Bulged bases

9D0I|1|2a|A|975, 9D0I|1|2a|G|976, 9D0I|1|2a|A|978

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_9D0I_064 not in the Motif Atlas

Geometric match to J3_4LFB_004

Geometric discrepancy: 0.0989

The information below is about J3_4LFB_004

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_88451.1

Basepair signature

cWW-tWW-F-F-F-F-F-tSS-cWW-F-F-cWW-F-F-F-F-F-F

Number of instances in this motif group

5

Unit IDs

9D0I|1|2a|U|955
9D0I|1|2a|U|956
9D0I|1|2a|U|957
9D0I|1|2a|A|958
9D0I|1|2a|A|959
9D0I|1|2a|U|960
9D0I|1|2a|U|961
9D0I|1|2a|C|962
*
9D0I|1|2a|G|973
9D0I|1|2a|A|974
9D0I|1|2a|A|975
9D0I|1|2a|G|976
9D0I|1|2a|A|977
9D0I|1|2a|A|978
9D0I|1|2a|C|979
9D0I|1|2a|C|980
9D0I|1|2a|U|981
9D0I|1|2a|U|982
9D0I|1|2a|A|983
9D0I|1|2a|C|984
*
9D0I|1|2a|G|1221
9D0I|1|2a|G|1222
9D0I|1|2a|C|1223
9D0I|1|2a|G|1224
9D0I|1|2a|A|1225

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2j

30S ribosomal protein S10

Chain 2m

30S ribosomal protein S13

Chain 2n

30S ribosomal protein S14 type Z

Chain 2s

30S ribosomal protein S19

Chain 2w

Transfer RNA; tRNA