SUPERFAMILY - supfam

Grade
The grade for the resource as automatically determined by the criteria violations.
4
Description
A full description of the resource from the resource itself, if possible.
SUPERFAMILY is a database of structural and functional annotation for all proteins and genomes.
Last curated
(Optional) The ISO 8601 date of when the resource was last curated.
2019-10-18
Location
URL for the resource.
http://www.supfam.org
Source type
(Optional) How the resource relates to the data it contains. Current allowable entries are: "unknown", "repository", "source", "integrator", and "warehouse".
source
Curation status
Whether or not annotation is complete on this resource. Current allowable entries are: "complete", "incomplete", and "nonpublic".
complete
Field
The area of research for the resource.
biology
Type
The type of data the resource contains.
annotation
Categories
(Optional) Tags to describe the resource and its data.
structural annotation
functional annotation
HMM
protein superfamily
Access
(Optional) Links to the resource's data.
download: SUPERFAMILY Genomes
download: SCOP Hierarchy
License
The license that is used by the resource. We use SPDX where we can or: "inconsistent", "public domain", "unlicensed", "all rights reserved", or "custom".
custom
License type
The type of license that is being used. This will be to define compatible data pools in the future; we only use the grossest terms now. If it is not known "unknown" is used. Current possible values are: "unknown", "unlicensed", "copyleft", "permissive", "public domain", "copyright", "restrictive", or "private pool".
permissive
License location
(Optional) The link to the resource license.
http://www.supfam.org/about
Focused curation
(Optional) Setting this flag to true indicates that the licensing was combinatorially complicated enough (as is the case in some commercial licenses) that the curator chose to wear a single "hat" during the process. From the site text: "While we try to cover as much of the licensing possibilities of a data resource that we can, in a few cases we may choose a particular "hat" to wear while evaluating to prevent a combinatorial explosion, which may also reduce the clarity of our curations for the community. In these cases, we may take on the role of a (1) non-commercial (2) academic (3) group that is (4) based in the US and trying to (5) create an aggregating resource, noting that other entities may have different results in the license commentary."
false
Issues
(Optional) Structured issues with the license. For every issue discovered with a resource, there should be a corresponding item in the license-issues field that marks the /exact/ violation, along with any comments. This field can be used by resources as the first step to improvement, as well as clarify any surrounding circumstances. Any issues or thoughts about a resource that do not slot into one of the criteria violations can go into the license-commentary field.
Criteria A.2.2: No formal license used, just a declaration that: "All annotation, models and the database dump are freely available for download to everyone."
Criteria C.1: There seems to be no central clearing location of the data, but rather a hierarchy view, navigate, click on individual set, then download. Scriptable.
Commentary
(Optional) Further commentary on the license, possibly including the though process of the curations and things like locations of additional licenses.
• The relatively high score hinges on the positive or negative evaluation of whether the declaration of "freely available...to everyone" constitutes a wnough of license; I have decided that it does, but it is a close call.
• Only other notice was in footer: "© The SUPERFAMILY authors and Julian Gough 2001-2019."; taking this a an elaboration on above.
• Very minimal website.
Controversial
(Optional) Marker noting that there was some extended internal discussion or controversy about the evaluation of the licensing terms. If this is marked at "true", the controversy, or a link to a permanent archive of the controversy, must be sufficiently contained in the "license-commentary" to reconstruct the issues.
false
Contacts
(Optional) Resource contact information, link, email, or whatever is public.
http://www.supfam.org/contact
Grants
(Optional) Semi-structured list of supporting grants.
TBD

All copyrightable materials on this site are © 2019 the (Re)usable Data Project under the CC-BY 4.0 license.
The (Re)usable Data Project is funded by the National Center for Advancing Translational Sciences (NCATS) OT3 TR002019 as part of the Biomedical Data Translator project and U24TR002306 as part of the CTSA Program National Center for Data to Health (CD2H).
The (Re)usable Data Project would like to acknowledge the assistance of many more people than can be listed here. Please visit the about page for the full list.