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 Ga0073913_10001988

Scaffold Ga0073913_10001988


Overview

Basic Information
Taxon OID3300005940 Open in IMG/M
Scaffold IDGa0073913_10001988 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_25-Nov-14
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2796
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (90.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Source Dataset Sampling Location
Location NameUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000311Metagenome / Metatranscriptome1326Y
F000868Metagenome / Metatranscriptome853Y
F001125Metagenome / Metatranscriptome769Y
F053291Metagenome / Metatranscriptome141N
F084239Metagenome / Metatranscriptome112N

Sequences

Protein IDFamilyRBSSequence
Ga0073913_100019881F000311N/AMEMAYWDAQIMGLDPEAMSALTFNIGTGSIEKVSRIRDKYNLTESYISDYETTGY*
Ga0073913_100019884F001125AGGCGGMGDRANFGFRDSKENVVFLYGHWAGHNMLAKLANAVQAAEPRWQDESYATRIAISNLIGEDWTQTTGWGIYINQLGDNEHKVPVIDWSNQTFTLYEEDLSTVVFTLSLAAFVDKYSRLVMV*
Ga0073913_100019886F000868AGGTGGMSFLENENQMVIDATYSEIGEMLVEDWVNSNLDEGQMFADFRFAEMADNNYLKGRFNLFYDLNPGDQYYLECEEE*
Ga0073913_100019887F053291GAGMITTQELIDYMYDDNLAHFDDRDTSDDCDCYIHITLNTMIKYMEAIEC*
Ga0073913_100019889F084239AGAAGGMTKSSYFLEYIKLHLISLEQDLEQIDYVNSHHLYRVKEAEIANTKHILSVATDIMNNNERV*
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Institute for Fundamental Biomedical Research
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