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Molluscan Shell Matrix Proteins

The database contains fasta sequences from UniProt and associated metadata for molluscan shell matrix proteins (SMPs). The database only contains SMPs that have been experimentally validated to be present in molluscan shell matrices (based on the publication(s) attached to the UniProtID). Metadata includes information on functional domains present in the sequence, as detected by InterproScan.

With the advent of Next Generation Sequencing technologies, it is computationally resource intensive to run sequence similarity algorithms on all published data. Moreover, it is impractical to sort through hundreds of sequence similarity search results when working with non-model organisms, since pre-established functional annotations of sequences are generally not available. Therefore, this database was created in order to provide a targeted molluscan biomineralization dataset for sequence similarity algorithms (such as BLAST).

Database created as part of doctoral research, funded under Marie Curie Innovative Training Networks (ITN) - Calcium in the Changing Environment (CACHE - Grant agreement 605051).

Simple

Alternate title
Polar Data Centre (PDC) record GB/NERC/BAS/PDC/01132
Date (Publication)
2021-01-08
Identifier
http://www.antarctica.ac.uk/dms/metadata.php?id= / GB/NERC/BAS/PDC/01132
Custodian
  British Antarctic Survey
High Cross, Madingley Road , Cambridge , CB3 0ET , UK
+44 (0)1223 221400
Originator
  UK Polar Data Centre, British Antarctic Survey, Natural Environment Research Council, UK Research & Innovation - Yarra, T.
High Cross, Madingley , Cambridge , CB3 0ET , UK
+44 (0)1223 221400
Maintenance and update frequency
unknown Unknown
Keywords
  • NDGO0001
NERC OAI Harvesting
  • NERC_DDC
GCMD Parameter Valids
  • EARTH SCIENCE > Biosphere > Animal Taxonomy > Mollusks
BAS Free-text keywords
  • Biomineralization
  • Molluscs
  • SMPs
  • Shell Matrix Proteins
  • Shell formation
Use limitation
Data released under Open Government Licence V3.0: http://www.nationalarchives.gov.uk/doc/open-government-licence/version/3/.
Access constraints
otherRestrictions Other restrictions
Other constraints
Data released under Open Government Licence V3.0: http://www.nationalarchives.gov.uk/doc/open-government-licence/version/3/.
Metadata language
EnglishEnglish
Topic category
  • Biota
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Begin date
unknown
End date
unknown
Reference system identifier
OGP / urn:ogc:def:crs:EPSG::4326
Distribution format
Distributor
  Polar Data Centre - British Antarctic Survey
+44 (0)1223 221400
OnLine resource
GET DATA ( http )
Hierarchy level
dataset Dataset

Domain consistency

Measure identification
INSPIRE / Conformity_001

Conformance result

Date
Explanation
See the referenced specification
Pass
No
Statement
Database is based on uploaded Unioprot IDs entries until JULY 2018. No major publications have since been released that match the criteria to be included in the database. Missing values are only present in the domain columns - A missing value indicates that there were no functional domains detected in the sequence, based on InterproScan results from Interpro databases.
File identifier
GB_NERC_BAS_PDC_01132 XML
Metadata language
EnglishEnglish
Hierarchy level
dataset Dataset
Date stamp
2021-01-08
Metadata standard name
NERC profile of ISO19115:2003
Metadata standard version
1.0
Point of contact
  British Antarctic Survey
+44 (0)1223 221400
Dataset URI
http://www.antarctica.ac.uk/dms/metadata.php?id=GB/NERC/BAS/PDC/01132
 
 

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