Do data resources managed by EMBL-EBI and our collaborators make a difference to your work? Please take 10 minutes to fill in our annual user survey, and help us make the case for why sustaining open data resources is critical for life sciences research. We appreciate your responses prior to closing of the survey on Monday 17th June.
Cryo-EM structure of DiCas7-11 mutant in complex with crRNA
Hong T, Luo Q, Ma H, Wang X, Li X, Shen C, Pang J, Wang Y, Chen Y, Zhang C, Su Z, Dong H, Tang X
Signal Transduct Target Ther (2024) 9 pp. 111-111 [ Pubmed: 38735995 DOI: doi:10.1038/s41392-024-01821-4 ]
- Crispr-associated ramp family protein (183 kDa, Protein from Desulfonema ishimotonii)
- Crrna (39-mer) (12 kDa, RNA from Escherichia coli)
- Zinc ion (65 Da, Ligand)
- Binary complex of dicas7-11 mutant with crrna (Complex from Escherichia coli)
Structure of divisome complex FtsWIQLB
Yang L, Chen Y, Chang S, Shen C, Wang X, Zhang C, Zhang Z, Ding BS, Su Z, Dong H, Tang X
Cell Discov (2024) 10 pp. 2-2 [ DOI: doi:10.1038/s41421-023-00629-w Pubmed: 38172099 ]
- Cell division protein ftsl (11 kDa, Protein from Escherichia coli K-12)
- Peptidoglycan d,d-transpeptidase ftsi (62 kDa, Protein from Escherichia coli K-12)
- Probable peptidoglycan glycosyltransferase ftsw (43 kDa, Protein from Escherichia coli K-12)
- Cell division protein ftsq (32 kDa, Protein from Escherichia coli K-12)
- Divisome complex ftswiqlb (Complex from Escherichia coli K-12)
- Cell division protein ftsb (10 kDa, Protein from Escherichia coli K-12)
Cryo-ET structure of RuBisCO from 3.9 angstroms Synechococcus elongatus PCC 7942
Resolution: 3.9 Å
EM Method: Subtomogram averaging
Fitted PDBs: 8wpz
Q-score: 0.444
Kong WW, Zhu Y, Zhao HR, Du K, Zhou RQ, Li B, Yang F, Hou P, Chen Y, Sun F, Jiang YL, Zhou CZ
To Be Published
- Ribulose bisphosphate carboxylase large chain (52 kDa, Protein from Synechococcus elongatus PCC 7942 = FACHB-805)
- Rubisco (Complex from Synechococcus elongatus (strain ATCC 33912 / PCC 7942 / FACHB-805))
- Ribulose bisphosphate carboxylase small subunit (13 kDa, Protein from Synechococcus elongatus PCC 7942 = FACHB-805)
A homotrimeric GPCR architecture of the human cytomegalovirus (UL78) revealed by cryo-EM
SARS-CoV-2 Omicron BA.1 spike trimer (x2-4P) in complex with 3 D1F6 Fabs (0 RBD up)
Resolution: 3.67 Å
EM Method: Single-particle
Fitted PDBs: 8zby
Q-score: 0.372
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- Spike glycoprotein (138 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.1 spike trimer (x2-4p) in complex with 3 d1f6 fabs (0 rbd up) (Complex from Severe acute respiratory syndrome coronavirus 2)
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- Light chain of d1f6 fab (23 kDa, Protein from Homo sapiens)
SARS-CoV-2 Omicron BA.4 spike trimer (6P) in complex with 3 D1F6 Fabs (2 RBD up)
Resolution: 3.95 Å
EM Method: Single-particle
Fitted PDBs: 8zc4
Q-score: 0.372
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Heavy chain of d1f6 fab (24 kDa, Protein from Homo sapiens)
- Spike glycoprotein (137 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 fab (23 kDa, Protein from Homo sapiens)
- Sars-cov-2 omicron ba.4 spike trimer (6p) in complex with 3 d1f6 fabs (2 rbd up) (Complex from Severe acute respiratory syndrome coronavirus 2)
SARS-CoV-2 Omicron BA.4 spike trimer (6P) in complex with D1F6 Fab, focused refinement of RBD region
Resolution: 3.91 Å
EM Method: Single-particle
Fitted PDBs: 8zc5
Q-score: 0.439
Liu B, Niu X, Deng Y, Zhang Z, Wang Y, Gao X, Liang H, Li Z, Wang Q, Cheng Y, Chen Q, Huang S, Pan Y, Su M, Lin X, Niu C, Chen Y, Yang W, Zhang Y, Yan Q, He J, Zhao J, Chen L, Xiong X
To Be Published
- 2-acetamido-2-deoxy-beta-d-glucopyranose (221 Da, Ligand)
- Spike protein s1 (22 kDa, Protein from Severe acute respiratory syndrome coronavirus 2)
- Sars-cov-2 omicron ba.4 spike trimer (6p) in complex with d1f6 fab, focused refinement of rbd region (Complex from Severe acute respiratory syndrome coronavirus 2)
- Light chain of d1f6 fab (11 kDa, Protein from Homo sapiens)
- Heavy chain of d1f6 fab (14 kDa, Protein from Homo sapiens)
Cell divisome sPG hydrolysis machinery FtsEX-EnvC
Resolution: 3.11 Å
EM Method: Single-particle
Fitted PDBs: 8y3x
Q-score: 0.444
To Be Published
- Ftsex-envc (Complex from Escherichia coli)
- Adenosine-5'-triphosphate (507 Da, Ligand)
- Cell division atp-binding protein ftse (24 kDa, Protein from Escherichia coli)
- Murein hydrolase activator envc (46 kDa, Protein from Escherichia coli)
- Cell division protein ftsx (38 kDa, Protein from Escherichia coli)
Cryo-EM structure of the ISFba1 TnpB-reRNA-dsDNA complex
Resolution: 3.0 Å
EM Method: Single-particle
Fitted PDBs: 8iaz
Q-score: 0.548
Ren K, Zhou F, Zhang F, Yin M, Zhu Y, Wang S, Chen Y, Huang T, Wu Z, He J, Zhang A, Guo C, Huang Z
Cell Res (2024) 34 pp. 370-385 [ DOI: doi:10.1038/s41422-024-00952-1 Pubmed: 38575718 ]
- Transposase (44 kDa, Protein from Firmicutes bacterium AM43-11BH)
- Dna (5'-d(p*cp*cp*ap*tp*tp*ap*gp*gp*ap*gp*cp*tp*gp*ap*tp*g)-3') (4 kDa, DNA from Firmicutes bacterium AM43-11BH)
- The complex of protein with grna and target dna (Complex from Firmicutes bacterium AM43-11BH)
- Rna (207-mer) (66 kDa, RNA from Firmicutes bacterium AM43-11BH)
- Dna (5'-d(p*ap*cp*ap*tp*gp*gp*ap*cp*cp*ap*tp*cp*ap*gp*cp*tp*cp*cp*tp*ap*ap*tp*gp*g)-3') (7 kDa, DNA from Firmicutes bacterium AM43-11BH)
- Zinc ion (65 Da, Ligand)
Cyanophage A-1(L) neck/gp7-terminator
Resolution: 3.44 Å
EM Method: Single-particle
Fitted PDBs: 8kef
Q-score: 0.471
Yu RC, Yang F, Zhang HY, Hou P, Du K, Zhu J, Cui N, Xu X, Chen Y, Li Q, Zhou CZ
Nat Commun (2024) 15 pp. 2654-2654 [ Pubmed: 38531972 DOI: doi:10.1038/s41467-024-47006-z ]
- Unclassified caudoviricetes (Virus from unclassified Caudoviricetes)
- Terminator gp8 (27 kDa, Protein from unclassified Caudoviricetes)
- Neck gp7 (14 kDa, Protein from unclassified Caudoviricetes)