Porcine Retinol-Binding Protein 3 (RBP3)
Kaushik V, Gessa L, Kumar N, Pinkas M, Czarnocki-Cieciura M, Palczewski K, Novacek J, Fernandes H
Open Biol (2025) 15 pp. 240180-240180 [ DOI: doi:10.1098/rsob.240180 Pubmed: 39837501 ]
- Retinol binding protein 3 (135 MDa, Cellular component from Sus scrofa)
- Retinol binding protein 3 (Protein from Sus scrofa)
Cryo-EM structure of Rotavirus B NSP2
Resolution: 3.8 Å
EM Method: Single-particle
Fitted PDBs: 8p00
Q-score: 0.442
Chamera S, Wycisk K, Czarnocki-Cieciura M, Nowotny M
J Virol (2024) 98 pp. e0166023-e0166023 [ Pubmed: 38421167 DOI: doi:10.1128/jvi.01660-23 ]
- Non-structural protein 2 (34 kDa, Protein from Human rotavirus B strain CAL-1)
- Homooctamer of nsp2 (Complex from Rotavirus B)
Complex of RecF and DNA from Thermus thermophilus.
Resolution: 3.1 Å
EM Method: Single-particle
Fitted PDBs: 8a8j
Q-score: 0.556
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ DOI: doi:10.1038/s41594-023-00967-z Pubmed: 37081315 ]
- Complex of recf and dna from thermus thermophilus. (95 kDa, Complex from Thermus thermophilus HB8)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dna replication and repair protein recf (37 kDa, Protein from Thermus thermophilus HB8)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Oligo1 (7 kDa, DNA from synthetic construct)
Complex of RecF-RecR-DNA from Thermus thermophilus.
Resolution: 3.05 Å
EM Method: Single-particle
Fitted PDBs: 8a93
Q-score: 0.525
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ DOI: doi:10.1038/s41594-023-00967-z Pubmed: 37081315 ]
- Dna replication and repair protein recf (37 kDa, Protein from Thermus thermophilus HB8)
- Recombination protein recr (21 kDa, Protein from Thermus thermophilus HB8)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Complex of recf-recr-dna from thermus thermophilus. (180 kDa, Complex from Thermus thermophilus HB8)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Oligo1 (7 kDa, DNA from synthetic construct)
Complex of RecO-RecR-DNA from Thermus thermophilus.
Resolution: 6.09 Å
EM Method: Single-particle
Fitted PDBs: 8ab0
Q-score: 0.233
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ DOI: doi:10.1038/s41594-023-00967-z Pubmed: 37081315 ]
- Zinc ion (65 Da, Ligand)
- Dna repair protein reco (24 kDa, Protein from Thermus thermophilus HB8)
- Recombination protein recr (21 kDa, Protein from Thermus thermophilus HB8)
- Complex of reco-recr-dna from thermus thermophilus. (130 kDa, Complex from Thermus thermophilus HB8)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Oligo1 (7 kDa, DNA from synthetic construct)
Complex of RecF-RecO-RecR-DNA from Thermus thermophilus (low resolution reconstruction).
Resolution: 3.65 Å
EM Method: Single-particle
Fitted PDBs: 8bpr
Q-score: 0.359
Nirwal S, Czarnocki-Cieciura M, Chaudhary A, Zajko W, Skowronek K, Chamera S, Figiel M, Nowotny M
Nat Struct Mol Biol (2023) 30 pp. 650-660 [ DOI: doi:10.1038/s41594-023-00967-z Pubmed: 37081315 ]
- Complex of recf-reco-recr-dna from thermus thermophilus. (205 kDa, Complex from Thermus thermophilus HB8)
- Zinc ion (65 Da, Ligand)
- Dna repair protein reco (24 kDa, Protein from Thermus thermophilus HB8)
- Recombination protein recr (21 kDa, Protein from Thermus thermophilus HB8)
- Oligo2 (12 kDa, DNA from synthetic construct)
- Magnesium ion (24 Da, Ligand)
- Dna replication and repair protein recf (37 kDa, Protein from Thermus thermophilus HB8)
- Phosphoaminophosphonic acid-adenylate ester (506 Da, Ligand)
- Oligo1 (7 kDa, DNA from synthetic construct)
Abortive infection DNA polymerase AbiK from Lactococcus lactis
Resolution: 2.27 Å
EM Method: Single-particle
Fitted PDBs: 7r06
Q-score: 0.676
Figiel M, Gapinska M, Czarnocki-Cieciura M, Zajko W, Sroka M, Skowronek K, Nowotny M
Nucleic Acids Res (2022) 50 pp. 10026-10040 [ Pubmed: 36107766 DOI: doi:10.1093/nar/gkac772 ]
- Abortive infection protein abik (Complex from Lactococcus lactis)
- Homohexamer of abik with single-stranded dna covalently attached to each of the subunits (420 kDa, Complex)
- Dna (5'-d(*cp*cp*cp*cp*cp*cp*cp*cp*cp*cp*cp*c)-3') (Complex from Escherichia coli)
- Abik (71 kDa, Protein from Lactococcus lactis)
- Dna (5'-d(*cp*cp*cp*cp*cp*cp*cp*cp*cp*cp*cp*c)-3') (3 kDa, DNA from Escherichia coli)
Abortive infection DNA polymerase AbiK from Lactococcus lactis, Y44F variant
Resolution: 2.68 Å
EM Method: Single-particle
Fitted PDBs: 7z0z
Q-score: 0.614
Figiel M, Gapinska M, Czarnocki-Cieciura M, Zajko W, Sroka M, Skowronek K, Nowotny M
Nucleic Acids Res (2022) 50 pp. 10026-10040 [ Pubmed: 36107766 DOI: doi:10.1093/nar/gkac772 ]
- Homohexamer of l. lactis abik y44f mutant (420 kDa, Complex from Lactococcus lactis)
- Abik (71 kDa, Protein from Lactococcus lactis)
Structure of the foamy viral protease-reverse transcriptase in complex with dsDNA.
Resolution: 4.8 Å
EM Method: Single-particle
Fitted PDBs: 7o24
Q-score: 0.346
Nowacka M, Nowak E, Czarnocki-Cieciura M, Jackiewicz J, Skowronek K, Szczepanowski RH, Wohrl BM, Nowotny M
J Virol (2021) 95 pp. e0084821-e0084821 [ Pubmed: 34232702 DOI: doi:10.1128/JVI.00848-21 ]
- Dna (Complex from synthetic construct)
- Complex of protease-reverse transcriptase with ds dna (190 kDa, Complex)
- Pr125pol (85 kDa, Protein from White-tufted-ear marmoset simian foamy virus)
- Dna (5'-d(*tp*gp*gp*ap*ap*tp*cp*ap*gp*gp*tp*gp*tp*cp*gp*cp*ap*cp*tp*cp*tp*g)-3') (6 kDa, DNA from synthetic construct)
- Dna (5'-d(*ap*ap*cp*ap*gp*ap*gp*tp*gp*cp*gp*ap*cp*ap*cp*cp*tp*gp*ap*tp*tp*cp*cp*a)-3') (7 kDa, DNA from synthetic construct)
- Pr125pol (Complex from White-tufted-ear marmoset simian foamy virus)
Electron Microscopy of THO complex
Pena A, Gewartowski K, Mroczek S, Cuellar J, Szykowska A, Prokop A, Czarnocki-Cieciura M, Piwowarski J, Tous C, Aguilera A, Carrascosa JL, Valpuesta JM, Dziembowski A
EMBO J (2012) 31 pp. 1605-1616 [ Pubmed: 22314234 DOI: doi:10.1038/emboj.2012.10 ]
- Tex1 (50 MDa, Protein from Saccharomyces cerevisiae)
- Mft1 (45 MDa, Protein from Saccharomyces cerevisiae)
- Hpr1 (90 MDa, Protein from Saccharomyces cerevisiae)
- Thp2 (30 MDa, Protein from Saccharomyces cerevisiae)
- Tho2 (180 MDa, Protein from Saccharomyces cerevisiae)
- Yeast five-subunit tho complex (395 MDa, Sample)