Structure analysis

High resolution cry-EM structure of the human 80S ribosome from SNORD127+/- Kasumi-1 cells

Electron Microscopy
2.5Å resolution
Source organism: Homo sapiens
Assembly composition:
hetero 79-mer (preferred)
Entry contents: 75 distinct polypeptide molecules
4 distinct RNA molecules

Assemblies

Assembly 1 (preferred)
Download    3D Visualisation
Multimeric state: hetero 79-mer
PDBe Complex ID: PDB-CPX-285892

Macromolecules

Chain: LA
Length: 257 amino acids
Theoretical weight: 28.09 KDa
Source organism: Homo sapiens
125720406080100120140160180200220240
 
100200
UniProt
P62917
Chains
Domains
Flexibility predictions
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Sequence conservation

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Chain: LB
Length: 403 amino acids
Theoretical weight: 46.21 KDa
Source organism: Homo sapiens
140350100150200250300350400
 
100200300400
UniProt
P39023
Chains
Domains
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Ligand binding sites
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Chain: LC
Length: 427 amino acids
Theoretical weight: 47.8 KDa
Source organism: Homo sapiens
142750100150200250300350400
 
200400
UniProt
P36578
Chains
Domains
Flexibility predictions
Ligand binding sites
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Chain: LD
Length: 297 amino acids
Theoretical weight: 34.43 KDa
Source organism: Homo sapiens
129720406080100120140160180200220240260280
 
100200
UniProt
P46777
Chains
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Chain: LE
Length: 288 amino acids
Theoretical weight: 32.81 KDa
Source organism: Homo sapiens
128820406080100120140160180200220240260280
 
100200
UniProt
Q02878
Chains
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Chain: LF
Length: 248 amino acids
Theoretical weight: 29.29 KDa
Source organism: Homo sapiens
124820406080100120140160180200220240
 
100200
UniProt
P18124
Chains
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Sequence conservation

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Chain: LG
Length: 266 amino acids
Theoretical weight: 30.06 KDa
Source organism: Homo sapiens
126620406080100120140160180200220240260
 
100200
UniProt
P62424
Chains
Domains
Sequence conservation

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Chain: LH
Length: 192 amino acids
Theoretical weight: 21.9 KDa
Source organism: Homo sapiens
119220406080100120140160180
 
50100150
UniProt
P32969
Chains
Domains
Sequence conservation

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Chain: LI
Length: 214 amino acids
Theoretical weight: 24.63 KDa
Source organism: Homo sapiens
121420406080100120140160180200
 
100200
UniProt
X5D2T3
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Chain: LJ
Length: 178 amino acids
Theoretical weight: 20.29 KDa
Source organism: Homo sapiens
117820406080100120140160
 
50100150
UniProt
P62913
Chains
Domains
Sequence conservation
Variants

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Chain: LL
Length: 211 amino acids
Theoretical weight: 24.32 KDa
Source organism: Homo sapiens
121120406080100120140160180200
 
50100150200
UniProt
P26373
Chains
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Chain: LM
Length: 215 amino acids
Theoretical weight: 23.49 KDa
Source organism: Homo sapiens
121520406080100120140160180200
 
100200
UniProt
P50914
Chains
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Chain: LN
Length: 204 amino acids
Theoretical weight: 24.21 KDa
Source organism: Homo sapiens
120420406080100120140160180200
 
50100150200
UniProt
P61313
Chains
Domains
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Chain: LO
Length: 203 amino acids
Theoretical weight: 23.63 KDa
Source organism: Homo sapiens
120320406080100120140160180200
 
50100150200
UniProt
P40429
Chains
Domains
Sequence conservation

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Chain: LP
Length: 184 amino acids
Theoretical weight: 21.44 KDa
Source organism: Homo sapiens
118420406080100120140160180
 
50100150
UniProt
P18621
Chains
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Chain: LQ
Length: 188 amino acids
Theoretical weight: 21.69 KDa
Source organism: Homo sapiens
118820406080100120140160180
 
50100150
UniProt
Q07020
Chains
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Chain: LR
Length: 196 amino acids
Theoretical weight: 23.54 KDa
Source organism: Homo sapiens
119620406080100120140160180
 
50100150
UniProt
P84098
Chains
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Chain: LS
Length: 176 amino acids
Theoretical weight: 20.81 KDa
Source organism: Homo sapiens
117620406080100120140160
 
50100150
UniProt
Q02543
Chains
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Sequence conservation

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Chain: LT
Length: 160 amino acids
Theoretical weight: 18.61 KDa
Source organism: Homo sapiens
116020406080100120140160
 
50100150
UniProt
P46778
Chains
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Chain: LU
Length: 128 amino acids
Theoretical weight: 14.81 KDa
Source organism: Homo sapiens
1128102030405060708090100110120
 
50100
UniProt
P35268
Chains
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Sequence conservation

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Chain: LV
Length: 140 amino acids
Theoretical weight: 14.89 KDa
Source organism: Homo sapiens
1140102030405060708090100110120130140
 
50100
UniProt
P62829
Chains
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Chain: LW
Length: 157 amino acids
Theoretical weight: 17.83 KDa
Source organism: Homo sapiens
115720406080100120140
 
50100150
UniProt
P83731
Chains
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Chain: LX
Length: 156 amino acids
Theoretical weight: 17.74 KDa
Source organism: Homo sapiens
115620406080100120140
 
50100150
UniProt
P62750
Chains
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Chain: LY
Length: 145 amino acids
Theoretical weight: 17.3 KDa
Source organism: Homo sapiens
114520406080100120140
 
50100
UniProt
P61254
Chains
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Chain: LZ
Length: 135 amino acids
Theoretical weight: 15.7 KDa
Source organism: Homo sapiens
1135102030405060708090100110120130
 
50100
Chains
Chain BA (auth LZ)
Domains
Sequence conservation

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Chain: La
Length: 148 amino acids
Theoretical weight: 16.6 KDa
Source organism: Homo sapiens
114820406080100120140
 
50100
UniProt
P46776
Chains
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Chain: Lb
Length: 159 amino acids
Theoretical weight: 17.8 KDa
Source organism: Homo sapiens
115920406080100120140
 
50100150
UniProt
P47914
Chains
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Chain: Lc
Length: 115 amino acids
Theoretical weight: 12.81 KDa
Source organism: Homo sapiens
1115102030405060708090100110
 
50100
UniProt
P62888
Chains
Domains
Sequence conservation

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Chain: Ld
Length: 125 amino acids
Theoretical weight: 14.49 KDa
Source organism: Homo sapiens
1125102030405060708090100110120
 
50100
UniProt
P62899
Chains
Domains
Sequence conservation

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Chain: Le
Length: 135 amino acids
Theoretical weight: 15.9 KDa
Source organism: Homo sapiens
1135102030405060708090100110120130
 
50100
UniProt
P62910
Chains
Domains
Ligand binding sites
Sequence conservation

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Chain: Lf
Length: 110 amino acids
Theoretical weight: 12.56 KDa
Source organism: Homo sapiens
1110102030405060708090100110
 
50100
UniProt
P18077
Chains
Domains
Ligand binding sites
Sequence conservation

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Chain: Lg
Length: 117 amino acids
Theoretical weight: 13.33 KDa
Source organism: Homo sapiens
1117102030405060708090100110
 
50100
UniProt
P49207
Chains
Domains
Ligand binding sites
Sequence conservation

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Chain: Lh
Length: 123 amino acids
Theoretical weight: 14.59 KDa
Source organism: Homo sapiens
1123102030405060708090100110120
 
50100
UniProt
P42766
Chains
Domains
Flexibility predictions
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Chain: Li
Length: 105 amino acids
Theoretical weight: 12.29 KDa
Source organism: Homo sapiens
1105102030405060708090100
 
50100
UniProt
Q9Y3U8
Chains
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Chain: Lj
Length: 97 amino acids
Theoretical weight: 11.11 KDa
Source organism: Homo sapiens
197102030405060708090
 
50
UniProt
P61927
Chains
Domains
Ligand binding sites
Sequence conservation

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Chain: Lk
Length: 70 amino acids
Theoretical weight: 8.24 KDa
Source organism: Homo sapiens
170510152025303540455055606570
 
204060MPRKIEEIKDFLLTARRKDAKSVKIKKNKDNVKFKVRCSRYLYTLVITDKEKAEKLKQSLPPGLAVKELK
UniProt
P63173
Chains
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Chain: Ll
Length: 51 amino acids
Theoretical weight: 6.43 KDa
Source organism: Homo sapiens
1515101520253035404550
 
2040MSSHKTFRIKRFLAKKQKQNRPIPQWIRMKTGNKIRYNSKRRHWRRTKLGL
UniProt
P62891
Chains
Domains
Sequence conservation

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Chain: Lm
Length: 128 amino acids
Theoretical weight: 14.76 KDa
Source organism: Homo sapiens
1128102030405060708090100110120
 
50100
UniProt
P62987
PRO_0000396433
PRO_0000396434
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Chain: Ln
Length: 25 amino acids
Theoretical weight: 3.47 KDa
Source organism: Homo sapiens
12524681012141618202224
 
1020MRAKWRKKRMRRLKRKRRKMRQRSK
UniProt
P62945
Chains
Domains
Flexibility predictions
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Chain: Lo
Length: 106 amino acids
Theoretical weight: 12.49 KDa
Source organism: Homo sapiens
1106102030405060708090100
 
50100
UniProt
J3KQN4
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Domains
Ligand binding sites
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Chain: Lp
Length: 92 amino acids
Theoretical weight: 10.3 KDa
Source organism: Homo sapiens
192102030405060708090
 
20406080
UniProt
P61513
Chains
Domains
Ligand binding sites
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Chain: Lr
Length: 137 amino acids
Theoretical weight: 15.78 KDa
Source organism: Homo sapiens
1137102030405060708090100110120130
 
50100
UniProt
P46779
Chains
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Sequence conservation

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Chain: SA
Length: 295 amino acids
Theoretical weight: 32.88 KDa
Source organism: Homo sapiens
129520406080100120140160180200220240260280
 
100200
UniProt
P08865
Chains
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Chain: SB
Length: 264 amino acids
Theoretical weight: 30 KDa
Source organism: Homo sapiens
126420406080100120140160180200220240260
 
100200
UniProt
P61247
Chains
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Chain: SD
Length: 243 amino acids
Theoretical weight: 26.73 KDa
Source organism: Homo sapiens
124320406080100120140160180200220240
 
100200
UniProt
P23396
Chains
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Chain: SE
Length: 263 amino acids
Theoretical weight: 29.65 KDa
Source organism: Homo sapiens
126320406080100120140160180200220240260
 
100200
UniProt
P62701
Chains
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Sequence conservation

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Chain: SF
Length: 204 amino acids
Theoretical weight: 22.91 KDa
Source organism: Homo sapiens
120420406080100120140160180200
 
50100150200
UniProt
P46782
Chains
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Sequence conservation

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Chain: SH
Length: 194 amino acids
Theoretical weight: 22.17 KDa
Source organism: Homo sapiens
119420406080100120140160180
 
50100150
UniProt
P62081
Chains
Domains
Sequence conservation

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Chain: SI
Length: 208 amino acids
Theoretical weight: 24.26 KDa
Source organism: Homo sapiens
120820406080100120140160180200
 
50100150200
UniProt
P62241
Chains
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Chain: SK
Length: 165 amino acids
Theoretical weight: 18.93 KDa
Source organism: Homo sapiens
116520406080100120140160
 
50100150
UniProt
P46783
Chains
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Chain: SL
Length: 158 amino acids
Theoretical weight: 18.47 KDa
Source organism: Homo sapiens
115820406080100120140
 
50100150
UniProt
P62280
Chains
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Chain: SP
Length: 145 amino acids
Theoretical weight: 17.08 KDa
Source organism: Homo sapiens
114520406080100120140
 
50100
UniProt
P62841
Chains
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Sequence conservation

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Chain: SQ
Length: 146 amino acids
Theoretical weight: 16.48 KDa
Source organism: Homo sapiens
114620406080100120140
 
50100
UniProt
P62249
Chains
Domains
Sequence conservation

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Chain: SR
Length: 135 amino acids
Theoretical weight: 15.58 KDa
Source organism: Homo sapiens
1135102030405060708090100110120130
 
50100
UniProt
P08708
Chains
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Sequence conservation
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Chain: SS
Length: 152 amino acids
Theoretical weight: 17.76 KDa
Source organism: Homo sapiens
115220406080100120140
 
50100150
UniProt
P62269
Chains
Domains
Sequence conservation

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Chain: ST
Length: 145 amino acids
Theoretical weight: 16.09 KDa
Source organism: Homo sapiens
114520406080100120140
 
50100
UniProt
P39019
Chains
Domains
Ligand binding sites
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Chain: SU
Length: 119 amino acids
Theoretical weight: 13.4 KDa
Source organism: Homo sapiens
1119102030405060708090100110
 
50100
UniProt
P60866
Chains
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Chain: SV
Length: 83 amino acids
Theoretical weight: 9.12 KDa
Source organism: Homo sapiens
1831020304050607080
 
20406080MQNDAGEFVDLYVPRKCSASNRIIGAKDHASIQMNVAEVDKVTGRFNGQFKTYAICGAIRRMGESDDSILRLAKADGIVSKNF
UniProt
P63220
Chains
Domains
Sequence conservation

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Chain: SX
Length: 143 amino acids
Theoretical weight: 15.84 KDa
Source organism: Homo sapiens
114320406080100120140
 
50100
UniProt
P62266
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Chain: Sa
Length: 115 amino acids
Theoretical weight: 13.05 KDa
Source organism: Homo sapiens
1115102030405060708090100110
 
50100
UniProt
P62854
Chains
Domains
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Chain: Sc
Length: 69 amino acids
Theoretical weight: 7.86 KDa
Source organism: Homo sapiens
1695101520253035404550556065
 
204060MDTSRVQPIKLARVTKVLGRTGSQGQCTQVRVEFMDDTSRSIIRNVKGPVREGDVLTLLESEREARRLR
UniProt
P62857
Chains
Domains
Sequence conservation

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Chain: Sd
Length: 56 amino acids
Theoretical weight: 6.69 KDa
Source organism: Homo sapiens
156510152025303540455055
 
2040MGHQQLYWSHPRKFGQGSRSCRVCSNRHGLIRKYGLNMCRQCFRQYAKDIGFIKLD
UniProt
P62273
Chains
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Chain: Sg
Length: 317 amino acids
Theoretical weight: 35.12 KDa
Source organism: Homo sapiens
131720406080100120140160180200220240260280300
 
100200300
UniProt
P63244
Chains
Domains
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Chain: SC
Length: 293 amino acids
Theoretical weight: 31.38 KDa
Source organism: Homo sapiens
129320406080100120140160180200220240260280
 
100200
UniProt
P15880
Chains
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Chain: SG
Length: 249 amino acids
Theoretical weight: 28.75 KDa
Source organism: Homo sapiens
124920406080100120140160180200220240
 
100200
UniProt
P62753
Chains
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Chain: SJ
Length: 194 amino acids
Theoretical weight: 22.64 KDa
Source organism: Homo sapiens
119420406080100120140160180
 
50100150
UniProt
P46781
Chains
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Chain: SM
Length: 132 amino acids
Theoretical weight: 14.54 KDa
Source organism: Homo sapiens
1132102030405060708090100110120130
 
50100
UniProt
P25398
Chains
Domains
Sequence conservation

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Chain: SN
Length: 151 amino acids
Theoretical weight: 17.26 KDa
Source organism: Homo sapiens
115120406080100120140
 
50100150
UniProt
P62277
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Ligand binding sites
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Chain: SO
Length: 151 amino acids
Theoretical weight: 16.3 KDa
Source organism: Homo sapiens
115120406080100120140
 
50100150
UniProt
P62263
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Chain: SW
Length: 130 amino acids
Theoretical weight: 14.87 KDa
Source organism: Homo sapiens
1130102030405060708090100110120130
 
50100
UniProt
P62244
Chains
Domains
Sequence conservation

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Chain: SY
Length: 133 amino acids
Theoretical weight: 15.46 KDa
Source organism: Homo sapiens
1133102030405060708090100110120130
 
50100
UniProt
P62847
Chains
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Chain: SZ
Length: 125 amino acids
Theoretical weight: 13.78 KDa
Source organism: Homo sapiens
1125102030405060708090100110120
 
50100
UniProt
P62851
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Chain: Sb
Length: 84 amino acids
Theoretical weight: 9.48 KDa
Source organism: Homo sapiens
1841020304050607080
 
20406080MPLAKDLLHPSPEEEKRKHKKKRLVQSPNSYFMDVKCPGCYKITTVFSHAQTVVLCVGCSTVLCQPTGGKARLTEGCSFRRKQH
UniProt
P42677
Chains
Domains
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Chain: Se
Length: 59 amino acids
Theoretical weight: 6.67 KDa
Source organism: Homo sapiens
159510152025303540455055
 
204060KVHGSLARAGKVRGQTPKVAKQEKKKKKTGRAKRRMQYNRRFVNVVPTFGKKKGPNANS
UniProt
P62861
Chains
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Chain: Sf
Length: 156 amino acids
Theoretical weight: 18 KDa
Source organism: Homo sapiens
115620406080100120140
 
50100150
UniProt
P62979
PRO_0000396477
PRO_0000396478
Chains
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Sequence conservation

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Name: 28S ribosomal RNA
Representative chains: L1
Source organism: Homo sapiens [9606]
Length: 5070 nucleotides
Theoretical weight: 1641.25 KDa
Rfam: Eukaryotic large subunit ribosomal RNA
150705001,0001,5002,0002,5003,0003,5004,0004,5005,000
 
20004000
Chains
Chain A (auth L1)
Rfam
Ligand binding sites

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Name: 5S ribosomal RNA
Representative chains: L2
Source organism: Homo sapiens [9606]
Length: 120 nucleotides
Theoretical weight: 38.69 KDa
Rfam: 5S ribosomal RNA
1120102030405060708090100110120
 
50100
Chains
Chain B (auth L2)
Rfam
Ligand binding sites

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Name: 5.8S ribosomal RNA
Representative chains: L3
Source organism: Homo sapiens [9606]
Length: 156 nucleotides
Theoretical weight: 50.17 KDa
Rfam: 5.8S ribosomal RNA
115620406080100120140
 
50100150
Chains
Chain C (auth L3)
Rfam
Ligand binding sites

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Name: 18S Ribosomal RNA
Representative chains: S2
Source organism: Homo sapiens [9606]
Length: 1869 nucleotides
Theoretical weight: 603.62 KDa
Rfam: Eukaryotic small subunit ribosomal RNA
118692004006008001,0001,2001,4001,6001,800
 
50010001500
Chains
Chain TA (auth S2)
Rfam
Ligand binding sites

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