HARIBOSS

Harnessing RIBOnucleic acid - Small molecules Structures

Complex 9hes

System information

Experimental technique Electron Microscopy
Experimental resolution 2.25
System mass 3199.91 kDa
Deposition year 2024
Molecule type RNA/Protein
# RNA entities 1
Organism Arabidopsis
RCSB PDB Entry 9hes
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 B/A
Volume 692.52 Å3
Hydrophobicity 0.343
Hydrophilicity 1.152
Buriedness 0.813
Don/acc character 1.313
SiteScore 1.077
D Score 1.052

Compound TER
Residue . / 201
Chain CC / 3
Non-redundant True
Interacting RNA chains B/A, A/3
Volume 156.75 Å3
Hydrophobicity 0.037
Hydrophilicity 1.066
Buriedness 0.614
Don/acc character 1.246
SiteScore 0.626
D Score 0.553

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

Compound TER
Residue . / 3403
Chain NC / A
Non-redundant True
Interacting RNA chains B/A
Volume 463.05 Å3
Hydrophobicity 0.284
Hydrophilicity 1.400
Buriedness 0.901
Don/acc character 1.033
SiteScore 1.113
D Score 0.995

Compound TER
Residue . / 3404
Chain OC / A
Non-redundant True
Interacting RNA chains B/A
Volume 451.73 Å3
Hydrophobicity 0.215
Hydrophilicity 1.105
Buriedness 0.709
Don/acc character 1.502
SiteScore 1.157
D Score 1.005

Compound TER
Residue . / 3405
Chain PC / A
Non-redundant True
Interacting RNA chains B/A
Volume 662.68 Å3
Hydrophobicity 0.186
Hydrophilicity 2.041
Buriedness 0.876
Don/acc character 0.813
SiteScore 1.119
D Score 0.800

Compound TER
Residue . / 3406
Chain QC / A
Non-redundant True
Interacting RNA chains B/A, A/3
Volume 67.23 Å3
Hydrophobicity 0.022
Hydrophilicity 0.849
Buriedness 0.482
Don/acc character 3.931
SiteScore 0.724
D Score 0.544

Compound TER
Residue . / 3407
Chain RC / A
Non-redundant True
Interacting RNA chains B/A
Volume 166.01 Å3
Hydrophobicity 0.152
Hydrophilicity 1.049
Buriedness 0.613
Don/acc character 3.128
SiteScore 0.910
D Score 0.923

Compound TER
Residue . / 3408
Chain SC / A
Non-redundant True
Interacting RNA chains B/A
Volume 794.39 Å3
Hydrophobicity 0.145
Hydrophilicity 1.909
Buriedness 0.788
Don/acc character 0.811
SiteScore 1.210
D Score 0.791

Compound TER
Residue . / 3409
Chain TC / A
Non-redundant True
Interacting RNA chains B/A
Volume 171.84 Å3
Hydrophobicity 0.158
Hydrophilicity 1.468
Buriedness 0.690
Don/acc character 1.513
SiteScore 0.920
D Score 0.587

Compound TER
Residue . / 3410
Chain UC / A
Non-redundant True
Interacting RNA chains B/A
Volume 245.93 Å3
Hydrophobicity 0.060
Hydrophilicity 1.135
Buriedness 0.664
Don/acc character 2.001
SiteScore 0.953
D Score 0.745

Compound TER
Residue . / 3411
Chain VC / A
Non-redundant True
Interacting RNA chains B/A
Volume 565.26 Å3
Hydrophobicity 0.197
Hydrophilicity 1.252
Buriedness 0.783
Don/acc character 1.170
SiteScore 1.146
D Score 0.923

Compound TER
Residue . / 3412
Chain WC / A
Non-redundant True
Interacting RNA chains B/A, A/3
Volume 773.81 Å3
Hydrophobicity 0.121
Hydrophilicity 1.125
Buriedness 0.700
Don/acc character 1.657
SiteScore 1.001
D Score 0.993

Compound TER
Residue . / 3413
Chain XC / A
Non-redundant True
Interacting RNA chains B/A
Volume 319.33 Å3
Hydrophobicity 0.057
Hydrophilicity 1.386
Buriedness 0.657
Don/acc character 0.754
SiteScore 0.972
D Score 0.882

Compound TER
Residue . / 3414
Chain YC / A
Non-redundant True
Interacting RNA chains B/A
Volume 205.11 Å3
Hydrophobicity 0.020
Hydrophilicity 1.226
Buriedness 0.870
Don/acc character 1.405
SiteScore 0.741
D Score 0.583

Compound TER
Residue . / 3415
Chain ZC / A
Non-redundant True
Interacting RNA chains B/A, A/3
Volume 358.44 Å3
Hydrophobicity 0.255
Hydrophilicity 1.182
Buriedness 0.775
Don/acc character 2.435
SiteScore 0.733
D Score 0.612

Compound TER
Residue . / 3416
Chain AD / A
Non-redundant True
Interacting RNA chains B/A
Volume 346.43 Å3
Hydrophobicity 0.162
Hydrophilicity 0.938
Buriedness 0.656
Don/acc character 2.011
SiteScore 0.898
D Score 0.907

Compound TER
Residue . / 3417
Chain BD / A
Non-redundant True
Interacting RNA chains B/A
Volume 38.07 Å3
Hydrophobicity 0.017
Hydrophilicity 1.047
Buriedness 0.478
Don/acc character 1.475
SiteScore 0.697
D Score 0.494

Compound TER
Residue . / 3418
Chain CD / A
Non-redundant True
Interacting RNA chains B/A
Volume 708.64 Å3
Hydrophobicity 0.238
Hydrophilicity 1.375
Buriedness 0.812
Don/acc character 1.762
SiteScore 1.076
D Score 0.979

Compound TER
Residue . / 3419
Chain DD / A
Non-redundant True
Interacting RNA chains B/A
Volume 604.02 Å3
Hydrophobicity 0.235
Hydrophilicity 1.544
Buriedness 0.795
Don/acc character 0.836
SiteScore 1.065
D Score 0.914

Compound TER
Residue . / 3420
Chain ED / A
Non-redundant True
Interacting RNA chains B/A, A/3
Volume 778.61 Å3
Hydrophobicity 0.490
Hydrophilicity 1.210
Buriedness 0.882
Don/acc character 0.860
SiteScore 1.123
D Score 1.075

Compound TER
Residue . / 3421
Chain FD / A
Non-redundant True
Interacting RNA chains B/A, C/2
Volume 794.05 Å3
Hydrophobicity 0.130
Hydrophilicity 1.309
Buriedness 0.770
Don/acc character 1.436
SiteScore 1.198
D Score 0.975

Compound TER
Residue . / 1901
Chain ZQ / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 700.75 Å3
Hydrophobicity 0.113
Hydrophilicity 1.507
Buriedness 0.866
Don/acc character 1.368
SiteScore 1.263
D Score 0.969

Compound TER
Residue . / 1902
Chain AR / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 233.24 Å3
Hydrophobicity 0.472
Hydrophilicity 1.229
Buriedness 0.814
Don/acc character 1.193
SiteScore 0.889
D Score 0.594

Compound TER
Residue . / 1903
Chain BR / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 300.81 Å3
Hydrophobicity 0.016
Hydrophilicity 1.180
Buriedness 0.666
Don/acc character 1.232
SiteScore 1.013
D Score 0.807

Compound TER
Residue . / 1904
Chain CR / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 333.05 Å3
Hydrophobicity 0.146
Hydrophilicity 1.162
Buriedness 0.780
Don/acc character 1.571
SiteScore 0.940
D Score 0.629

Compound TER
Residue . / 1905
Chain DR / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 232.21 Å3
Hydrophobicity 0.048
Hydrophilicity 1.413
Buriedness 0.729
Don/acc character 1.533
SiteScore 0.836
D Score 0.680

Compound TER
Residue . / 1906
Chain ER / h1
Non-redundant True
Interacting RNA chains WB/h1
Volume 656.85 Å3
Hydrophobicity 0.679
Hydrophilicity 1.016
Buriedness 0.831
Don/acc character 1.150
SiteScore 1.244
D Score 1.107