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 C688J18823_10000009

Scaffold C688J18823_10000009


Overview

Basic Information
Taxon OID3300001686 Open in IMG/M
Scaffold IDC688J18823_10000009 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from Hopland, California, USA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)211039
Total Scaffold Genes210 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)158 (75.24%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Grasslands → Soil → Soil Microbial Communities From Mediterranean Grasslands, California

Source Dataset Sampling Location
Location NameUSA: Hopland, California
CoordinatesLat. (o)38.99297339Long. (o)-123.0674491Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009575Metagenome / Metatranscriptome316Y
F044760Metagenome / Metatranscriptome154Y

Sequences

Protein IDFamilyRBSSequence
C688J18823_10000009136F044760AGGAGMNEPKQETPNVPVQAAPGPVGKAQKVRSSRYEWEGKSGNEKDKAAGAAGASRRSLLASARAMLRKLFSGDRVPDNRSFFDNDDDASPSAA*
C688J18823_10000009167F009575N/AMFLYKSVMADETAVKMYESARDRLRELLRQEIEVKDQISHWGPIVEQLASLTGETVDPDIGNRINELKQAEAGGAGAAGAGQEMGLTEAIRWVFRQPLILPLTPTQVRDRMAEMGYDLSKYKHVMPPIHNTLKRMKEAGEIKEVEAVGGFGGKAFVSAR*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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