cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.14211799
title: Square Antiprismatic Chelation Is a Key Determinant for Potassium Ion Selectivity

description: DATASETS

Archives  K_DB.tar.gz, MEMB_DB.tar.gz and PDB70.tar.gz contain models of indentified sites for potassium channels (dataset #1), other membrane proteins, excluding potassium channels (dataset #2) and non-membrane proteins form PDB70 (dataset #3). The name of a folder in the dataset corresponds to PDB ID of a protein for which calculation were made. Each folder contain the following files:



<PDB_ID>.pdb — the original pdb file.

<PDB_ID>.ref — file that contains oxygens and nitrogens from original pdb that were used for scanning.

<PDB_ID>_COMBS.txt — combinations of atoms that were used for calculations.

<PDB_ID>_alignment_X.pdb — original template that was aligned to the protein atoms. X denotes a number of the alignment.

<PDB_ID>_site_X.pdb — this pdb file contains eight atoms that form the site for K+ and which were used for the corresponding alignment X.

<PDB_ID>_RES.txt — the combinations of protein atoms that form the site are written in square brackets. The RMSD value for the alignment to this site is written to the right of them.

<PDB_ID>_RMSD.log — this file contains RMSD values of the template alignment to the corresponding site.


SUPPLEMENTARY TABLES S1-S5

The file Supporting Information_Tables S1-S5.xlsx contain tables S1-S5 for the supporting information from the original paper. These tables describe potassium binding sites indentifieid in potassium channels, other membrane proteins and randomly chosen non-membrane proteins.  (See the article text for details)
DOI: 10.5281/zenodo.14211800
title: Square Antiprismatic Chelation Is a Key Determinant for Potassium Ion Selectivity

description: DATASETS

Archives  K_DB.tar.gz, MEMB_DB.tar.gz and PDB70.tar.gz contain models of indentified sites for potassium channels (dataset #1), other membrane proteins, excluding potassium channels (dataset #2) and non-membrane proteins form PDB70 (dataset #3). The name of a folder in the dataset corresponds to PDB ID of a protein for which calculation were made. Each folder contain the following files:



<PDB_ID>.pdb — the original pdb file.

<PDB_ID>.ref — file that contains oxygens and nitrogens from original pdb that were used for scanning.

<PDB_ID>_COMBS.txt — combinations of atoms that were used for calculations.

<PDB_ID>_alignment_X.pdb — original template that was aligned to the protein atoms. X denotes a number of the alignment.

<PDB_ID>_site_X.pdb — this pdb file contains eight atoms that form the site for K+ and which were used for the corresponding alignment X.

<PDB_ID>_RES.txt — the combinations of protein atoms that form the site are written in square brackets. The RMSD value for the alignment to this site is written to the right of them.

<PDB_ID>_RMSD.log — this file contains RMSD values of the template alignment to the corresponding site.


SUPPLEMENTARY TABLES S1-S5

The file Supporting Information_Tables S1-S5.xlsx contain tables S1-S5 for the supporting information from the original paper. These tables describe potassium binding sites indentifieid in potassium channels, other membrane proteins and randomly chosen non-membrane proteins.  (See the article text for details)
DOI: 10.5281/zenodo.13318025
title: USDA PLANTS structured data (old)

description: The PLANTS Database provides standardized information about the vascular plants, mosses, liverworts, hornworts, and lichens of the U.S. and its territories. It includes names, plant symbols, checklists, distributional data, species abstracts, characteristics, images, crop information, automated tools, onward Web links, and references. This information primarily promotes land conservation in the United States and its territories, but academic, educational, and general use is encouraged. PLANTS reduces government spending by minimizing duplication and making information exchange possible across agencies and disciplines.

Data published on EOL by the PLANTS database include attribute data, images and descriptive text.
DOI: 10.5281/zenodo.13318026
title: USDA PLANTS structured data (old)

description: The PLANTS Database provides standardized information about the vascular plants, mosses, liverworts, hornworts, and lichens of the U.S. and its territories. It includes names, plant symbols, checklists, distributional data, species abstracts, characteristics, images, crop information, automated tools, onward Web links, and references. This information primarily promotes land conservation in the United States and its territories, but academic, educational, and general use is encouraged. PLANTS reduces government spending by minimizing duplication and making information exchange possible across agencies and disciplines.

Data published on EOL by the PLANTS database include attribute data, images and descriptive text.
DOI: 10.15468/dl.c8ttnt
title: Occurrence Download

description: A dataset containing 7761 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Ukraine",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Apus apus (Linnaeus, 1758)"
 ]
}

 The dataset includes 7761 records from 40 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031360-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13316180
title: Scleractinia lifestyle

description: A collection, from the literature and from individual experts, of traits relating to growth form, lifestyle and reproduction of scleractinia.
DOI: 10.5281/zenodo.13316181
title: Scleractinia lifestyle

description: A collection, from the literature and from individual experts, of traits relating to growth form, lifestyle and reproduction of scleractinia.
DOI: 10.5281/zenodo.13321943
title: Pictures of Tropical Lichens

description: A collection of images of lichens form tropical regions in the world. The growing number of images is brought together by several members of the lichenological community.
DOI: 10.5281/zenodo.13321942
title: Pictures of Tropical Lichens

description: A collection of images of lichens form tropical regions in the world. The growing number of images is brought together by several members of the lichenological community.
DOI: 10.6084/m9.figshare.25880020
title: Supplemental Data 3 Output files of RSEM

description: Output files of RSEM. L-vs-S.isoforms.matrix.tpm and L-vs-S.genes.matrix.tpm contain Tpm values in all samples at all contig level and gene level (allocated by Trinity soft ware) respectively, while mapped tag counts values at all contig level and gene level are shown in L-vs-S.genes.matrix.counts and L-vs-S.isoforms.matrix.counts, respectively.
DOI: 10.6084/m9.figshare.25880020.v1
title: Supplemental Data 3 Output files of RSEM

description: Output files of RSEM. L-vs-S.isoforms.matrix.tpm and L-vs-S.genes.matrix.tpm contain Tpm values in all samples at all contig level and gene level (allocated by Trinity soft ware) respectively, while mapped tag counts values at all contig level and gene level are shown in L-vs-S.genes.matrix.counts and L-vs-S.isoforms.matrix.counts, respectively.
DOI: 10.5281/zenodo.13321652
title: Zoosystematics and Evolution

description: Zoosystematics and Evolution, formerly Mitteilungen aus dem Museum für Naturkunde in Berlin, is an international, open access, peer-reviewed life science journal devoted to whole-organism biology. It publishes original research and review articles in the field of Metazoan taxonomy, biosystematics, evolution, morphology, development and biogeography at all taxonomic levels. The journal__s scope encompasses primary information from collection-related research, taxonomic descriptions and discoveries, revisions, annotated type catalogues, aspects of the history of science, and contributions on new methods and principles of systematics. Articles whose main topic is ecology, functional anatomy, physiology, or ethology are only acceptable when of systematic or evolutionary relevance and perspective.
DOI: 10.5281/zenodo.13321651
title: Zoosystematics and Evolution

description: Zoosystematics and Evolution, formerly Mitteilungen aus dem Museum für Naturkunde in Berlin, is an international, open access, peer-reviewed life science journal devoted to whole-organism biology. It publishes original research and review articles in the field of Metazoan taxonomy, biosystematics, evolution, morphology, development and biogeography at all taxonomic levels. The journal__s scope encompasses primary information from collection-related research, taxonomic descriptions and discoveries, revisions, annotated type catalogues, aspects of the history of science, and contributions on new methods and principles of systematics. Articles whose main topic is ecology, functional anatomy, physiology, or ethology are only acceptable when of systematic or evolutionary relevance and perspective.
DOI: 10.6084/m9.figshare.25880137
title: Supplemental Data 4 Output files of iDEGES/edgeR

description: Output file of iDEGES/edgeR.
DOI: 10.6084/m9.figshare.25880137.v1
title: Supplemental Data 4 Output files of iDEGES/edgeR

description: Output file of iDEGES/edgeR.
DOI: 10.5281/zenodo.13313581
title: Arkive: Arkive (6) XML

description: ARKive is a Wildscreen initiative – a non-profit charitable organization dedicated to promoting the public understanding of biodiversity and the need for its conservation. ARKive__s mission is to create a lasting, publicly accessible, audio-visual record of life on Earth. ARKive is sharing with EOL its species texts. To access ARKive__s rich repository of films and photographs, follow links in the Specialized Projects area of our pages. https://www.arkive.org/
DOI: 10.5281/zenodo.13313582
title: Arkive: Arkive (6) XML

description: ARKive is a Wildscreen initiative – a non-profit charitable organization dedicated to promoting the public understanding of biodiversity and the need for its conservation. ARKive__s mission is to create a lasting, publicly accessible, audio-visual record of life on Earth. ARKive is sharing with EOL its species texts. To access ARKive__s rich repository of films and photographs, follow links in the Specialized Projects area of our pages. https://www.arkive.org/
DOI: 10.5281/zenodo.13312606
title: Record et al copepodid diapause: unpublished dataset

description: Record NR, Ji R, Maps F, Varpe Ø (in prep) Computing the biogeography of copepodid diapause.
DOI: 10.5281/zenodo.13312607
title: Record et al copepodid diapause: unpublished dataset

description: Record NR, Ji R, Maps F, Varpe Ø (in prep) Computing the biogeography of copepodid diapause.
DOI: 10.5281/zenodo.13313577
title: Flora of Zimbabwe: Flora of Zimbabwe (327) XML

description: This site provides information about the flowering plants and ferns of Zimbabwe. This is a sister site to the Flora of Botswana, Caprivi, Malawi, Mozambique and Zambia websites, which together cover the Flora Zambesiaca area. The principal contributors to the site are Bart Wursten, Petra Ballings, Meg Coates Palgrave and Mark Hyde.

 

https://www.zimbabweflora.co.zw/
DOI: 10.5281/zenodo.13313578
title: Flora of Zimbabwe: Flora of Zimbabwe (327) XML

description: This site provides information about the flowering plants and ferns of Zimbabwe. This is a sister site to the Flora of Botswana, Caprivi, Malawi, Mozambique and Zambia websites, which together cover the Flora Zambesiaca area. The principal contributors to the site are Bart Wursten, Petra Ballings, Meg Coates Palgrave and Mark Hyde.

 

https://www.zimbabweflora.co.zw/
DOI: 10.5281/zenodo.14212205
title: MP Swearing In Data - 2024

description: This dataset covers the type of oath of allegiance to the Crown taken by UK MPs following the 2024 general election. It includes whether MPs took an oath or made a solemn affirmation, the type of text they used (where relevant), and the implied religion from this act. It also includes a Hansard member identification number, political party, and whether they were a new or returning MP.
DOI: 10.5281/zenodo.14212206
title: MP Swearing In Data - 2024

description: This dataset covers the type of oath of allegiance to the Crown taken by UK MPs following the 2024 general election. It includes whether MPs took an oath or made a solemn affirmation, the type of text they used (where relevant), and the implied religion from this act. It also includes a Hansard member identification number, political party, and whether they were a new or returning MP.
DOI: 10.5281/zenodo.13312767
title: US Fish and Wildlife Service Endangered Species Program

description: This is where EOL hosts source datasets (archives, dumps, etc.) from EOL content partners (especially partners without a web presence of their own).

This organization will also include the content partner utility files EOL connectors use to generate a particular content partner__s resource EOL archive or XML.

For questions or suggestions please visit the EOL Services forum at http://discuss.eol.org/c/eol-services
DOI: 10.5281/zenodo.13312768
title: US Fish and Wildlife Service Endangered Species Program

description: This is where EOL hosts source datasets (archives, dumps, etc.) from EOL content partners (especially partners without a web presence of their own).

This organization will also include the content partner utility files EOL connectors use to generate a particular content partner__s resource EOL archive or XML.

For questions or suggestions please visit the EOL Services forum at http://discuss.eol.org/c/eol-services
DOI: 10.5281/zenodo.13312761
title: North American Mammals

description: Smithsonian__s North American Mammals contains over 400 mammal species and thousands of photographs, watercolors, scientific illustrations, range maps, weights and measures, descriptive text, references, links, and the conservation status of each species,. Searches and navigation are available for every knowledge level, and an interactive map lets users map multiple species ranges simultaneously, and explore the relationships between species and ecoregions.
DOI: 10.5281/zenodo.13312762
title: North American Mammals

description: Smithsonian__s North American Mammals contains over 400 mammal species and thousands of photographs, watercolors, scientific illustrations, range maps, weights and measures, descriptive text, references, links, and the conservation status of each species,. Searches and navigation are available for every knowledge level, and an interactive map lets users map multiple species ranges simultaneously, and explore the relationships between species and ecoregions.
DOI: 10.5281/zenodo.13312640
title: Smithsonian Orchids

description: This is where EOL hosts source datasets (archives, dumps, etc.) from EOL content partners (especially partners without a web presence of their own).

This organization will also include the content partner utility files EOL connectors use to generate a particular content partner__s resource EOL archive or XML.

For questions or suggestions please visit the EOL Services forum at http://discuss.eol.org/c/eol-services
DOI: 10.5281/zenodo.13312641
title: Smithsonian Orchids

description: This is where EOL hosts source datasets (archives, dumps, etc.) from EOL content partners (especially partners without a web presence of their own).

This organization will also include the content partner utility files EOL connectors use to generate a particular content partner__s resource EOL archive or XML.

For questions or suggestions please visit the EOL Services forum at http://discuss.eol.org/c/eol-services
DOI: 10.5281/zenodo.13313565
title: National Wetland Plant List: National Wetland Plant List, 2013

description: For more information, see http://wetland-plants.usace.army.mil/nwpl_static/v33/home/home.html#
DOI: 10.5281/zenodo.13313566
title: National Wetland Plant List: National Wetland Plant List, 2013

description: For more information, see http://wetland-plants.usace.army.mil/nwpl_static/v33/home/home.html#
DOI: 10.5281/zenodo.13312587
title: DC Birds: DC birds- Spinus tristis

description: Media and articles supporting the Smithsonian__s Birds of DC exhibit and mobile websiteMedia and articles supporting the Smithsonian__s Birds of DC exhibit and mobile website
DOI: 10.5281/zenodo.13312586
title: DC Birds: DC birds- Spinus tristis

description: Media and articles supporting the Smithsonian__s Birds of DC exhibit and mobile websiteMedia and articles supporting the Smithsonian__s Birds of DC exhibit and mobile website
DOI: 10.5281/zenodo.13321453
title: Trait Spreadsheet to DwCA: Fungi ecomorphological trait data

description: https://eol-jira.bibalex.org/browse/DATA-1882
Created: 2023-05-05 15:46
DOI: 10.5281/zenodo.13321454
title: Trait Spreadsheet to DwCA: Fungi ecomorphological trait data

description: https://eol-jira.bibalex.org/browse/DATA-1882
Created: 2023-05-05 15:46
DOI: 10.5281/zenodo.13321414
title: Trait Spreadsheet to DwCA: Coleoptera Body Length Data

description: https://eol-jira.bibalex.org/browse/DATA-1882
Updated: 2023-02-01 15:02
DOI: 10.5281/zenodo.13321415
title: Trait Spreadsheet to DwCA: Coleoptera Body Length Data

description: https://eol-jira.bibalex.org/browse/DATA-1882
Updated: 2023-02-01 15:02
DOI: 10.5281/zenodo.13321431
title: Trait Spreadsheet to DwCA: Orthopteroid Body Size 3

description: https://eol-jira.bibalex.org/browse/DATA-1882
Created: 2023-03-30 11:52
DOI: 10.5281/zenodo.13321432
title: Trait Spreadsheet to DwCA: Orthopteroid Body Size 3

description: https://eol-jira.bibalex.org/browse/DATA-1882
Created: 2023-03-30 11:52
DOI: 10.15468/dl.fmps9h
title: Occurrence Download

description: A dataset containing 304 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Blatta orientalis Linnaeus, 1758",
 "Country is United Kingdom of Great Britain and Northern Ireland",
 "Year is greater than or equal to 1500"
 ]
}

 The dataset includes 304 records from 21 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0031362-241107131044228/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.13145/bacdive13292.20241212.9.2
title: Kibdelosporangium philippinense Mertz and Yao 1988

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13293.20241212.9.2
title: Kutzneria albida (Furumai et al. 1968) Stackebrandt et al. 1994

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13294.20241212.9.2
title: Kutzneria viridogrisea (Okuda et al. 1966) Stackebrandt et al. 1994

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13295.20241212.9.2
title: Kutzneria kofuensis (Nonomura and Ohara 1969) Stackebrandt et al. 1994

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13296.20241212.9.2
title: Kutzneria buriramensis Suriyachadkun et al. 2013 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13297.20241212.9.2
title: Lentzea flava (Gauze et al. 1974) Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13298.20241212.9.2
title: Lentzea aerocolonigenes (Labeda 1986) Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13300.20241212.9.2
title: Lentzea aerocolonigenes (Labeda 1986) Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13303.20241212.9.2
title: Lentzea xinjiangensis (Wang et al. 2007) Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13304.20241212.9.2
title: Lentzea fradiae (Zhang et al. 2007) Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13305.20241212.9.2
title: Lentzea atacamensis (Okoro et al. 2010) Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13306.20241212.9.2
title: Lechevalieria deserti Okoro et al. 2010

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13308.20241212.9.2
title: Lentzea waywayandensis (Labeda and Lyons 1989) Labeda et al. 2001 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13309.20241212.9.2
title: Lentzea albidocapillata subsp. albidocapillata (Yassin et al. 1995) Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13310.20241212.9.2
title: Lentzea californiensis Labeda et al. 2001 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13311.20241212.9.2
title: Lentzea albida Labeda et al. 2001 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13312.20241212.9.2
title: Lentzea flaviverrucosa (ex Yan and Deng 1966) Xie et al. 2002

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13313.20241212.9.2
title: Lentzea albidocapillata subsp. violacea (Lee et al. 2000) Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13314.20241212.9.2
title: Lentzea kentuckyensis Labeda et al. 2007 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13315.20241212.9.2
title: Prauserella rugosa (Lechevalier et al. 1986) Kim and Goodfellow 1999 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13316.20241212.9.2
title: Prauserella halophila Li et al. 2003 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.
DOI: 10.13145/bacdive13317.20241212.9.2
title: Prauserella alba Li et al. 2003 emend. Nouioui et al. 2018

description: The range of data encompasses taxonomy, morphology, physiology, sampling and concomitant environmental conditions as well as molecular biology.