J7_5NDG_002

3D structure

PDB id

5NDG (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of geneticin (G418) bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

CGAAGU*AG*UGGG*CGAUGC*GAACG*CC*GAGUAG

Length

31 nucleotides

Bulged bases

5NDG|1|5|G|1116

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

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

5NDG|1|5|C|949
5NDG|1|5|G|950
5NDG|1|5|A|951
5NDG|1|5|A|952
5NDG|1|5|G|953
5NDG|1|5|U|954
*
5NDG|1|5|A|967
5NDG|1|5|G|968
*
5NDG|1|5|U|1114
5NDG|1|5|G|1115
5NDG|1|5|G|1116
5NDG|1|5|G|1117
*
5NDG|1|5|C|1141
5NDG|1|5|G|1142
5NDG|1|5|A|1143
5NDG|1|5|U|1144
5NDG|1|5|G|1145
5NDG|1|5|C|1146
*
5NDG|1|5|G|1157
5NDG|1|5|A|1158
5NDG|1|5|A|1159
5NDG|1|5|C|1160
5NDG|1|5|G|1161
*
5NDG|1|5|C|1338
5NDG|1|5|C|1339
*
5NDG|1|5|G|1365
5NDG|1|5|A|1366
5NDG|1|5|G|1367
5NDG|1|5|U|1368
5NDG|1|5|A|1369
5NDG|1|5|G|1370

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain 7

5S ribosomal RNA; 5S rRNA

Chain l4

60S ribosomal protein L4-A

Chain l7

60S ribosomal protein L7-A

Chain m3

60S ribosomal protein L13-A

Chain m8

60S ribosomal protein L18-A

Chain n1

60S ribosomal protein L21-A

Chain n8

60S ribosomal protein L28

Chain n9

60S ribosomal protein L29

Chain o2

60S ribosomal protein L32

Chain o3

60S ribosomal protein L33-A