3D structure

PDB id
5NDK (explore in PDB, NAKB, or RNA 3D Hub)
Description
Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA
Experimental method
X-RAY DIFFRACTION
Resolution
2.95 Å

Loop

Sequence
GGUCGUC
Length
7 nucleotides
Bulged bases
5NDK|1|1H|G|1374, 5NDK|1|1H|U|1378
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
HL_5NDK_168 not in the Motif Atlas
Homologous match to HL_7RQB_034
Geometric discrepancy: 0.0711
The information below is about HL_7RQB_034
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
HL_46680.1
Basepair signature
cWW-F-F-F
Number of instances in this motif group
27

Unit IDs

5NDK|1|1H|G|1373
5NDK|1|1H|G|1374
5NDK|1|1H|U|1375
5NDK|1|1H|C|1376
5NDK|1|1H|G|1377
5NDK|1|1H|U|1378
5NDK|1|1H|C|1379

Current chains

Chain 1H
23S ribosomal RNA

Nearby chains

Chain 98
50S ribosomal protein L17
Chain E8
50S ribosomal protein L22

Coloring options:


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