J7_4Y4O_003

3D structure

PDB id

4Y4O (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to protein Y (YfiA) at 2.3A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.3 Å

Loop

Sequence

AUGGUAAG*UACAAGC*GAACUG*CUAC*GCGCAG*CC*GU

Length

35 nucleotides

Bulged bases

4Y4O|1|2A|G|530, 4Y4O|1|2A|C|2021

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J7_30280.2

Basepair signature

cWW-tWH-cWW-F-F-cWW-tWH-cSH-F-cWW-F-F-tSS-cWW-F-F-F-tHW-cWW-cWW-F-F-F

Number of instances in this motif group

3

Unit IDs

4Y4O|1|2A|A|8
4Y4O|1|2A|U|9
4Y4O|1|2A|G|10
4Y4O|1|2A|G|11
4Y4O|1|2A|U|12
4Y4O|1|2A|A|13
4Y4O|1|2A|A|14
4Y4O|1|2A|G|15
*
4Y4O|1|2A|U|525
4Y4O|1|2A|A|526
4Y4O|1|2A|C|527
4Y4O|1|2A|A|528
4Y4O|1|2A|A|529
4Y4O|1|2A|G|530
4Y4O|1|2A|C|531
*
4Y4O|1|2A|G|2018
4Y4O|1|2A|A|2019
4Y4O|1|2A|A|2020
4Y4O|1|2A|C|2021
4Y4O|1|2A|U|2022
4Y4O|1|2A|G|2023
*
4Y4O|1|2A|C|2040
4Y4O|1|2A|U|2041
4Y4O|1|2A|A|2042
4Y4O|1|2A|C|2043
*
4Y4O|1|2A|G|2625
4Y4O|1|2A|C|2626
4Y4O|1|2A|G|2627
4Y4O|1|2A|C|2628
4Y4O|1|2A|A|2629
4Y4O|1|2A|G|2630
*
4Y4O|1|2A|C|2788
4Y4O|1|2A|C|2789
*
4Y4O|1|2A|G|2894
4Y4O|1|2A|U|2895

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 25

50S ribosomal protein L32

Chain 2E

50S ribosomal protein L3

Chain 2N

50S ribosomal protein L13

Chain 2U

50S ribosomal protein L20

Chain 2W

50S ribosomal protein L22