Primary Citation PubMed: 15313620
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Reducing the false positive rate in the non-parametric analysis of molecular coevolution.
(2008) BMC Evol Biol 8
PubMed: 18402697 | PubMedCentral: PMC2362121 | DOI: 10.1186/1471-2148-8-106
Sites belonging to the same group of coevolution are shown in the crystal structure of one of the GroEL subunits (PDB accession number: 1svt.
Publication Year: 2008
Conformational sampling and nucleotide-dependent transitions of the GroEL subunit probed by unbiased molecular dynamics simulations.
(2011) PLoS Comput Biol 7
PubMed: 21423709 | PubMedCentral: PMC3053311 | DOI: 10.1371/journal.pcbi.1002004
The atomic models were prepared from the high-resolution crystal structures with PDB codes 1XCK chain A  and 1SVT chain A  , for the closed and open forms, resp... ctively.
Contact matrices were calculated for 28 closed (T) apo subunits (PDB code: 1XCK, 1SS8, 1OEL), 28 closed (T) ATP bound subunits (PDB code: 1KP8, 1SX3) and 28 open (R″) ADP bound subunits (PDB codes: 1AON, 1SVT, 1SX4, and 1PF9), and 6000 snapshots obtained from the last 50 ns of the 12 independent MD simulations on the closed GroEL subunit (6 apo and 6 holo).
The RMSd between the open and closed X-ray structure (PDB ids: 1SVT and 1XCK, respectively) is 12.30 Å.
A total of 21 crystal structures (287 GroEL subunits) were kept for further analysis (PDB-codes: 1PCQ, 1PF9, 1SVT, 3C9V, 1AON, 1GRU, 1MNF, 1XCK, 2C7D, 2NWC, 3E76, 2EU1, 1SS8, 1SX3, 1J4Z, 1KPO, 2C7E, 1KP8, 1OEL, 1WE3, 1WF4).
Publication Year: 2011
ATP-triggered conformational changes delineate substrate-binding and -folding mechanics of the GroEL chaperonin.
(2012) Cell 149
PubMed: 22445172 | PubMedCentral: PMC3326522 | DOI: 10.1016/j.cell.2012.02.047
For comparison, the crystal conformation bound to GroES (PDB ID 1SVT) is also shown (R-ES).
Figure 6 Footprint of GroES-Binding Sites on GroEL The rings are seen in space-filling format from above and in cut-away side view in (A) apo, (B) Rs1, (C) Rs-open, and (D) R-ES (PDB ID 1SVT) rings.
Two crystal structures were used as starting points—apo GroEL 14 (PDB ID 1OEL) and GroEL 14 -GroES 7 (PDB ID 1SVT; Chaudhry et al., 2004 ).
Publication Year: 2012
ATP-driven molecular chaperone machines.
(2013) Biopolymers 99
PubMed: 23877967 | PubMedCentral: PMC3814418 | DOI: 10.1002/bip.22361
Side (a,d) and top views (b,e) of unliganded GroEL and GroEL–GroES–ADP.AlF 3 complexes (PDB ID: 1OEL and 1SVT).
Two subunits, viewed from inside the folding chamber, of apo-GroEL, GroEL–Rs1, GroEL–Rs2, GroEL–Rs-open, and GroEL–GroES–ADP.AlF 3 complexes (EM Databank and PDB ID: EMD-1997/1OEL, EMD-1998/4AAQ, EMD-1999/4AAR, EMD-2000/4AAS, and 1SVT.
Publication Year: 2013
PubMed ID is not available.
Published in 2014
Chaudhry C , Horwich A.L , Brunger A.T , Adams P.D , 2004 , Crystal structure of GroEL14-GroES7-(ADP-AlFx)7 , 1SVT ; http://dx.doi.org/10.2210/pdb1SVT/pdb , Publicly available at the RCSB Protein Data... Bank.
Publication Year: 2014
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