J7_5NDW_001

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 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

5NDW|1|1|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

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

Current chains

Chain 1

25S ribosomal RNA

Nearby chains

Chain 3

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