Primary Citation PubMed: 12941707
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Conformational flexibility revealed by the crystal structure of a crenarchaeal RadA.
(2005) Nucleic Acids Res 33
PubMed: 15755748 | PubMedCentral: PMC1062875 | DOI: 10.1093/nar/gki288
The subsequent availability of coordinates for Pf RadA [1PZN ( 23 )], which included one copy of the enzyme's N-terminal domain, confirmed that our structural assignment was correct.
Publication Year: 2005
Three new structures of left-handed RADA helical filaments: structural flexibility of N-terminal domain is critical for recombinase activity.
(2009) PLoS One 4
PubMed: 19295907 | PubMedCentral: PMC2654063 | DOI: 10.1371/journal.pone.0004890
Accordingly, a progressive clockwise axial rotation can account for the structural transition from a protein ring (PDB accession code: 1PZN) to a right-handed RadA-AMP-PNP filament with six monomers p... r helical turn (PDB accession code: 1T4G), then to an overextended right-handed filament with three monomers per helical turn (PDB accession code: 2Z43), and, finally, to a left-handed filament with four monomers per helical turn (PDB accession code: 2DFL).
To further illustrate the structural flexibility between the NTD and the CAD, we compared 11 different RadA and Rad51 monomeric structures (i.e., 1PZN, 1T4G, 2Z43, 2DFL, 2ZUB_A, 2ZUC_A, 2ZUD_A, 2ZUB_B, 2ZUC_B, 2ZUD_B and 1SZP) by fixing their PMs and the neighboring α5 helix ( Figure 4 ) and also by comparing their Φ and Ψ angles as described previously  ( Table 2 ).
Publication Year: 2009
Functional characterization and identification of mouse Rad51d splice variants.
(2009) BMC Mol Biol 10
PubMed: 19327148 | PubMedCentral: PMC2667185 | DOI: 10.1186/1471-2199-10-27
RAD51D was matched to the RAD51 (RADA) structure from Pyrococcus furiosus (1PZN) and was shown to have 24% identity and 46% similarity.
Structure of a hexameric form of RadA recombinase from Methanococcus voltae.
(2012) Acta Crystallogr Sect F Struct Biol Cryst Commun 68
PubMed: 22691778 | PubMedCentral: PMC3374503 | DOI: 10.1107/S1744309112010226
Similar assemblies of PfRadA and HsDMC1 Interestingly, the crystal packing of heptameric PfRadA (Shin et al. , 2003 ▶ ; PDB entry 1pzn ) and octameric HsDMC1 (Kinebuchi et al. , 2004... ▶ ; PDB entry 1v5w ) suggests that they both form similar two-ringed assemblies with D 7 and D 8 point-group symmetry (Figs. 2 b ▶ and 2 c ▶ ), respectively.
Publication Year: 2012
Target molecular simulations of RecA family protein filaments.
(2012) Int J Mol Sci 13
PubMed: 22837683 | PubMedCentral: PMC3397515 | DOI: 10.3390/ijms13067138
According to the left-hand RadA protein sequence and the template structures (PDB ID: 1PZN and 1T4G), the closed-ring RadA and MvRadA structures were constructed by the Modeller program [ 32 ].
Using a fragment-based approach to target protein-protein interactions.
(2013) Chembiochem 14
PubMed: 23344974 | PubMedCentral: PMC3594973 | DOI: 10.1002/cbic.201200521
Figure 1 A) Structural overlay of human RAD51 (red) bound to a BRC4 repeat (cyan; PDB ID: 1N0W) and wild-type monomeric P. furiosus RadA (green, PDB ID: 1PZN).
Publication Year: 2013
Details of ssDNA annealing revealed by an HSV-1 ICP8-ssDNA binary complex.
(2013) Nucleic Acids Res 41
PubMed: 23605044 | PubMedCentral: PMC3675482 | DOI: 10.1093/nar/gkt266
However, when we examined the crystal packing of classical recombinases RecA (3CMT) ( 47 ), PfRad51 (1PZN) ( 48 ) and RadA (3NTU), we observed dimers with a conformation similar to our top–bot... om ICP8 dimers fitted into one symmetrical unit of the density map.
Archaeal genome guardians give insights into eukaryotic DNA replication and damage response proteins.
(2014) Archaea 2014
PubMed: 24701133 | PubMedCentral: PMC3950489 | DOI: 10.1155/2014/206735
(a) A Rad51 ring model derived from a P. furiosus crystal structure is composed of 7 identical subunits, each colored differently (PDB code 1PZN).
(a) Stereoview of archaeal P. furiosus Rad51 (PDB code 1PZN).
Publication Year: 2014
Determining effects of non-synonymous SNPs on protein-protein interactions using supervised and semi-supervised learning.
(2014) PLoS Comput Biol 10
PubMed: 24784581 | PubMedCentral: PMC4006705 | DOI: 10.1371/journal.pcbi.1003592
Interestingly, all six interactions were mediated by paralogous pairs of domains and thus could be modeled using the same template (PDB ID: 1PZN).
Nanobiomotors of archaeal DNA repair machineries: current research status and application potential.
(2014) Cell Biosci 4
PubMed: 24995126 | PubMedCentral: PMC4080772 | DOI: 10.1186/2045-3701-4-32
A : Protomer in the ring structure of PfuRadA (PDB: 1PZN), B : Protomer in the right-handed filament of MvRadA (PDB: 1T4G).
Figure 3 Subdomain interactions at the interface of two neighboring ATPase domains in the PfuRadA ring structure (PDB: 1PZN) (A) and in the MvRadA filament structure (PDB: 1T4G) (B).
PubMed ID is not available.
Published in 2014
The region of the Schellman loop appears to be important in archaeal Rad51 orthologs as well, since the structure of Pyrococcus furiosus RadA protein (PDB ID: 1PZN) ( 44 ) reveals a modified Schellman... loop motif in which a mini-helix containing two Glu residues is separated from α-helix 1 by an extra Pro residue (Figure 1A ).
ACCESSION NUMBERS PDB IDs: 1N0W, 3LDA and 1PZN.
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