HARIBOSS

Harnessing RIBOnucleic acid - Small molecules Structures

Complex 9h6i

System information

Experimental technique Electron Microscopy
Experimental resolution 2.20
System mass 3199.96 kDa
Deposition year 2024
Molecule type RNA/Protein
# RNA entities 1
Organism Arabidopsis
RCSB PDB Entry 9h6i
Reference Ko Donghwi, Ruonala Raili, Faille Alexandre, Hellmann Eva, Help Hanna, Liu Huili, Nielsen Ronni, Haakonsson Anders, De Diego Nuria, Paatero Anja, Shcherbii Mariia V., Stefanowicz Karolina, Ćavar Zeljković Sanja, Drud Lundager Rasmussen Tine, Novak Ondrej, Bodi Zsuzsanna, Eswaran Gugan, Wybouw Brecht, Bourdon Matthieu, Urbez Cristina, Liu Xiaonan, Salokas Kari, Öhman Tiina, Waldie Tanya, Törönen Petri, el-Showk Sedeer, Balcerowicz Martin, Besnard Fabrice, Liu Xiaomin, Perkins Patrick, Mazzoni-Putman Serina, Vainonen Julia P., Sierla Maija, Frilander Mikko J., Mandrup Susanne, Vernoux Teva, Ljung Karin, Ferrando Alejandro, Blazquez Miguel A., Holm Liisa, Fray Rupert, Varjosalo Markku, Leyser Ottoline, Paavilainen Ville O., Mähönen Ari Pekka, Stepanova Anna, Alonso Jose, Heber Steffen, Malinowski Robert, Kirpekar Finn, Warren Alan J., Helariutta Ykä. . Recruitment of bifunctional regulator thermospermine to methylated ribosomes directs xylem fate Science

Compound EPE
Residue . / 3402
Chain MC / A
Non-redundant True
Interacting RNA chains C/A
Volume 672.62 Å3
Hydrophobicity 0.307
Hydrophilicity 1.200
Buriedness 0.809
Don/acc character 1.081
SiteScore 1.074
D Score 1.035

Compound TER
Residue . / 201
Chain CC / 3
Non-redundant True
Interacting RNA chains B/3, C/A
Volume 154.35 Å3
Hydrophobicity 0.020
Hydrophilicity 1.134
Buriedness 0.628
Don/acc character 1.618
SiteScore 0.678
D Score 0.594

Compound TER
Residue . / 202
Chain DC / 3
Non-redundant True
Interacting RNA chains B/3, C/A
Volume -
Hydrophobicity -
Hydrophilicity -
Buriedness -
Don/acc character -
SiteScore -
D Score -

Compound TER
Residue . / 3403
Chain NC / A
Non-redundant True
Interacting RNA chains C/A
Volume 531.99 Å3
Hydrophobicity 0.223
Hydrophilicity 1.447
Buriedness 0.897
Don/acc character 1.148
SiteScore 1.099
D Score 0.963

Compound TER
Residue . / 3404
Chain OC / A
Non-redundant True
Interacting RNA chains C/A
Volume 416.40 Å3
Hydrophobicity 0.182
Hydrophilicity 1.297
Buriedness 0.723
Don/acc character 1.404
SiteScore 1.017
D Score 0.951

Compound TER
Residue . / 3405
Chain PC / A
Non-redundant True
Interacting RNA chains C/A
Volume 676.74 Å3
Hydrophobicity 0.273
Hydrophilicity 1.969
Buriedness 0.874
Don/acc character 0.750
SiteScore 1.117
D Score 0.822

Compound TER
Residue . / 3406
Chain QC / A
Non-redundant True
Interacting RNA chains B/3, C/A
Volume 109.76 Å3
Hydrophobicity 0.014
Hydrophilicity 0.899
Buriedness 0.525
Don/acc character 3.109
SiteScore 0.775
D Score 0.594

Compound TER
Residue . / 3407
Chain RC / A
Non-redundant True
Interacting RNA chains C/A
Volume 144.40 Å3
Hydrophobicity 0.110
Hydrophilicity 1.193
Buriedness 0.624
Don/acc character 3.500
SiteScore 0.852
D Score 0.800

Compound TER
Residue . / 3408
Chain SC / A
Non-redundant True
Interacting RNA chains C/A
Volume 793.70 Å3
Hydrophobicity 0.120
Hydrophilicity 1.858
Buriedness 0.784
Don/acc character 0.796
SiteScore 1.208
D Score 0.805

Compound TER
Residue . / 3409
Chain TC / A
Non-redundant True
Interacting RNA chains C/A
Volume 635.58 Å3
Hydrophobicity 0.232
Hydrophilicity 1.331
Buriedness 0.754
Don/acc character 1.010
SiteScore 1.187
D Score 0.958

Compound TER
Residue . / 3410
Chain UC / A
Non-redundant True
Interacting RNA chains C/A
Volume 233.58 Å3
Hydrophobicity 0.110
Hydrophilicity 1.222
Buriedness 0.714
Don/acc character 2.313
SiteScore 0.946
D Score 0.695

Compound TER
Residue . / 3411
Chain VC / A
Non-redundant True
Interacting RNA chains C/A
Volume 317.28 Å3
Hydrophobicity 0.049
Hydrophilicity 0.975
Buriedness 0.762
Don/acc character 2.104
SiteScore 0.724
D Score 0.538

Compound TER
Residue . / 3412
Chain WC / A
Non-redundant True
Interacting RNA chains B/3, C/A
Volume 536.11 Å3
Hydrophobicity 0.122
Hydrophilicity 1.039
Buriedness 0.684
Don/acc character 2.061
SiteScore 0.991
D Score 1.011

Compound TER
Residue . / 3413
Chain XC / A
Non-redundant True
Interacting RNA chains C/A
Volume 210.95 Å3
Hydrophobicity 0.022
Hydrophilicity 1.368
Buriedness 0.608
Don/acc character 1.070
SiteScore 0.932
D Score 0.849

Compound TER
Residue . / 3414
Chain YC / A
Non-redundant True
Interacting RNA chains C/A
Volume 206.83 Å3
Hydrophobicity 0.037
Hydrophilicity 1.252
Buriedness 0.871
Don/acc character 1.475
SiteScore 0.784
D Score 0.629

Compound TER
Residue . / 3415
Chain ZC / A
Non-redundant True
Interacting RNA chains B/3, C/A
Volume 778.27 Å3
Hydrophobicity 0.148
Hydrophilicity 1.215
Buriedness 0.766
Don/acc character 1.918
SiteScore 1.045
D Score 1.003

Compound TER
Residue . / 3416
Chain AD / A
Non-redundant True
Interacting RNA chains C/A
Volume 323.45 Å3
Hydrophobicity 0.051
Hydrophilicity 1.139
Buriedness 0.674
Don/acc character 1.802
SiteScore 0.809
D Score 0.749

Compound TER
Residue . / 3417
Chain BD / A
Non-redundant True
Interacting RNA chains C/A
Volume 109.42 Å3
Hydrophobicity 0.194
Hydrophilicity 1.055
Buriedness 0.575
Don/acc character 1.508
SiteScore 0.749
D Score 0.533

Compound TER
Residue . / 3418
Chain CD / A
Non-redundant True
Interacting RNA chains C/A
Volume 761.80 Å3
Hydrophobicity 0.184
Hydrophilicity 1.449
Buriedness 0.806
Don/acc character 1.404
SiteScore 1.072
D Score 0.951

Compound TER
Residue . / 3419
Chain DD / A
Non-redundant True
Interacting RNA chains C/A
Volume 590.65 Å3
Hydrophobicity 0.271
Hydrophilicity 1.458
Buriedness 0.806
Don/acc character 1.032
SiteScore 1.222
D Score 0.948

Compound TER
Residue . / 3420
Chain ED / A
Non-redundant True
Interacting RNA chains B/3, C/A
Volume 773.81 Å3
Hydrophobicity 0.486
Hydrophilicity 1.179
Buriedness 0.886
Don/acc character 1.066
SiteScore 1.125
D Score 1.087

Compound TER
Residue . / 3421
Chain FD / A
Non-redundant True
Interacting RNA chains A/2, C/A
Volume 782.38 Å3
Hydrophobicity 0.149
Hydrophilicity 1.231
Buriedness 0.773
Don/acc character 1.577
SiteScore 1.200
D Score 1.002

Compound TER
Residue . / 1901
Chain CR / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 680.86 Å3
Hydrophobicity 0.110
Hydrophilicity 1.266
Buriedness 0.828
Don/acc character 2.484
SiteScore 1.130
D Score 0.887

Compound TER
Residue . / 1902
Chain DR / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 238.73 Å3
Hydrophobicity 0.215
Hydrophilicity 0.843
Buriedness 0.658
Don/acc character 4.160
SiteScore 0.920
D Score 0.751

Compound TER
Residue . / 1903
Chain ER / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 318.65 Å3
Hydrophobicity 0.011
Hydrophilicity 1.202
Buriedness 0.668
Don/acc character 1.771
SiteScore 0.969
D Score 0.743

Compound TER
Residue . / 1904
Chain FR / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 310.07 Å3
Hydrophobicity 0.281
Hydrophilicity 1.238
Buriedness 0.787
Don/acc character 1.388
SiteScore 0.946
D Score 0.670

Compound TER
Residue . / 1905
Chain GR / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 503.87 Å3
Hydrophobicity 0.300
Hydrophilicity 1.384
Buriedness 0.792
Don/acc character 1.572
SiteScore 1.213
D Score 0.964

Compound TER
Residue . / 1906
Chain HR / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 665.76 Å3
Hydrophobicity 0.485
Hydrophilicity 1.073
Buriedness 0.827
Don/acc character 1.417
SiteScore 1.236
D Score 1.086