3D structure

PDB id
6P5K (explore in PDB, NAKB, or RNA 3D Hub)
Description
Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3)
Experimental method
ELECTRON MICROSCOPY
Resolution
3.1 Å

Loop

Sequence
CUUAAUUU*GGGAAACCUCAC*GGCUG
Length
25 nucleotides
Bulged bases
6P5K|1|2|G|1256, 6P5K|1|2|A|1258, 6P5K|1|2|A|1260
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
J3_6P5K_009 not in the Motif Atlas
Homologous match to J3_8C3A_040
Geometric discrepancy: 0.1058
The information below is about J3_8C3A_040
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_83516.3
Basepair signature
cWW-F-F-F-tWW-F-tSH-tSS-cSS-F-F-F-F-F-cWW-cWW-F-F-F
Number of instances in this motif group
4

Unit IDs

6P5K|1|2|C|1237
6P5K|1|2|U|1238
6P5K|1|2|U|1239
6P5K|1|2|A|1240
6P5K|1|2|A|1241
6P5K|1|2|U|1242
6P5K|1|2|U|1243
6P5K|1|2|U|1244
*
6P5K|1|2|G|1255
6P5K|1|2|G|1256
6P5K|1|2|G|1257
6P5K|1|2|A|1258
6P5K|1|2|A|1259
6P5K|1|2|A|1260
6P5K|1|2|C|1261
6P5K|1|2|C|1262
6P5K|1|2|U|1263
6P5K|1|2|C|1264
6P5K|1|2|A|1265
6P5K|1|2|C|1266
*
6P5K|1|2|G|1516
6P5K|1|2|G|1517
6P5K|1|2|C|1518
6P5K|1|2|U|1519
6P5K|1|2|G|1520

Current chains

Chain 2
18S rRNA

Nearby chains

Chain 1
IAPV-IRES
Chain Q
uS19
Chain T
uS13
Chain V
uS10
Chain e
eS29

Coloring options:


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