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TMKink specifications

Information


Unique identifier OMICS_17723
Name TMKink
Interface Application programming interface
Restrictions to use None
Computer skills Advanced
Stability Stable
Maintained Yes

Publication for TMKink

TMKink citations

 (4)
library_books

Molecular Properties of Globin Channels and Pores: Role of Cholesterol in Ligand Binding and Movement

2016
Front Physiol
PMCID: 5011150
PMID: 27656147
DOI: 10.3389/fphys.2016.00360

[…] ly in the protein structure. Kinks that open the polar backbone to alternative hydrogen bonds often attract water molecules, thus providing a polar region within the hydrophobic core (Hall et al., ). TMkink analysis indicates that TM-1 of “band 3” contains a large kink (710A – A723), thus providing a potential polar-water filled region. Anion exchange protein “band 3” thus contains numerous pore-l […]

call_split

Evolution of the α Subunit of Na/K ATPase from Paramecium to Homo sapiens: Invariance of Transmembrane Helix Topology

2016
J Mol Evol
PMCID: 4866997
PMID: 26961431
DOI: 10.1007/s00239-016-9732-1
call_split See protocol

[…] ed distinct residue preferences in kinked versus non-kinked helices and have exploited these differences and residue conservation to predict kinked helices using a neural network. The kink predictor, TMKink, is available at http://tmkinkpredictor.mbi.ucla.edu/. […]

call_split

Transmembrane helices in “classical” nuclear reproductive steroid receptors: a perspective

2015
PMCID: 4590301
PMID: 26430393
DOI: 10.1621/nrs.13003
call_split See protocol

[…] t residue preferences in kinked versus non-kinked helices and have exploited these differences and residue conservation to predict kinked helices using a neural network algorithm. The kink predictor, TMKink, is available at http://tmkinkpredictor.mbi.ucla.edu/. […]

library_books

Topological analysis of the Escherichia coli WcaJ protein reveals a new conserved configuration for the polyisoprenyl phosphate hexose 1 phosphate transferase family

2015
Sci Rep
PMCID: 4361858
PMID: 25776537
DOI: 10.1038/srep09178

[…] ted a helical conformation between L273 and L302. This prediction was in agreement with the experimental boundaries determined for TMH-V. The region encompassing residues R270–G306 was modelled using TMKink, a program specifically tailored to identify kinks within TMHs. Meruelo et al. demonstrated that there are residue preferences in TMHs that contribute to kinks and that a score above the design […]


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TMKink institution(s)
Medical Scientist Training Program, UCLA-DOE Institute for Genomics and Proteomics, Molecular Biology Institute, UCLA, Los Angeles, CA, USA; Department of Structural Biology, Weizmann Institute of Science, Rehovot, Israel; Department of Chemistry and Biochemistry, UCLA-DOE Institute for Genomics and Proteomics, Molecular Biology Institute, UCLA, Los Angeles, CA, USA
TMKink funding source(s)
This work was supported by NIH Grant number: RO1 GM063919, Grant sponsors: Ruth L. Kirschstein NRSA Predoctoral Fellowship Award to Promote Diversity in Health-Related Research, Molecular Biology Whitecome Stipend.

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