Structure of VCP in complex with an ATPase activator (D2 domains only, hexameric form)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 8vku
Q-score: 0.465
Jones NH, Liu Q, Urnavicius L, Dahan NE, Vostal LE, Kapoor TM
PNAS (2024) 121 pp. e2316892121-e2316892121 [ DOI: doi:10.1073/pnas.2316892121 Pubmed: 38833472 ]
Structure of VCP in complex with an ATPase activator (D2 domains only, dodecameric form)
Resolution: 2.9 Å
EM Method: Single-particle
Fitted PDBs: 8vls
Q-score: 0.541
Jones NH, Liu Q, Urnavicius L, Dahan NE, Vostal LE, Kapoor TM
PNAS (2024) 121 pp. e2316892121-e2316892121 [ DOI: doi:10.1073/pnas.2316892121 Pubmed: 38833472 ]
Structure of VCP in complex with an ATPase activator and ADP (D2 domains only, hexameric form)
Resolution: 3.6 Å
EM Method: Single-particle
Fitted PDBs: 8vov
Q-score: 0.508
Jones NH, Liu Q, Urnavicius L, Dahan NE, Vostal LE, Kapoor TM
PNAS (2024) 121 pp. e2316892121-e2316892121 [ DOI: doi:10.1073/pnas.2316892121 Pubmed: 38833472 ]
- Transitional endoplasmic reticulum atpase (89 kDa, Protein from Homo sapiens)
- Complex of vcp with adp and atpase activator small molecule vaa1 (Complex from Homo sapiens)
- (3r)-n-[2-(ethylsulfanyl)phenyl]-3-(1-oxo-1,3-dihydro-2h-isoindol-2-yl)butanamide (354 Da, Ligand)
- Adenosine-5'-diphosphate (427 Da, Ligand)
Resolution: 4.5 Å
EM Method: Single-particle
Fitted PDBs: 8va2
Q-score: 0.36
Aher A, Urnavicius L, Xue A, Neselu K, Kapoor TM
Nat Struct Mol Biol (2024) 31 pp. 1124-1133 [ Pubmed: 38609661 DOI: doi:10.1038/s41594-024-01264-z ]
- Gamma-tubulin and alpha-tubulin (Complex from Trichoplusia ni)
- Magnesium ion (24 Da, Ligand)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Tubulin alpha-1b chain (51 kDa, Protein from Homo sapiens)
- Tubulin gamma-1 chain (50 kDa, Protein from Homo sapiens)
Density map for free recombinant gamma tubulin ring complex
Resolution: 7.0 Å
EM Method: Single-particle
Fitted PDBs: 8vrd
Q-score: 0.18
Aher A, Urnavicius L, Xue A, Neselu K, Kapoor TM
Nat Struct Mol Biol (2024) 31 pp. 1124-1133 [ Pubmed: 38609661 DOI: doi:10.1038/s41594-024-01264-z ]
- Gamma-tubulin complex component 5 (118 kDa, Protein from Homo sapiens)
- Isoform 3 of gamma-tubulin complex component 2 (105 kDa, Protein from Homo sapiens)
- Isoform 2 of gamma-tubulin complex component 4 (76 kDa, Protein from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Homo sapiens)
- Tubulin gamma-1 chain (52 kDa, Protein from Homo sapiens)
- Tubgcp6 protein (199 kDa, Protein from Homo sapiens)
- Mitotic-spindle organizing protein 1 (8 kDa, Protein from Homo sapiens)
- Gamma tubulin ring complex (Complex from Homo sapiens)
- Gamma-tubulin complex component 3 (103 kDa, Protein from Homo sapiens)
Density map for gamma tubulin ring complex capped microtubule
Resolution: 7.7 Å
EM Method: Single-particle
Fitted PDBs: 8vrj
Q-score: 0.179
Aher A, Urnavicius L, Xue A, Neselu K, Kapoor TM
Nat Struct Mol Biol (2024) 31 pp. 1124-1133 [ Pubmed: 38609661 DOI: doi:10.1038/s41594-024-01264-z ]
- Gamma-tubulin complex component 5 (118 kDa, Protein from Homo sapiens)
- Isoform 3 of gamma-tubulin complex component 2 (105 kDa, Protein from Homo sapiens)
- Tubulin beta-3 chain (51 kDa, Protein from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Homo sapiens)
- Isoform 2 of gamma-tubulin complex component 4 (76 kDa, Protein from Homo sapiens)
- Tubulin gamma-1 chain (52 kDa, Protein from Homo sapiens)
- Tubgcp6 protein (199 kDa, Protein from Homo sapiens)
- Mitotic-spindle organizing protein 1 (8 kDa, Protein from Homo sapiens)
- Tubulin alpha-1b chain (51 kDa, Protein from Homo sapiens)
- Gamma tubulin ring complex bound to microtubule minus end (Complex from Homo sapiens)
- Gamma-tubulin complex component 3 (103 kDa, Protein from Homo sapiens)
Refined density map of gamma tubulin ring complex capped microtubule
Resolution: 8.5 Å
EM Method: Single-particle
Fitted PDBs: 8vrk
Q-score: 0.198
Aher A, Urnavicius L, Xue A, Neselu K, Kapoor TM
Nat Struct Mol Biol (2024) 31 pp. 1124-1133 [ Pubmed: 38609661 DOI: doi:10.1038/s41594-024-01264-z ]
- Gamma-tubulin complex component 5 (118 kDa, Protein from Homo sapiens)
- Isoform 3 of gamma-tubulin complex component 2 (105 kDa, Protein from Homo sapiens)
- Tubulin beta-3 chain (51 kDa, Protein from Homo sapiens)
- Actin, cytoplasmic 1 (41 kDa, Protein from Homo sapiens)
- Isoform 2 of gamma-tubulin complex component 4 (76 kDa, Protein from Homo sapiens)
- Tubulin gamma-1 chain (52 kDa, Protein from Homo sapiens)
- Tubgcp6 protein (199 kDa, Protein from Homo sapiens)
- Mitotic-spindle organizing protein 1 (8 kDa, Protein from Homo sapiens)
- Tubulin alpha-1b chain (51 kDa, Protein from Homo sapiens)
- Gamma tubulin ring complex bound to microtubule minus end (Complex from Homo sapiens)
- Gamma-tubulin complex component 3 (103 kDa, Protein from Homo sapiens)
Structure of the gamma tubulin ring complex nucleated microtubule protofilament.
Resolution: 2.66 Å
EM Method: Single-particle
Fitted PDBs: 8vt7
Q-score: 0.59
Aher A, Urnavicius L, Xue A, Neselu K, Kapoor TM
Nat Struct Mol Biol (2024) 31 pp. 1124-1133 [ Pubmed: 38609661 DOI: doi:10.1038/s41594-024-01264-z ]
- Tubulin beta-3 chain (51 kDa, Protein from Homo sapiens)
- Gamma tubulin ring complex nucleated microtubule (Complex from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Guanosine-5'-diphosphate (443 Da, Ligand)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Tubulin alpha-1b chain (51 kDa, Protein from Homo sapiens)
Resolution: 3.5 Å
EM Method: Single-particle
Fitted PDBs: 7mi3
Q-score: 0.441
Santarossa CC, Mickolajczyk KJ, Steinman JB, Urnavicius L, Chen N, Hirata Y, Fukase Y, Coudray N, Ekiert DC, Bhabha G, Kapoor TM
Cell Chem Biol (2021) 28 pp. 1460-1473.e15 [ Pubmed: 34015309 DOI: doi:10.1016/j.chembiol.2021.04.024 ]
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Dynein motor domain in the presence of a pyrazolo-pyrimidinone-based compound (300 kDa, Complex from Saccharomyces cerevisiae)
- Fusion protein of dynein and endolysin (304 kDa, Protein from Saccharomyces cerevisiae)
- (8s)-6-(3-bromophenoxy)-2-[1-(4-chlorophenyl)cyclopropyl]-7-hydroxypyrazolo[1,5-a]pyrimidine-3-carbonitrile (481 Da, Ligand)
Yeast dynein motor domain in the presence of a pyrazolo-pyrimidinone-based compound, Map 1
Resolution: 3.9 Å
EM Method: Single-particle
Fitted PDBs: 7mi6
Q-score: 0.339
Santarossa CC, Mickolajczyk KJ, Steinman JB, Urnavicius L, Chen N, Hirata Y, Fukase Y, Coudray N, Ekiert DC, Bhabha G, Kapoor TM
Cell Chem Biol (2021) 28 pp. 1460-1473.e15 [ Pubmed: 34015309 DOI: doi:10.1016/j.chembiol.2021.04.024 ]
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Magnesium ion (24 Da, Ligand)
- Dynein motor domain in the presence of a pyrazolo-pyrimidinone-based compound (300 kDa, Complex from Saccharomyces cerevisiae)
- Fusion protein of dynein and endolysin (304 kDa, Protein from Saccharomyces cerevisiae)
- (8s)-6-(3-bromophenoxy)-2-[1-(4-chlorophenyl)cyclopropyl]-7-hydroxypyrazolo[1,5-a]pyrimidine-3-carbonitrile (481 Da, Ligand)