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_10001288

Scaffold Ga0209180_10001288


Overview

Basic Information
Taxon OID3300027846 Open in IMG/M
Scaffold IDGa0209180_10001288 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)12418
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (81.25%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: IMG/M)

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?
F003226Metagenome / Metatranscriptome499Y
F007820Metagenome / Metatranscriptome344Y
F044122Metagenome / Metatranscriptome155Y
F059287Metagenome / Metatranscriptome134Y

Sequences

Protein IDFamilyRBSSequence
Ga0209180_1000128810F007820GGAGGMRFRTSMVLVTLFVACFTIAAWSKPPTVQPSPGPLLPTPDTQSLSGRIAAVGDAEFSVQVTKDLDMNTVQFLVDDKTKVEGKLAVGAQATVEYRSNGDKKIAVHVIVTPTSGMSSY
Ga0209180_100012883F003226GGAGMSKQLSVNTSVCSEYQRLLEESQSALEIWNEHRAEFCQFRFIGREAGDELLRLQAKYARAYTVLQNHERNYSLCQLVSRIEVPDSENSSDTLSDYELCT
Ga0209180_100012885F059287AGGGGGMSHLMKLAEVLRDIGEECSKSEIEQALGLCMGFADRVSREREDAAEDPESLGQSISTKYSGLPN
Ga0209180_100012889F044122GGAGMHVPTGRNEKRTERAVTVEVLRLDESQPNVRTVTENVSPRGARIVTDCDCTPRKHVLVTAPERGVKSLVWVIYCQRVESTKFAIGLQLIVRVEEWGKPASSD
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