XPB-containing part of TFIIH in a post-translocated state (with ADP-BeF3)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 7nvv
Q-score: 0.499
Aibara S, Schilbach S, Cramer P
Nature (2021) 594 pp. 124-128 [ Pubmed: 33902107 DOI: doi:10.1038/s41586-021-03554-8 ]
- General transcription and dna repair factor iih helicase subunit xpb (89 kDa, Protein from Homo sapiens)
- Adenosine-5'-diphosphate (427 Da, Ligand)
- General transcription factor iie subunit 1 (49 kDa, Protein from Homo sapiens)
- Xpb-containing part of tfiih (150 kDa, Complex)
- Template dna (32 kDa, DNA from Human mastadenovirus C)
- Unassigned peptide, likely xpb (698 Da, Protein from Homo sapiens)
- General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 4 (52 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Beryllium trifluoride ion (66 Da, Ligand)
- Non-template dna (32 kDa, DNA from Human mastadenovirus C)
- Unassigned peptide, likely tfiie-beta (1 kDa, Protein from Homo sapiens)
Cryo-EM structure of human ER membrane protein complex in lipid nanodiscs
Resolution: 3.39 Å
EM Method: Single-particle
Fitted PDBs: 7ado
Q-score: 0.458
Miller-Vedam LE, Brauning B, Popova KD, Schirle Oakdale NT, Bonnar JL, Prabu JR, Boydston EA, Sevillano N, Shurtleff MJ, Stroud RM, Craik CS, Schulman BA, Frost A, Weissman JS
eLife (2020) 9 [ DOI: doi:10.7554/eLife.62611 Pubmed: 33236988 ]
- Er membrane protein complex subunit 10 (27 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 2 (34 kDa, Protein from Homo sapiens)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Er membrane protein complex subunit 1 (111 kDa, Protein from Homo sapiens)
- Unassigned helix (1 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 4 (20 kDa, Protein from Homo sapiens)
- 1,2-dioleoyl-sn-glycero-3-phosphocholine (787 Da, Ligand)
- Human endoplasmic reticulum membrane protein complex (emc) in popc nanodiscs (300 kDa, Complex from Homo sapiens)
- Er membrane protein complex subunit 3 (29 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 8 (23 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 7 (26 kDa, Protein from Homo sapiens)
- Membrane magnesium transporter 1 (15 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 6 (12 kDa, Protein from Homo sapiens)
Resolution: 3.2 Å
EM Method: Single-particle
Fitted PDBs: 7kra
Q-score: 0.474
Miller-Vedam LE, Brauning B, Popova KD, Schirle Oakdale NT, Bonnar JL, Prabu JR, Boydston EA, Sevillano N, Shurtleff MJ, Stroud RM, Craik CS, Schulman BA, Frost A, Weissman JS
eLife (2020) 9 [ DOI: doi:10.7554/eLife.62611 Pubmed: 33236988 ]
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Er membrane protein complex subunit 1 (87 kDa, Protein from Saccharomyces cerevisiae)
- Endoplasmic reticulum membrane protein complex subunit 10 (22 kDa, Protein from Saccharomyces cerevisiae)
- Er membrane protein complex subunit 2 (33 kDa, Protein from Saccharomyces cerevisiae)
- Fab dh4 heavy chain (26 kDa, Protein from Homo sapiens)
- Fab dh4 light chain (25 kDa, Protein from Homo sapiens)
- Er membrane protein complex subunit 4 (21 kDa, Protein from Saccharomyces cerevisiae)
- Unassigned helix (2 kDa, Protein from Saccharomyces cerevisiae)
- Fab dh4 (Complex from Homo sapiens)
- Er membrane protein complex subunit 3 (28 kDa, Protein from Saccharomyces cerevisiae)
- Protein sop4 (26 kDa, Protein from Saccharomyces cerevisiae)
- [(2~{r})-1-octanoyloxy-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propan-2-yl] nonanoate (524 Da, Ligand)
- Er membrane protein complex subunit 5 (20 kDa, Protein from Saccharomyces cerevisiae)
- Endoplasmic reticulum membrane protein complex (Complex from Saccharomyces cerevisiae)
- S. cerevisiae endoplasmic reticulum membrane protein complex (emc) bound to fab dh4 in yeast total extract lipid nanodiscs (Complex)
- Er membrane protein complex subunit 6 (12 kDa, Protein from Saccharomyces cerevisiae)
Resolution: 4.3 Å
EM Method: Single-particle
Fitted PDBs: 7ktx
Q-score: 0.287
Miller-Vedam LE, Brauning B, Popova KD, Schirle Oakdale NT, Bonnar JL, Prabu JR, Boydston EA, Sevillano N, Shurtleff MJ, Stroud RM, Craik CS, Schulman BA, Frost A, Weissman JS
eLife (2020) 9 [ DOI: doi:10.7554/eLife.62611 Pubmed: 33236988 ]
- Unassigned helix (2 kDa, Protein from Saccharomyces cerevisiae BY4743)
- Er membrane protein complex subunit 5 (20 kDa, Protein from Saccharomyces cerevisiae BY4743)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Fab dh4 light chain (25 kDa, Protein from Homo sapiens)
- Fab dh4 heavy chain (26 kDa, Protein from Homo sapiens)
- Protein sop4 (26 kDa, Protein from Saccharomyces cerevisiae BY4743)
- Endoplasmic reticulum membrane protein complex (Complex from Saccharomyces cerevisiae BY4743)
- Er membrane protein complex subunit 3 (28 kDa, Protein from Saccharomyces cerevisiae BY4743)
- Er membrane protein complex subunit 2 (33 kDa, Protein from Saccharomyces cerevisiae BY4743)
- Fab dh4 (Complex from Homo sapiens)
- Endoplasmic reticulum membrane protein complex subunit 10 (22 kDa, Protein from Saccharomyces cerevisiae BY4743)
- Er membrane protein complex subunit 4 (21 kDa, Protein from Saccharomyces cerevisiae BY4743)
- Er membrane protein complex subunit 1 (87 kDa, Protein from Saccharomyces cerevisiae BY4743)
- Er membrane protein complex subunit 6 (12 kDa, Protein from Saccharomyces cerevisiae BY4743)
- S. cerevisiae endoplasmic reticulum membrane protein complex (emc) bound to fab in ddm detergent (Complex)
Structure of Fanconi anaemia core complex (consensus map)
Resolution: 4.2 Å
EM Method: Single-particle
Fitted PDBs: 6sri
Q-score: 0.112
Shakeel S, Rajendra E, Alcon P, O'Reilly F, Chorev DS, Maslen S, Degliesposti G, Russo CJ, He S, Hill CH, Skehel JM, Scheres SHW, Patel KJ, Rappsilber J, Robinson CV, Passmore LA
Nature (2019) 575 pp. 234-237 [ Pubmed: 31666700 DOI: doi:10.1038/s41586-019-1703-4 ]
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (783 Da, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (3 kDa, Protein from Gallus gallus)
- Fanconi anaemia core complex (860 kDa, Complex from Gallus gallus)
- Fanconi anaemia protein fancl (42 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancb) (23 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (19 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancb) (10 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (top region, proposed fancg) (12 kDa, Protein from Gallus gallus)
- Base region, proposed fancf (17 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (6 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (5 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed faap100) (3 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed faap100) (23 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100: chain f,f; base region, proposed fancc-fanc-e-fancf: chain z) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (7 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (top region, proposed fancg) (24 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100: chain a,a; base region, proposed fancc-fanc-e-fancf: chain 3) (6 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (base region, proposed fancc-fanc-e-fancf) (9 kDa, Protein from Gallus gallus)
Structure of the Fanconi anaemia core subcomplex
Resolution: 4.6 Å
EM Method: Single-particle
Fitted PDBs: 6srs
Q-score: 0.135
Shakeel S, Rajendra E, Alcon P, O'Reilly F, Chorev DS, Maslen S, Degliesposti G, Russo CJ, He S, Hill CH, Skehel JM, Scheres SHW, Patel KJ, Rappsilber J, Robinson CV, Passmore LA
Nature (2019) 575 pp. 234-237 [ Pubmed: 31666700 DOI: doi:10.1038/s41586-019-1703-4 ]
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (783 Da, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (3 kDa, Protein from Gallus gallus)
- Fanconi anaemia core subcomplex (860 kDa, Complex from Gallus gallus)
- Unassigned secondary structure elements (proposed fancb) (23 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancb) (10 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Fanconi anaemia protein fancl (10 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed faap100) (3 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancg) (12 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed fancg) (24 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (proposed faap100) (23 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (1 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (6 kDa, Protein from Gallus gallus)
- Unassigned secondary structure elements (central region, proposed fancb-faap100) (2 kDa, Protein from Gallus gallus)
Resolution: 4.25 Å
EM Method: Single-particle
Fitted PDBs: 6nuw
Q-score: 0.342
eLife (2019) 8 [ Pubmed: 30762520 DOI: doi:10.7554/eLife.44239 ]
- Inner kinetochore subunit okp1 (47 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit iml3 (28 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit mcm22 (10 kDa, Protein from Saccharomyces cerevisiae S288c)
- Ctf19 complex (Complex from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit chl4 (53 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit mcm21 (43 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Unknown (unassigned) (1 kDa, Protein from Saccharomyces cerevisiae S288c)
- Inner kinetochore subunit ctf19 (42 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit nkp1 (27 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit ctf3,inner kinetochore subunit ctf3 (87 kDa, Protein from Saccharomyces cerevisiae S288c)
- Inner kinetochore subunit nkp2 (17 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
- Inner kinetochore subunit mcm16 (6 kDa, Protein from Saccharomyces cerevisiae S288c)
- Inner kinetochore subunit ame1 (38 kDa, Protein from Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Resolution: 3.7 Å
EM Method: Single-particle
Fitted PDBs: 6n38
Q-score: 0.409
Park YJ, Lacourse KD, Cambillau C, DiMaio F, Mougous JD, Veesler D
Nat Commun (2018) 9 pp. 5385-5385 [ Pubmed: 30568167 DOI: doi:10.1038/s41467-018-07796-5 ]
- Putative type vi secretion protein (66 kDa, Protein from Escherichia coli O44:H18 (strain 042 / EAEC))
- Unassigned protein (1 kDa, Protein from Escherichia coli O44:H18 (strain 042 / EAEC))
- Putative type vi secretion protein (36 kDa, Protein from Escherichia coli O44:H18 (strain 042 / EAEC))
- Tssk-tssf-tssg t6ss baseplate subcomplex (Complex from Escherichia coli O44:H18 (strain 042 / EAEC))
- Putative type vi secretion protein (33 kDa, Protein from Escherichia coli O44:H18 (strain 042 / EAEC))
The cryo-EM structure of human TFIIH
Resolution: 4.4 Å
EM Method: Single-particle
Fitted PDBs: 5of4
Q-score: 0.308
Greber BJ, Nguyen THD, Fang J, Afonine PV, Adams PD, Nogales E
Nature (2017) 549 pp. 414-417 [ Pubmed: 28902838 DOI: doi:10.1038/nature23903 ]
- General transcription factor iih subunit 3 (34 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 2 (44 kDa, Protein from Homo sapiens)
- Unassigned secondary structure elements (xpb nte region) (6 kDa, Protein from Homo sapiens)
- Tfiih basal transcription factor complex helicase xpd subunit (87 kDa, Protein from Homo sapiens)
- Unassigned secondary structure elements. (22 kDa, Protein from Homo sapiens)
- Unassigned secondary structure elements (p52 region) (19 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 5 (8 kDa, Protein from Homo sapiens)
- Tfiih cdk-activating kinase (cak) subcomplex (Complex from Homo sapiens)
- Iron/sulfur cluster (351 Da, Ligand)
- Tfiih (Complex from Homo sapiens)
- Tfiih core complex (Complex from Homo sapiens)
- Tfiih basal transcription factor complex helicase xpb subunit,xpb,tfiih basal transcription factor complex helicase xpb subunit (62 kDa, Protein from Homo sapiens)
- General transcription factor iih subunit 4,p52,general transcription factor iih subunit 4 (9 kDa, Protein from Homo sapiens)
- Mat1 (10 kDa, Protein from Homo sapiens)