J5_5DGV_008

3D structure

PDB id

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

Description

Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

AUAGUUCCUUUACUACAUGG*CAUGCUUAAAA*UG*CGA*UGGUU

Length

41 nucleotides

Bulged bases

5DGV|1|2|U|128, 5DGV|1|2|U|132, 5DGV|1|2|C|136, 5DGV|1|2|U|137, 5DGV|1|2|A|140, 5DGV|1|2|U|141, 5DGV|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

5DGV|1|2|A|124
5DGV|1|2|U|125
5DGV|1|2|A|126
5DGV|1|2|G|127
5DGV|1|2|U|128
5DGV|1|2|U|129
5DGV|1|2|C|130
5DGV|1|2|C|131
5DGV|1|2|U|132
5DGV|1|2|U|133
5DGV|1|2|U|134
5DGV|1|2|A|135
5DGV|1|2|C|136
5DGV|1|2|U|137
5DGV|1|2|A|138
5DGV|1|2|C|139
5DGV|1|2|A|140
5DGV|1|2|U|141
5DGV|1|2|G|142
5DGV|1|2|G|143
*
5DGV|1|2|C|172
5DGV|1|2|A|173
5DGV|1|2|U|174
5DGV|1|2|G|175
5DGV|1|2|C|176
5DGV|1|2|U|177
5DGV|1|2|U|178
5DGV|1|2|A|179
5DGV|1|2|A|180
5DGV|1|2|A|181
5DGV|1|2|A|182
*
5DGV|1|2|U|203
5DGV|1|2|G|204
*
5DGV|1|2|C|263
5DGV|1|2|G|264
5DGV|1|2|A|265
*
5DGV|1|2|U|289
5DGV|1|2|G|290
5DGV|1|2|G|291
5DGV|1|2|U|292
5DGV|1|2|U|293

Current chains

Chain 2

Saccharomyces cerevisiae S288c RDN37-1 miscRNA

Nearby chains

Chain S4

40S ribosomal protein S4-A

Chain S6

40S ribosomal protein S6-A

Chain S8

40S ribosomal protein S8-A