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 Ga0137365_10000215

Scaffold Ga0137365_10000215


Overview

Basic Information
Taxon OID3300012201 Open in IMG/M
Scaffold IDGa0137365_10000215 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage1_L_40_16 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)34948
Total Scaffold Genes43 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)28 (65.12%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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
CoordinatesLat. (o)39.5673Long. (o)-123.4758Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F034123Metagenome175N
F035684Metagenome171N
F090164Metagenome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0137365_1000021514F090164GAGMKAVYARGAKFVPVSLGTNFGSGEVLMGRYGCFNCSSNTGDFAFLVIALGVAAFGVYAVKQRWQYSRPEEDHQDDEQVIVDQGGWETKSFDSKEPSTKASGDDEGWETKPEG*
Ga0137365_100002152F035684AGGMGLLPEFFTLLGIEIFAALSLVSVLLDRDIPSSAQWLFQGAAGLGLGQLVVTEGFGTSSVIDASRFWISIFYLILSVCSVAGLNVYLVSVRRKAAIASVFSGTITTPTVTVSVLSISSYLGGVDVSFTPLTIVILVVPAVLVGVGAYGFLHKTFKRIGKSAGRELSPASVSAPVETPRKYESLDLKDILGEWEESQKKDRVT*
Ga0137365_100002153F034123GAGMKGMKGLFDLGGKSVLRLGLLVLSTLLIVGGSVFFYDRLVYERALSVGGVITGSGSTTQTGLNPAPGTILILAVSAVLISLSVFGFLREVFRGKRNRKALAKESSPTASVSLPLEIGPPLQVPSMQRDWEESPKKEESKH*
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