IL_5NDJ_352

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking)

Experimental method

X-RAY DIFFRACTION

Resolution

3.15 Å

Loop

Sequence

CUGCGUAGGAUAGGUGGGAGCCUGUGAACC*GGGAGGCGCCGGUGAAAUACCACCCUG

Length

57 nucleotides

Bulged bases

5NDJ|1|14|C|2136, 5NDJ|1|14|G|2137, 5NDJ|1|14|U|2138, 5NDJ|1|14|A|2139, 5NDJ|1|14|G|2150, 5NDJ|1|14|A|2151, 5NDJ|1|14|G|2156, 5NDJ|1|14|U|2157, 5NDJ|1|14|U|2192

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

5NDJ|1|14|C|2133
5NDJ|1|14|U|2134
5NDJ|1|14|G|2135
5NDJ|1|14|C|2136
5NDJ|1|14|G|2137
5NDJ|1|14|U|2138
5NDJ|1|14|A|2139
5NDJ|1|14|G|2140
5NDJ|1|14|G|2141
5NDJ|1|14|A|2142
5NDJ|1|14|U|2143
5NDJ|1|14|A|2144
5NDJ|1|14|G|2145
5NDJ|1|14|G|2146
5NDJ|1|14|U|2147
5NDJ|1|14|G|2148
5NDJ|1|14|G|2149
5NDJ|1|14|G|2150
5NDJ|1|14|A|2151
5NDJ|1|14|G|2152
5NDJ|1|14|C|2153
5NDJ|1|14|C|2154
5NDJ|1|14|U|2155
5NDJ|1|14|G|2156
5NDJ|1|14|U|2157
5NDJ|1|14|G|2158
5NDJ|1|14|A|2159
5NDJ|1|14|A|2160
5NDJ|1|14|C|2161
5NDJ|1|14|C|2162
*
5NDJ|1|14|G|2180
5NDJ|1|14|G|2181
5NDJ|1|14|G|2182
5NDJ|1|14|A|2183
5NDJ|1|14|G|2184
5NDJ|1|14|G|2185
5NDJ|1|14|C|2186
5NDJ|1|14|G|2187
5NDJ|1|14|C|2188
5NDJ|1|14|C|2189
5NDJ|1|14|G|2190
5NDJ|1|14|G|2191
5NDJ|1|14|U|2192
5NDJ|1|14|G|2193
5NDJ|1|14|A|2194
5NDJ|1|14|A|2195
5NDJ|1|14|A|2196
5NDJ|1|14|U|2197
5NDJ|1|14|A|2198
5NDJ|1|14|C|2199
5NDJ|1|14|C|2200
5NDJ|1|14|A|2201
5NDJ|1|14|C|2202
5NDJ|1|14|C|2203
5NDJ|1|14|C|2204
5NDJ|1|14|U|2205
5NDJ|1|14|G|2206

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 13

Small subunit ribosomal RNA; SSU rRNA

Chain V4

Transfer RNA; tRNA