Structure of the human IgM B cell receptor
Science () [ DOI: doi:10.1126/science.abo392 ]
Cryo-EM structure of the NR subunit from X. laevis NPC
Resolution: 5.6 Å
EM Method: Single-particle
Fitted PDBs: 7wb4
Q-score: 0.214
Huang G, Zhan X, Zeng C, Zhu X, Liang K, Zhao Y, Wang P, Wang Q, Zhou Q, Tao Q, Liu M, Lei J, Yan C, Shi Y
Cell Res (2022) 32 pp. 349-358 [ DOI: doi:10.1038/s41422-021-00610-w Pubmed: 35177819 ]
- Protein elys (268 kDa, Protein from Xenopus laevis)
- Mgc83295 protein (227 kDa, Protein from Xenopus laevis)
- Nucleoporin seh1-b (39 kDa, Protein from Xenopus laevis)
- Nup155-prov protein (154 kDa, Protein from Xenopus laevis)
- Mgc154553 protein (41 kDa, Protein from Xenopus laevis)
- Mgc83926 protein (36 kDa, Protein from Xenopus laevis)
- Nuclear pore complex protein nup93 (93 kDa, Protein from Xenopus laevis)
- Outer nup133 (127 kDa, Protein from Xenopus laevis)
- The nr subunit (Complex from Xenopus laevis)
- Outer nup160 (162 kDa, Protein from Xenopus laevis)
- Nuclear pore complex protein nup85 (75 kDa, Protein from Xenopus laevis)
- Nuclear pore complex protein (105 kDa, Protein from Xenopus laevis)
- Nuclear pore complex protein nup96 (105 kDa, Protein from Xenopus laevis)
- Gator complex protein sec13 (35 kDa, Protein from Xenopus laevis)
Resolution: 5.5 Å
EM Method: Single-particle
Fitted PDBs: 6lk8
Q-score: 0.089
Huang G, Zhang Y, Zhu X, Zeng C, Wang Q, Zhou Q, Tao Q, Liu M, Lei J, Yan C, Shi Y
Cell Res (2020) 30 pp. 520-531 [ Pubmed: 32376910 DOI: doi:10.1038/s41422-020-0319-4 ]
- Nup214 complex coiled coil region 2, helix 3 (2 kDa, Protein from Xenopus laevis)
- Mgc154553 protein (41 kDa, Protein from Xenopus laevis)
- Outer nup160 (162 kDa, Protein from Xenopus laevis)
- Mgc83295 protein (227 kDa, Protein from Xenopus laevis)
- Cytoplasmic ring subunit of xenopus laevis npc (Complex from Xenopus laevis)
- Nup214 complex coiled coil region 2, helix 2 (2 kDa, Protein from Xenopus laevis)
- Nup214 complex coiled coil region 1, helix 2 (6 kDa, Protein from Xenopus laevis)
- Nup214 complex coiled-coil region 1, helix 1 (5 kDa, Protein from Xenopus laevis)
- Mgc83926 protein (36 kDa, Protein from Xenopus laevis)
- Nucleoporin seh1-a (36 kDa, Protein from Xenopus laevis)
- Nup214 complex coiled coil region 1, helix 3 (6 kDa, Protein from Xenopus laevis)
- Nup358 complex, clamps (322 kDa, Protein from Xenopus laevis)
- Nuclear pore complex protein nup85 (75 kDa, Protein from Xenopus laevis)
- Nuclear pore complex protein (105 kDa, Protein from Xenopus laevis)
- Nuclear pore complex protein nup96 (105 kDa, Protein from Xenopus laevis)
- Gator complex protein sec13 (35 kDa, Protein from Xenopus laevis)
- Bridge domain (33 kDa, Protein from Xenopus laevis)
- Nup214 complex coiled coil region 2, helix 1 (2 kDa, Protein from Xenopus laevis)
- Outer nup133 (127 kDa, Protein from Xenopus laevis)
Resolution: 5.0 Å
EM Method: Single-particle
Fitted PDBs: 6m6a
Q-score: 0.256
Shi J, Wen A, Zhao M, Jin S, You L, Shi Y, Dong S, Hua X, Zhang Y, Feng Y
Nucleic Acids Res (2020) 48 pp. 11762-11772 [ DOI: doi:10.1093/nar/gkaa904 Pubmed: 33068413 ]
- Zinc ion (65 Da, Ligand)
- Nontemplate strand dna (19 kDa, DNA from Thermus thermophilus)
- Dna-directed rna polymerase subunit alpha (35 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Transcription-repair-coupling factor (109 kDa, Protein from Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039))
- Dna-directed rna polymerase subunit omega (11 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Dna-directed rna polymerase subunit beta' (170 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
- Template strand dna (19 kDa, DNA from Thermus thermophilus)
- Magnesium ion (24 Da, Ligand)
- Thermus thermophilus transcription-coupled dna repair complex (Complex from Thermus thermophilus)
- Dna-directed rna polymerase subunit beta (125 kDa, Protein from Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
Cryo-EM structure of African Swine Fever Virus capsid block 4
The Cryo-EM Structure of the Precusor of Human Pre-catalytic Spliceosome (pre-B complex)
Resolution: 5.7 Å
EM Method: Single-particle
Fitted PDBs: 6ah0
Q-score: 0.12
Zhan X, Yan C, Zhang X, Lei J, Shi Y
Cell Res (2018) 28 pp. 1129-1140 [ DOI: doi:10.1038/s41422-018-0094-7 Pubmed: 30315277 ]
- Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
- U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
- U2snrna (60 kDa, RNA from Homo sapiens)
- Pre-mrna (87 kDa, RNA from Homo sapiens)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm7 (11 kDa, Protein from Homo sapiens)
- U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated proteins b and b' (23 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm4 (15 kDa, Protein from Homo sapiens)
- U4snrna (46 kDa, RNA from Homo sapiens)
- U6 snrna-associated sm-like protein lsm3 (11 kDa, Protein from Homo sapiens)
- U6snrna (34 kDa, RNA from Homo sapiens)
- Pre-mrna-processing factor 6 (107 kDa, Protein from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp3 (77 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm6 (9 kDa, Protein from Homo sapiens)
- U5snrna (37 kDa, RNA from Homo sapiens)
- 116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp4 (58 kDa, Protein from Homo sapiens)
- Spliceosome (Complex from Homo sapiens)
- U4/u6 small nuclear ribonucleoprotein prp31 (55 kDa, Protein from Homo sapiens)
- Probable atp-dependent rna helicase ddx23 (95 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
- U4/u6.u5 tri-snrnp-associated protein 2 (65 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm5 (9 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm8 (10 kDa, Protein from Homo sapiens)
- Nhp2-like protein 1 (14 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Inositol hexakisphosphate (660 Da, Ligand)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- Thioredoxin-like protein 4a (16 kDa, Protein from Homo sapiens)
- Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
- U6 snrna-associated sm-like protein lsm2 (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
cryo-EM structure of a human activated spliceosome (mature Bact) at 5.1 angstrom.
Resolution: 5.1 Å
EM Method: Single-particle
Fitted PDBs: 5z56
Q-score: 0.131
Zhang X, Yan C, Zhan X, Li L, Lei J, Shi Y
Cell Res (2018) 28 pp. 307-322 [ DOI: doi:10.1038/cr.2018.14 Pubmed: 29360106 ]
- Splicing factor 3b subunit 4 (44 kDa, Protein from Homo sapiens)
- U5 small nuclear ribonucleoprotein 40 kda protein (39 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein e (10 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 1 (146 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 1 (88 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor rbm22 (46 kDa, Protein from Homo sapiens)
- Pre-mrna-processing-splicing factor 8 (273 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 3 (58 kDa, Protein from Homo sapiens)
- U2 snrna (60 kDa, RNA from Homo sapiens)
- U5 small nuclear ribonucleoprotein 200 kda helicase (244 kDa, Protein from Homo sapiens)
- Skip (62 kDa, Protein from Homo sapiens)
- Pre-mrna-processing factor 17 (65 kDa, Protein from Homo sapiens)
- Crooked neck-like protein 1 (100 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein-associated proteins b and b' (23 kDa, Protein from Homo sapiens)
- Human activated spliceosome (Complex from Homo sapiens)
- Pre-mrna-splicing factor cwc22 homolog (105 kDa, Protein from Homo sapiens)
- U6 snrna (34 kDa, RNA from Homo sapiens)
- Guanosine-5'-triphosphate (523 Da, Ligand)
- Small nuclear ribonucleoprotein sm d3 (13 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein g (8 kDa, Protein from Homo sapiens)
- Protein bud31 homolog (17 kDa, Protein from Homo sapiens)
- 116 kda u5 small nuclear ribonucleoprotein component (109 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d2 (13 kDa, Protein from Homo sapiens)
- Ring finger protein 113a (38 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 5 (10 kDa, Protein from Homo sapiens)
- Serine/arginine repetitive matrix protein 2 (300 kDa, Protein from Homo sapiens)
- Rna-binding motif protein, x-linked 2 (37 kDa, Protein from Homo sapiens)
- Smad nuclear-interacting protein 1 (45 kDa, Protein from Homo sapiens)
- U5 snrna (37 kDa, RNA from Homo sapiens)
- U2 small nuclear ribonucleoprotein a' (28 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase-like 1 (18 kDa, Protein from Homo sapiens)
- U2 small nuclear ribonucleoprotein b'' (25 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 2 (100 kDa, Protein from Homo sapiens)
- Small nuclear ribonucleoprotein sm d1 (13 kDa, Protein from Homo sapiens)
- Magnesium ion (24 Da, Ligand)
- Inositol hexakisphosphate (660 Da, Ligand)
- Small nuclear ribonucleoprotein f (9 kDa, Protein from Homo sapiens)
- Putative pre-mrna-splicing factor atp-dependent rna helicase dhx16 (119 kDa, Protein from Homo sapiens)
- Zinc ion (65 Da, Ligand)
- Pleiotropic regulator 1 (57 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase cwc27 homolog (53 kDa, Protein from Homo sapiens)
- Cell division cycle 5-like protein (92 kDa, Protein from Homo sapiens)
- Pre-mrna-processing factor 19 (55 kDa, Protein from Homo sapiens)
- Phd finger-like domain-containing protein 5a (12 kDa, Protein from Homo sapiens)
- Splicing factor 3a subunit 2 (49 kDa, Protein from Homo sapiens)
- Intron-binding protein aquarius (171 kDa, Protein from Homo sapiens)
- Pre-mrna-splicing factor syf1 (100 kDa, Protein from Homo sapiens)
- Pre-mrna (87 kDa, RNA from unidentified adenovirus)
- Pre-mrna-splicing factor spf27 (26 kDa, Protein from Homo sapiens)
- Peptidyl-prolyl cis-trans isomerase e (33 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 6 (14 kDa, Protein from Homo sapiens)
- Bud13 homolog (70 kDa, Protein from Homo sapiens)
- Splicing factor 3b subunit 3 (135 kDa, Protein from Homo sapiens)
- Spliceosome-associated protein cwc15 homolog (26 kDa, Protein from Homo sapiens)
Anti-CRISPR protein AcrF1/2 bound to Csy surveillance complex with a 20nt spacer crRNA
Peng R, Xu Y, Zhu T, Li N, Qi J, Chai Y, Wu M, Zhang X, Shi Y, Wang P, Wang J, Gao N, Gao GF
Cell Res (2017) 27 pp. 853-864 [ DOI: doi:10.1038/cr.2017.79 Pubmed: 28574055 ]
- Csy2 (Protein from Pseudomonas aeruginosa)
- Anti-crispr proteins acrf1/2 bound to csy surveillance complex with a 20nt spacer crrna (300 kDa, Complex from Pseudomonas aeruginosa)
- Csy1 (Protein from Pseudomonas aeruginosa)
- Crrna with 20nt spacer (RNA from Pseudomonas aeruginosa)
- Acrf1 (Protein from Pseudomonas phage D3)
- Csy3 (Protein from Pseudomonas aeruginosa)
- Csy4 (Protein from Pseudomonas aeruginosa)
- Acrf2 (Protein from Pseudomonas phage 73)
Cryo-EM map of yeast 26S proteasome in M1 state derived from Arctica dataset
Luan B, Huang X, Wu J, Mei Z, Wang Y, Xue X, Yan C, Wang J, Finley DJ, Shi Y, Wang F
PNAS (2016) 113 pp. 2642-2647 [ DOI: doi:10.1073/pnas.1601561113 Pubmed: 26929360 ]
- Yeast 26s proteasome in m1 state (2 MDa, Sample)
- 26s proteasome (2 MDa, Protein from Saccharomyces cerevisiae)