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 Ga0209180_10005452

Scaffold Ga0209180_10005452


Overview

Basic Information
Taxon OID3300027846 Open in IMG/M
Scaffold IDGa0209180_10005452 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H2.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6418
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (18.18%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006299Metagenome / Metatranscriptome376Y
F010312Metagenome305N
F012762Metagenome277Y
F014110Metagenome / Metatranscriptome265Y

Sequences

Protein IDFamilyRBSSequence
Ga0209180_100054522F012762N/AVQALLPTILEEDPSLGTVDNFPTVLHARASFSFDINPESLQKALVSALASLRTNAKSRQITVADRDGYLEGQLVFRLGIGNGDGFDVLDSKEEERVLHRIENRGSFNTLDLAIQLHYSVNDSRQHRVHEDHYILRLVFQPGRVEVLVHHLKGVRRVEPDELIRLIIQELNVELTRDRYGQVELEAVDIT
Ga0209180_100054525F010312N/AMKCLHAYGRFRLEMASPKKELMMLRVFRLTLPAALLVSLTWMTLFTDTARQAVINSLGANANIIIFILGLFLVVGLYWVMGVYERKILYENHHTRPAF
Ga0209180_100054527F014110AGGAVDFAKLSGNIGPAVNFLKEHVKKVKGTVSTKGSQILVEGLKHKEVKLLLHKFLRHNGLDDHRVLSQSGILEIVPHHIATHTKIDEATTPPASATMPYLFPGTPPPVAADKRRRKKS
Ga0209180_100054528F006299N/AMKSRTTAETLTELVREFGVVYVTALTRQGCSGCETQKPLFQRLAEGMSRENSARVRFRSLHVSYQDGDKRESWNSKRIFGHAAYPTYMIHVRSHVGPLEIYRSVYPPMEELEKQIKESFELADFYKTEAENASGLTPEKL
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