NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0209275_10009439

Scaffold Ga0209275_10009439


Overview

Basic Information
Taxon OID3300027884 Open in IMG/M
Scaffold IDGa0209275_10009439 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4142
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026812Metagenome / Metatranscriptome196Y
F050161Metagenome / Metatranscriptome145Y

Sequences

Protein IDFamilyRBSSequence
Ga0209275_100094392F050161N/AMVICCFSSPALGDDEVALRETVQRLAERVAAIPGLGGTLRLEWHPDASWSEGEGNHWQEMLRGEFEKRSLNLTGDAGAPVLDVFAAETPTQVVLTVKTRVSERDEIRIVAVPRGPLPAASLPVAPLRLDKQMIFESADRILDASSLGNGADGGLALLLYRNFEIIALRVDAKGALKQSVSLSPANLKPSRDPRAELTPRGTTVSVELPGKSCEFSWESPGNVKCRTEKSAAAGKSAWRAETVLTSRCDGSSWKLVNGGSEPSVREVLQVVPNGISRESIAAVLSEFPGPILNSSGEQDPSSALVIARNLRTGNYEIYKITLACGN
Ga0209275_100094393F026812GGAMTIGAGIAQAQAPSCADLRAQKGKVYGFHLTQLNETQIDAKSKEIDTYWKQLQSAGPEGVSCLKEMLAAEKTDHIFQFDAASFLFQLDKSPESLNLVKDAIVQTDFQETDPANYLSLALELGQRGVNIQSLAARLLLFPNAIIHISEHSLDLDSDTAALFLYGSMDSAKATSALIRQLQAQEPFVRAAAAHLLVEEMTEEAFRTLSTWGGLAEIKEDYRRNDIQAVMKYQAPDPADFANPKWTREQVLQIIAGLPHTRKEFDDVMSTRGAEFDRQMREKKPSQEELAKAVAESEPIYGISDRTSFQNSAVATLKAEDFDTLREARRKALYNISDESLSEYLAYTQVMIRLLNRLDLYKDYRAH
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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