3D structure

PDB id
4V4J (explore in PDB, NAKB, or RNA 3D Hub)
Description
Interactions and Dynamics of the Shine-Dalgarno Helix in the 70S Ribosome.
Experimental method
X-RAY DIFFRACTION
Resolution
3.83 Å

Loop

Sequence
CUCG*CGAUAGCGCACCAGUAC*GGAAAG
Length
27 nucleotides
Bulged bases
4V4J|1|w|C|34, 4V4J|1|w|U|448, 4V4J|1|w|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_4V4J_028 not in the Motif Atlas
Homologous match to J3_9DFE_003
Geometric discrepancy: 0.2172
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

4V4J|1|w|C|32
4V4J|1|w|U|33
4V4J|1|w|C|34
4V4J|1|w|G|35
*
4V4J|1|w|C|445
4V4J|1|w|G|446
4V4J|1|w|A|447
4V4J|1|w|U|448
4V4J|1|w|A|449
4V4J|1|w|G|450
4V4J|1|w|C|451
4V4J|1|w|G|452
4V4J|1|w|C|453
4V4J|1|w|A|454
4V4J|1|w|C|455
4V4J|1|w|C|456
4V4J|1|w|A|457
4V4J|1|w|G|458
4V4J|1|w|U|459
4V4J|1|w|A|460
4V4J|1|w|C|461
*
4V4J|1|w|G|468
4V4J|1|w|G|469
4V4J|1|w|A|470
4V4J|1|w|A|471
4V4J|1|w|A|472
4V4J|1|w|G|473

Current chains

Chain w
23S LARGE SUBUNIT RIBOSOMAL RNA

Nearby chains

Chain D
50S ribosomal protein L4
Chain O
50S ribosomal protein L20
Chain Q
50S ribosomal protein L22
Chain R
50S ribosomal protein L23
Chain Z
50S ribosomal protein L34

Coloring options:


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