J5_6TB3_003

3D structure

PDB id

6TB3 (explore in PDB, NAKB, or RNA 3D Hub)

Description

yeast 80S ribosome in complex with the Not5 subunit of the CCR4-NOT complex

Experimental method

ELECTRON MICROSCOPY

Resolution

2.8 Å

Loop

Sequence

AUAGUUCCUUUACUACAUGG*CAUGCUUAAAA*UG*CGA*UGGUU

Length

41 nucleotides

Bulged bases

6TB3|1|2|U|128, 6TB3|1|2|C|130, 6TB3|1|2|C|131, 6TB3|1|2|U|132, 6TB3|1|2|U|133, 6TB3|1|2|U|134, 6TB3|1|2|A|140, 6TB3|1|2|U|141, 6TB3|1|2|U|178

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

6TB3|1|2|A|124
6TB3|1|2|U|125
6TB3|1|2|A|126
6TB3|1|2|G|127
6TB3|1|2|U|128
6TB3|1|2|U|129
6TB3|1|2|C|130
6TB3|1|2|C|131
6TB3|1|2|U|132
6TB3|1|2|U|133
6TB3|1|2|U|134
6TB3|1|2|A|135
6TB3|1|2|C|136
6TB3|1|2|U|137
6TB3|1|2|A|138
6TB3|1|2|C|139
6TB3|1|2|A|140
6TB3|1|2|U|141
6TB3|1|2|G|142
6TB3|1|2|G|143
*
6TB3|1|2|C|172
6TB3|1|2|A|173
6TB3|1|2|U|174
6TB3|1|2|G|175
6TB3|1|2|C|176
6TB3|1|2|U|177
6TB3|1|2|U|178
6TB3|1|2|A|179
6TB3|1|2|A|180
6TB3|1|2|A|181
6TB3|1|2|A|182
*
6TB3|1|2|U|203
6TB3|1|2|G|204
*
6TB3|1|2|C|263
6TB3|1|2|G|264
6TB3|1|2|A|265
*
6TB3|1|2|U|289
6TB3|1|2|G|290
6TB3|1|2|G|291
6TB3|1|2|U|292
6TB3|1|2|U|293

Current chains

Chain 2

Saccharomyces cerevisiae S288C 18S ribosomal RNA (RDN18-1), rRNA

Nearby chains

Chain S

40S ribosomal protein S4-A

Chain T

40S ribosomal protein S6-A

Chain V

40S ribosomal protein S8