J3_4V8N_048

3D structure

PDB id

4V8N (explore in PDB, NAKB, or RNA 3D Hub)

Description

The crystal structure of agmatidine tRNA-Ile2 bound to the 70S ribosome in the A and P site.

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

CUCG*CGAUAGCGCACCAGUAC*GGAAAG

Length

27 nucleotides

Bulged bases

4V8N|1|BA|C|34, 4V8N|1|BA|U|448, 4V8N|1|BA|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_4V8N_048 not in the Motif Atlas

Homologous match to J3_9DFE_003

Geometric discrepancy: 0.1135

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

4V8N|1|BA|C|32
4V8N|1|BA|U|33
4V8N|1|BA|C|34
4V8N|1|BA|G|35
*
4V8N|1|BA|C|445
4V8N|1|BA|G|446
4V8N|1|BA|A|447
4V8N|1|BA|U|448
4V8N|1|BA|A|449
4V8N|1|BA|G|450
4V8N|1|BA|C|451
4V8N|1|BA|G|452
4V8N|1|BA|C|453
4V8N|1|BA|A|454
4V8N|1|BA|C|455
4V8N|1|BA|C|456
4V8N|1|BA|A|457
4V8N|1|BA|G|458
4V8N|1|BA|U|459
4V8N|1|BA|A|460
4V8N|1|BA|C|461
*
4V8N|1|BA|G|468
4V8N|1|BA|G|469
4V8N|1|BA|A|470
4V8N|1|BA|A|471
4V8N|1|BA|A|472
4V8N|1|BA|G|473

Current chains

Chain BA

23S RIBOSOMAL RNA

Nearby chains

Chain B7

50S RIBOSOMAL PROTEIN L34

Chain BF

50S RIBOSOMAL PROTEIN L4

Chain BU

50S RIBOSOMAL PROTEIN L20

Chain BX

50S RIBOSOMAL PROTEIN L23