DynDom statistics

Tool stats & trends

Looking to identify usage trends or leading experts?


DynDom specifications


Unique identifier OMICS_05556
Name DynDom
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for DynDom

DynDom citations


Structural basis for cofilin binding and actin filament disassembly

Nat Commun
PMCID: 5945598
PMID: 29749375
DOI: 10.1038/s41467-018-04290-w
call_split See protocol

[…] The rotation axes of domain movement were obtained by the DomainSelect program (DynDom) based on the two rigid bodies shown in Supplementary Table  and Fig. . […]


A cryoprotectant induces conformational change in glyceraldehyde 3 phosphate dehydrogenase

PMCID: 5931139
PMID: 29717994
DOI: 10.1107/S2053230X18004557

[…] and R cryst factors of 20.5% and 18.4%, respectively (Table 3). Structure validation was performed with SFCHECK (Vaguine et al., 1999), PROCHECK (Laskowski et al., 1996) and ADIT (Bhat et al., 2001). DynDom, a program that determines domain movement and relative inter-domain rotation angles in proteins for which two conformations are available, was used to study domain rotation (Poornam et al., 20 […]


Trapping IgE in a closed conformation by mimicking CD23 binding prevents and disrupts FcεRI interaction

Nat Commun
PMCID: 5750235
PMID: 29295972
DOI: 10.1038/s41467-017-02312-7
call_split See protocol

[…] 3 domain with a distance restraint of 25 Å. Calculation of the angle of rotation between the SAXS models and the extended (RCSB: 4J4P) and bent (RCSB: 2WQR) conformation of IgE Fc was performed using DynDom. Ensemble optimization of both unbound IgE Fc and the IgE Fc:026 sdab complex was performed using the EOM 2.0 programs RANCH and GAJOE. A total of 5000 models were generated utilizing the same […]


Structural determinants for protein unfolding and translocation by the Hsp104 protein disaggregase

Biosci Rep
PMCID: 5741831
PMID: 29175998
DOI: 10.1042/BSR20171399
call_split See protocol

[…] rried out using COOT [] and PHENIX [], respectively. Atomic coordinates and structure factors have been deposited in the PDB with the accession number 5WBW. Protein domain motions were analyzed using DynDom []. […]


Conformational dynamism for DNA interaction in the Salmonella RcsB response regulator

Nucleic Acids Res
PMCID: 5758874
PMID: 29186528
DOI: 10.1093/nar/gkx1164
call_split See protocol

[…] or S207C–RcsBAC structure showed 95.5% of residues in favored and 4.5% in allowed region. The figures were produced using PyMOL (http://www.pymol.org) and the movement analysis was performed with the Dyndom program (). […]


The molecular basis of phosphite and hypophosphite recognition by ABC transporters

Nat Commun
PMCID: 5700983
PMID: 29170493
DOI: 10.1038/s41467-017-01226-8

[…] d binding data were similar to the other phosphite-binding proteins discussed previously. Analysis of the conformational change between the open and closed, phosphite-bound structure of Ps_PtxB using DynDom revealed that domain closure is induced by a ~60° rotation around an axis that lies between the two lobes (Fig. ). This is facilitated by flexible loops that form the hinge region between the l […]


Looking to check out a full list of citations?

DynDom institution(s)
D'Arcy Thompson Centre for Computational Biology, School of Computing Sciences, University of East Anglia, Norwich, UK

DynDom reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review DynDom