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 Ga0099829_10003200

Scaffold Ga0099829_10003200


Overview

Basic Information
Taxon OID3300009038 Open in IMG/M
Scaffold IDGa0099829_10003200 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H2.8 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9570
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (53.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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?
F002975Metagenome / Metatranscriptome516Y
F022852Metagenome / Metatranscriptome212N
F023823Metagenome208N
F069908Metagenome123Y
F073400Metagenome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0099829_100032001F069908N/AMMSGTGHSQARWIGIFVLVLVISLAELTALILDYQNNRYLRLYVSDNLSMIIVAAIGLLIVAGGAGHVVSRRLGVQKTPGPLVPVFARIGSFVGRRYK
Ga0099829_1000320011F073400GAGGMRSNQLRRFLNSDVVGQLNNGLFFEGHVLNKAGKPSVLERDSQVTRQISAARVKWLVKAVRYC*
Ga0099829_1000320012F022852N/AMHSLSVTIPYSVRISRELLDEMRRLYDRMEPPKPTFSAVLSHIVKLGWDSYKAQKNEEVCLQKVTVAAYPKRIHDQTFQR*
Ga0099829_100032003F002975GGAMADFCSRCGKTLSLIDPLLELKGQRFCEDCYPDVKREHAAASMSDKVDRRQRVAFADDSSDENLRGSIIKGKQALAVKENEFRWDNPSLSLIASALRILTDQNNIMMKQNELILRELESRPATVKSK*
Ga0099829_100032009F023823AGGLGDEAKNNFDRALVDSVSAALDALGPTVKESIFLLLQRRNSISPDQIPKLVGEFVKALQDVLGPTSRVVEKLIIAGLIARKQVPANIAQGRNLLEVVGSVRLSQVSQT*
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