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initial_angle_assignment_type:"MAXIMUM LIKELIHOOD" AND xref_links:"pdb" AND citation_journal_name:"TO BE PUBLISHED" AND assembly_molecular_weight:{1000000 TO 2000000]
Atomic model of the mammalian Mediator complex with MED26 subunit
Zhao H, Li J, Xiang Y, Malik S, Young N, Ryner M, Conte A, Roeder R, Shi Y, Casellas R, Asturias F
To Be Published
Sample:
- Mediator of rna polymerase ii transcription subunit 11 (13 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 31 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 10 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 28 (19 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 17 (72 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 21 (15 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 14 (161 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 29 (21 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 20 (23 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 30 (20 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 9 (15 kDa, Protein from Mus musculus)
- Mouse mediator complex (1 MDa, Complex from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 4 (29 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 23 (156 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 24 (110 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 25 (78 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 27 (35 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 19 (25 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 15 (86 kDa, Protein from Mus musculus)
- Unknown peptide (1 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 1 (167 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 22 (22 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 7 (27 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 8 (29 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 18 (23 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 26 (64 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 6 (28 kDa, Protein from Mus musculus)
- Mediator of rna polymerase ii transcription subunit 16 (91 kDa, Protein from Mus musculus)
Photorhabdus luminescens TcdA1 prepore-to-pore intermediate, K1179W mutant
Release date: March 13, 2024
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8cpz
Q-score: 0.526
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8cpz
Q-score: 0.526
Nganga PN, Folz J, Kucher S, Roderer D, Xu Y, Sitsel O, Belyy A, Prumbaum D, Assafa TE, Kuehnemuth R, Dong M, Seidel C, Bordignon E, Raunser S
To Be Published
Sample:
- Tcda1 (1 MDa, Complex from Photorhabdus luminescens)
- Tcda1 (285 kDa, Protein from Photorhabdus luminescens)
Photorhabdus luminescens TcdA1 prepore-to-pore intermediate, K567W K2008W mutant
Release date: March 13, 2024
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8cq0
Q-score: 0.466
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8cq0
Q-score: 0.466
Nganga PN, Folz J, Kucher S, Roderer D, Xu Y, Sitsel O, Belyy A, Prumbaum D, Assafa TE, Kuehnemuth R, Dong M, Seidel C, Bordignon E, Raunser S
To Be Published
Sample:
- Tcda1 (285 kDa, Protein from Photorhabdus luminescens)
- Tcda1 (1 MDa, Complex from Photorhabdus luminescens)
Photorhabdus luminescens TcdA1 prepore-to-pore intermediate, C16S, C20S, C870S, T1279C mutant
Release date: March 13, 2024
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8cq2
Q-score: 0.448
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8cq2
Q-score: 0.448
Nganga PN, Folz J, Kucher S, Roderer D, Xu Y, Sitsel O, Belyy A, Prumbaum D, Assafa TE, Kuehnemuth R, Dong M, Seidel C, Bordignon E, Raunser S
To Be Published
Sample:
- Tcda1 (285 kDa, Protein from Photorhabdus luminescens)
- Tcda1 (1 MDa, Complex from Photorhabdus luminescens)
Release date: March 13, 2024
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8s4g
Q-score: 0.37
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 8s4g
Q-score: 0.37
Hoefler A, Yu J, Chang L, Zhang Z, Yang J, Boland A, Barford D
To Be Published
Sample:
- Anaphase-promoting complex subunit 5 (85 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 13 (8 kDa, Protein from Homo sapiens)
- F-box only protein 5 (50 kDa, Protein from Homo sapiens)
- Cell division cycle protein 23 homolog (68 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 16 (11 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 10 (21 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 7 (66 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Anaphase-promoting complex subunit 1 (216 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 11 (9 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex (apc/c) bound to co-activator cdh1 (1 MDa, Complex from Homo sapiens)
- Anaphase-promoting complex subunit cdc26 (9 kDa, Protein from Homo sapiens)
- Fizzy-related protein homolog (55 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 4 (93 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 15 (14 kDa, Protein from Homo sapiens)
- Cell division cycle protein 27 homolog (91 kDa, Protein from Homo sapiens)
- Anaphase-promoting complex subunit 2 (93 kDa, Protein from Homo sapiens)
- Cell division cycle protein 16 homolog (71 kDa, Protein from Homo sapiens)
Glutamine synthetase from Pseudomonas aeruginosa, filament double-unit in compressed conformation
Release date: Feb. 14, 2024
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8fbp
Q-score: 0.082
Resolution: 2.8 Å
EM Method: Single-particle
Fitted PDBs: 8fbp
Q-score: 0.082
Yeast 40S-eIF4B - partially open conformation of the 40S head
Release date: Feb. 7, 2024
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 8i7j
Q-score: 0.316
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 8i7j
Q-score: 0.316
To Be Published
Sample:
- 40s ribosomal protein s8 (22 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s27 (8 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s7 (21 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Ubiquitin-40s ribosomal protein s27a (17 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0f07843p (15 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0d08305p (26 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s21 (9 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0d10659p (25 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s29 (6 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0b11231p (16 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s25 (12 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s6 (26 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0e23673p (21 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s28 (7 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- The binary complex of the yeast 40s small ribosomal subunit with the eukaryotic initiation factor 4b. (Complex from Saccharomyces cerevisiae S288c)
- Klla0b08173p (12 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0b01562p (17 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Zinc ion (65 Da, Ligand)
- Klla0b01474p (15 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0e12277p (35 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0f09812p (27 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0f18040p (16 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s14 (14 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s30 (7 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Eukaryotic initiation factor 4b (eif4b). (Complex from Kluyveromyces lactis Saccharomyces cerevisiae S288c)
- Klla0a10483p (17 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s16 (15 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Magnesium ion (24 Da, Ligand)
- Klla0a07194p (15 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Rna (1780-mer) (579 kDa, RNA from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s24 (15 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s26 (13 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 60s ribosomal protein l41-a (3 kDa, Protein from Saccharomyces cerevisiae S288C)
- 40s ribosomal protein s0 (28 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Yeast 40s small ribosomal subunit (Complex)
- 40s ribosomal protein s1 (28 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s4 (29 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0b07931p (14 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- 40s ribosomal protein s12 (14 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
- Klla0f25542p (13 kDa, Protein from Kluyveromyces lactis NRRL Y-1140)
cryo-EM structure of the human spliceosomal B complex protomer (tri-snRNP core region)
Release date: Jan. 24, 2024
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8q7n
Q-score: 0.463
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8q7n
Q-score: 0.463
Zhang Z, Kumar V, Dybkov O, Will CL, Urlaub H, Stark H, Luehrmann R
To Be Published
Sample:
- U4/u6.u5 tri-snrnp-associated protein 1 (90 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor 38a (37 kDa, Protein from Homo sapiens)
- Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
- Minx pre-mrna (111 kDa, RNA from Homo sapiens)
- Ubiquitin-like protein 5 (8 kDa, Protein from Homo sapiens)
- U6 snrna (34 kDa, RNA from Homo sapiens)
- Ww domain-binding protein 4 (42 kDa, Protein from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
- Nhp2-like protein 1, n-terminally processed (14 kDa, Protein from Homo sapiens)
- Human pre-catalytic spliceosome (Complex from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
- Zinc finger matrin-type protein 2 (23 kDa, Protein from Homo sapiens)
- Transcription elongation regulator 1 (124 kDa, Protein from Homo sapiens)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
- 116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
- Microfibrillar-associated protein 1 (52 kDa, Protein from Homo sapiens)
- Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
- U5 snrna (37 kDa, RNA from Homo sapiens)
- Protein bud31 homolog (17 kDa, Protein from Homo sapiens)
- U4 snrna (46 kDa, RNA from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp3 (77 kDa, Protein from Homo sapiens)
Rat Kidney V-ATPase with SidK, State 1
Release date: Nov. 22, 2023
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7uzf
Q-score: 0.332
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 7uzf
Q-score: 0.332
To Be Published
Sample:
- Rat kidney v-atpase with sidk (Complex from Rattus norvegicus)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit f (13 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit h (55 kDa, Protein from Rattus norvegicus)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 2 (9 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- Ribonuclease k (11 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- V-type proton atpase 116 kda subunit a isoform 1 (96 kDa, Protein from Rattus norvegicus)
- Renin receptor (39 kDa, Protein from Rattus norvegicus)
- V-type proton atpase 16 kda proteolipid subunit (15 kDa, Protein from Rattus norvegicus)
- Atpase, h+ transporting, v0 subunit b (predicted), isoform cra_a (21 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit c 1 (43 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit s1 (51 kDa, Protein from Rattus norvegicus)
- Effector sidk (32 kDa, Protein from Legionella pneumophila)
- V-type proton atpase subunit (40 kDa, Protein from Rattus norvegicus)
Rat Kidney V-ATPase lacking subunit H, with SidK and NCOA7B, State 1
Release date: Nov. 22, 2023
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7uzg
Q-score: 0.35
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 7uzg
Q-score: 0.35
To Be Published
Sample:
- Rat kidney v-atpase with sidk (Complex from Rattus norvegicus)
- V-type proton atpase subunit g (13 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit f (13 kDa, Protein from Rattus norvegicus)
- Legionella pneumophila effector sidk (34 kDa, Protein from Legionella pneumophila)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- Atpase h+-transporting v1 subunit d (28 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 2 (9 kDa, Protein from Rattus norvegicus)
- Atpase h+-transporting v1 subunit a (68 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit b, brain isoform (56 kDa, Protein from Rattus norvegicus)
- Ribonuclease k (11 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit e 1 (26 kDa, Protein from Rattus norvegicus)
- V-type proton atpase 116 kda subunit a isoform 1 (96 kDa, Protein from Rattus norvegicus)
- Renin receptor (39 kDa, Protein from Rattus norvegicus)
- V-type proton atpase 16 kda proteolipid subunit (15 kDa, Protein from Rattus norvegicus)
- Atpase, h+ transporting, v0 subunit b (predicted), isoform cra_a (21 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit c 1 (43 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit s1 (51 kDa, Protein from Rattus norvegicus)
- Nuclear receptor coactivator 7 (19 kDa, Protein from Rattus norvegicus)
- V-type proton atpase subunit (40 kDa, Protein from Rattus norvegicus)