RNA 3D Hub //

J6_5JCS_002

3D structure

PDB id
5JCS (explore in PDB, NAKB, or RNA 3D Hub)
Description
CRYO-EM STRUCTURE OF THE RIX1-REA1 PRE-60S PARTICLE
Experimental method
ELECTRON MICROSCOPY
Resolution
9.5 Å

Loop

Sequence
AAUAAUGUAGAUAAGGGAAGUCGGCAAAAUAGAUCCGUAAC*GGAUAAGGAUUGGCUCUAAGGGUCGGGUAGUGAGGGCCUUGGUCAGACGCAGCG*UGUUGUAGACGGCCUUGGUAGG*CCGUCGCUUGCUACAAUUAACGAUCAACUUAGAACUGGUACGGACAAGGGGAAUCUGACUGUCUAAUUAAAACAUAGCAUUGCGAUGGUCAGAAAGUGAUGUUGACGCAAUGUGAUUUCUGCCCAGUG*UAAACGGCGGGAGUAACUAUGACUCUCUUAAGGUAGCCAAAUGCCUCGUC*GACGCGCAUGAAUGGAUUAACGAGAUUCCCACUGUCCCUAUCUACUAU
Length
343 nucleotides
Bulged bases
5JCS|1|x|A|1901, 5JCS|1|x|U|1931, 5JCS|1|x|U|2056, 5JCS|1|x|A|2060, 5JCS|1|x|G|2076, 5JCS|1|x|U|2077, 5JCS|1|x|A|2089, 5JCS|1|x|A|2093, 5JCS|1|x|G|2111, 5JCS|1|x|U|2112, 5JCS|1|x|G|2116, 5JCS|1|x|G|2121, 5JCS|1|x|A|2138, 5JCS|1|x|A|2139, 5JCS|1|x|U|2140, 5JCS|1|x|U|2141, 5JCS|1|x|A|2144, 5JCS|1|x|G|2157, 5JCS|1|x|U|2159, 5JCS|1|x|G|2169, 5JCS|1|x|U|2175, 5JCS|1|x|A|2178, 5JCS|1|x|C|2179, 5JCS|1|x|U|2193, 5JCS|1|x|A|2243, 5JCS|1|x|G|2249, 5JCS|1|x|A|2255, 5JCS|1|x|A|2256, 5JCS|1|x|A|2259, 5JCS|1|x|U|2268, 5JCS|1|x|U|2269, 5JCS|1|x|A|2270, 5JCS|1|x|A|2271, 5JCS|1|x|G|2272, 5JCS|1|x|G|2273, 5JCS|1|x|U|2274, 5JCS|1|x|A|2281, 5JCS|1|x|C|2287, 5JCS|1|x|G|2288, 5JCS|1|x|C|2306, 5JCS|1|x|A|2312, 5JCS|1|x|G|2315, 5JCS|1|x|G|2316, 5JCS|1|x|A|2317, 5JCS|1|x|U|2318, 5JCS|1|x|U|2319, 5JCS|1|x|A|2324
QA status
Unknown status

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

5JCS|1|x|A|1883
5JCS|1|x|A|1884
5JCS|1|x|U|1885
5JCS|1|x|A|1886
5JCS|1|x|A|1887
5JCS|1|x|U|1888
5JCS|1|x|G|1889
5JCS|1|x|U|1890
5JCS|1|x|A|1891
5JCS|1|x|G|1892
5JCS|1|x|A|1893
5JCS|1|x|U|1894
5JCS|1|x|A|1895
5JCS|1|x|A|1896
5JCS|1|x|G|1897
5JCS|1|x|G|1898
5JCS|1|x|G|1899
5JCS|1|x|A|1900
5JCS|1|x|A|1901
5JCS|1|x|G|1902
5JCS|1|x|U|1903
5JCS|1|x|C|1904
5JCS|1|x|G|1905
5JCS|1|x|G|1906
5JCS|1|x|C|1907
5JCS|1|x|A|1908
5JCS|1|x|A|1909
5JCS|1|x|A|1910
5JCS|1|x|A|1911
5JCS|1|x|U|1912
5JCS|1|x|A|1913
5JCS|1|x|G|1914
5JCS|1|x|A|1915
5JCS|1|x|U|1916
5JCS|1|x|C|1917
5JCS|1|x|C|1918
5JCS|1|x|G|1919
5JCS|1|x|U|1920
5JCS|1|x|A|1921
5JCS|1|x|A|1922
5JCS|1|x|C|1923
*
5JCS|1|x|G|1928
5JCS|1|x|G|1929
5JCS|1|x|A|1930
5JCS|1|x|U|1931
5JCS|1|x|A|1932
5JCS|1|x|A|1933
5JCS|1|x|G|1934
5JCS|1|x|G|1935
5JCS|1|x|A|1936
5JCS|1|x|U|1937
5JCS|1|x|U|1938
5JCS|1|x|G|1939
5JCS|1|x|G|1940
5JCS|1|x|C|1941
5JCS|1|x|U|1942
5JCS|1|x|C|1943
5JCS|1|x|U|1944
5JCS|1|x|A|1945
5JCS|1|x|A|1946
5JCS|1|x|G|1947
5JCS|1|x|G|1948
5JCS|1|x|G|1949
5JCS|1|x|U|1950
5JCS|1|x|C|1951
5JCS|1|x|G|1952
5JCS|1|x|G|1953
5JCS|1|x|G|1954
5JCS|1|x|U|1955
5JCS|1|x|A|1956
5JCS|1|x|G|1957
5JCS|1|x|U|1958
5JCS|1|x|G|1959
5JCS|1|x|A|1960
5JCS|1|x|G|1961
5JCS|1|x|G|1962
5JCS|1|x|G|1963
5JCS|1|x|C|1964
5JCS|1|x|C|1965
5JCS|1|x|U|1966
5JCS|1|x|U|1967
5JCS|1|x|G|1968
5JCS|1|x|G|1969
5JCS|1|x|U|1970
5JCS|1|x|C|1971
5JCS|1|x|A|1972
5JCS|1|x|G|1973
5JCS|1|x|A|1974
5JCS|1|x|C|1975
5JCS|1|x|G|1976
5JCS|1|x|C|1977
5JCS|1|x|A|1978
5JCS|1|x|G|1979
5JCS|1|x|C|1980
5JCS|1|x|G|1981
*
5JCS|1|x|U|2041
5JCS|1|x|G|2042
5JCS|1|x|U|2043
5JCS|1|x|U|2044
5JCS|1|x|G|2045
5JCS|1|x|U|2046
5JCS|1|x|A|2047
5JCS|1|x|G|2048
5JCS|1|x|A|2049
5JCS|1|x|C|2050
5JCS|1|x|G|2051
5JCS|1|x|G|2052
5JCS|1|x|C|2053
5JCS|1|x|C|2054
5JCS|1|x|U|2055
5JCS|1|x|U|2056
5JCS|1|x|G|2057
5JCS|1|x|G|2058
5JCS|1|x|U|2059
5JCS|1|x|A|2060
5JCS|1|x|G|2061
5JCS|1|x|G|2062
*
5JCS|1|x|C|2074
5JCS|1|x|C|2075
5JCS|1|x|G|2076
5JCS|1|x|U|2077
5JCS|1|x|C|2078
5JCS|1|x|G|2079
5JCS|1|x|C|2080
5JCS|1|x|U|2081
5JCS|1|x|U|2082
5JCS|1|x|G|2083
5JCS|1|x|C|2084
5JCS|1|x|U|2085
5JCS|1|x|A|2086
5JCS|1|x|C|2087
5JCS|1|x|A|2088
5JCS|1|x|A|2089
5JCS|1|x|U|2090
5JCS|1|x|U|2091
5JCS|1|x|A|2092
5JCS|1|x|A|2093
5JCS|1|x|C|2094
5JCS|1|x|G|2095
5JCS|1|x|A|2096
5JCS|1|x|U|2097
5JCS|1|x|C|2098
5JCS|1|x|A|2099
5JCS|1|x|A|2100
5JCS|1|x|C|2101
5JCS|1|x|U|2102
5JCS|1|x|U|2103
5JCS|1|x|A|2104
5JCS|1|x|G|2105
5JCS|1|x|A|2106
5JCS|1|x|A|2107
5JCS|1|x|C|2108
5JCS|1|x|U|2109
5JCS|1|x|G|2110
5JCS|1|x|G|2111
5JCS|1|x|U|2112
5JCS|1|x|A|2113
5JCS|1|x|C|2114
5JCS|1|x|G|2115
5JCS|1|x|G|2116
5JCS|1|x|A|2117
5JCS|1|x|C|2118
5JCS|1|x|A|2119
5JCS|1|x|A|2120
5JCS|1|x|G|2121
5JCS|1|x|G|2122
5JCS|1|x|G|2123
5JCS|1|x|G|2124
5JCS|1|x|A|2125
5JCS|1|x|A|2126
5JCS|1|x|U|2127
5JCS|1|x|C|2128
5JCS|1|x|U|2129
5JCS|1|x|G|2130
5JCS|1|x|A|2131
5JCS|1|x|C|2132
5JCS|1|x|U|2133
5JCS|1|x|G|2134
5JCS|1|x|U|2135
5JCS|1|x|C|2136
5JCS|1|x|U|2137
5JCS|1|x|A|2138
5JCS|1|x|A|2139
5JCS|1|x|U|2140
5JCS|1|x|U|2141
5JCS|1|x|A|2142
5JCS|1|x|A|2143
5JCS|1|x|A|2144
5JCS|1|x|A|2145
5JCS|1|x|C|2146
5JCS|1|x|A|2147
5JCS|1|x|U|2148
5JCS|1|x|A|2149
5JCS|1|x|G|2150
5JCS|1|x|C|2151
5JCS|1|x|A|2152
5JCS|1|x|U|2153
5JCS|1|x|U|2154
5JCS|1|x|G|2155
5JCS|1|x|C|2156
5JCS|1|x|G|2157
5JCS|1|x|A|2158
5JCS|1|x|U|2159
5JCS|1|x|G|2160
5JCS|1|x|G|2161
5JCS|1|x|U|2162
5JCS|1|x|C|2163
5JCS|1|x|A|2164
5JCS|1|x|G|2165
5JCS|1|x|A|2166
5JCS|1|x|A|2167
5JCS|1|x|A|2168
5JCS|1|x|G|2169
5JCS|1|x|U|2170
5JCS|1|x|G|2171
5JCS|1|x|A|2172
5JCS|1|x|U|2173
5JCS|1|x|G|2174
5JCS|1|x|U|2175
5JCS|1|x|U|2176
5JCS|1|x|G|2177
5JCS|1|x|A|2178
5JCS|1|x|C|2179
5JCS|1|x|G|2180
5JCS|1|x|C|2181
5JCS|1|x|A|2182
5JCS|1|x|A|2183
5JCS|1|x|U|2184
5JCS|1|x|G|2185
5JCS|1|x|U|2186
5JCS|1|x|G|2187
5JCS|1|x|A|2188
5JCS|1|x|U|2189
5JCS|1|x|U|2190
5JCS|1|x|U|2191
5JCS|1|x|C|2192
5JCS|1|x|U|2193
5JCS|1|x|G|2194
5JCS|1|x|C|2195
5JCS|1|x|C|2196
5JCS|1|x|C|2197
5JCS|1|x|A|2198
5JCS|1|x|G|2199
5JCS|1|x|U|2200
5JCS|1|x|G|2201
*
5JCS|1|x|U|2241
5JCS|1|x|A|2242
5JCS|1|x|A|2243
5JCS|1|x|A|2244
5JCS|1|x|C|2245
5JCS|1|x|G|2246
5JCS|1|x|G|2247
5JCS|1|x|C|2248
5JCS|1|x|G|2249
5JCS|1|x|G|2250
5JCS|1|x|G|2251
5JCS|1|x|A|2252
5JCS|1|x|G|2253
5JCS|1|x|U|2254
5JCS|1|x|A|2255
5JCS|1|x|A|2256
5JCS|1|x|C|2257
5JCS|1|x|U|2258
5JCS|1|x|A|2259
5JCS|1|x|U|2260
5JCS|1|x|G|2261
5JCS|1|x|A|2262
5JCS|1|x|C|2263
5JCS|1|x|U|2264
5JCS|1|x|C|2265
5JCS|1|x|U|2266
5JCS|1|x|C|2267
5JCS|1|x|U|2268
5JCS|1|x|U|2269
5JCS|1|x|A|2270
5JCS|1|x|A|2271
5JCS|1|x|G|2272
5JCS|1|x|G|2273
5JCS|1|x|U|2274
5JCS|1|x|A|2275
5JCS|1|x|G|2276
5JCS|1|x|C|2277
5JCS|1|x|C|2278
5JCS|1|x|A|2279
5JCS|1|x|A|2280
5JCS|1|x|A|2281
5JCS|1|x|U|2282
5JCS|1|x|G|2283
5JCS|1|x|C|2284
5JCS|1|x|C|2285
5JCS|1|x|U|2286
5JCS|1|x|C|2287
5JCS|1|x|G|2288
5JCS|1|x|U|2289
5JCS|1|x|C|2290
*
5JCS|1|x|G|2302
5JCS|1|x|A|2303
5JCS|1|x|C|2304
5JCS|1|x|G|2305
5JCS|1|x|C|2306
5JCS|1|x|G|2307
5JCS|1|x|C|2308
5JCS|1|x|A|2309
5JCS|1|x|U|2310
5JCS|1|x|G|2311
5JCS|1|x|A|2312
5JCS|1|x|A|2313
5JCS|1|x|U|2314
5JCS|1|x|G|2315
5JCS|1|x|G|2316
5JCS|1|x|A|2317
5JCS|1|x|U|2318
5JCS|1|x|U|2319
5JCS|1|x|A|2320
5JCS|1|x|A|2321
5JCS|1|x|C|2322
5JCS|1|x|G|2323
5JCS|1|x|A|2324
5JCS|1|x|G|2325
5JCS|1|x|A|2326
5JCS|1|x|U|2327
5JCS|1|x|U|2328
5JCS|1|x|C|2329
5JCS|1|x|C|2330
5JCS|1|x|C|2331
5JCS|1|x|A|2332
5JCS|1|x|C|2333
5JCS|1|x|U|2334
5JCS|1|x|G|2335
5JCS|1|x|U|2336
5JCS|1|x|C|2337
5JCS|1|x|C|2338
5JCS|1|x|C|2339
5JCS|1|x|U|2340
5JCS|1|x|A|2341
5JCS|1|x|U|2342
5JCS|1|x|C|2343
5JCS|1|x|U|2344
5JCS|1|x|A|2345
5JCS|1|x|C|2346
5JCS|1|x|U|2347
5JCS|1|x|A|2348
5JCS|1|x|U|2349

Current chains

Chain x
25S ribosomal RNA

Nearby chains

Chain A
60S ribosomal protein L2-A
Chain B
60S ribosomal protein L3
Chain N
60S ribosomal protein L15-A
Chain P
60S ribosomal protein L17-A
Chain R
60S ribosomal protein L19-A
Chain V
60S ribosomal protein L23-A
Chain d
60S ribosomal protein L31-A
Chain j
60S ribosomal protein L37-A
Chain k
60S ribosomal protein L38
Chain p
60S ribosomal protein L43-A
Chain r
Protein SDA1
Chain t
Ribosome biogenesis protein RLP24

Coloring options:

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