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 Ga0070743_10008451

Scaffold Ga0070743_10008451


Overview

Basic Information
Taxon OID3300005941 Open in IMG/M
Scaffold IDGa0070743_10008451 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.697
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3644
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (40.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Crocinitomicaceae → unclassified Crocinitomicaceae → Crocinitomicaceae bacterium TMED45(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007770Metagenome345Y
F016956Metagenome / Metatranscriptome243Y
F023615Metagenome / Metatranscriptome209Y
F039679Metagenome163Y

Sequences

Protein IDFamilyRBSSequence
Ga0070743_100084513F039679AGAAGGMSAKNSHLTIRSDLLEEDADISVPVRFLDYQEDDYVGDSATLNIDCEYSTDGEQLDDMAGYNIIVRITDSSKKDKYNNPWKDRLAFAISSDFDWN*
Ga0070743_100084515F007770N/AMSGEGLTTSFRRTTQTTKSNKQLLREFQNIIYASRVTTHMKWYGEAESVQLIEHGDEELPKFQQEYVDIKDTFQFYISVRESWYEDADLYESHEVEDSFVSLARKFANDNALMYFPEGFPAEWIEQEIINGEKNWNHFNVKPDDKNIDKICDVWYRYGIMKLQAFDEKVESQLWQDAKTEIKQLMEHEYAR*
Ga0070743_100084518F016956AGCAGMEQYQIKIQKNYKMIDTIKTWQAPKKAQLAIIDLAITHIKKVISNPEVKTEGDNFDYWNSYDLGDGNYVDYNIYCGDDWCVLKQDGSGEYEFTDPSKWSWGVACYAVDPPTKENKYHQIDTDREQYLFSYNNSYGNFEVEFENAS*
Ga0070743_100084519F023615N/AMNRFELEDAMSNLHQTGEDIETMIYAIGDCPIKHTEDQLLNMLIGMKQLHDTRYQKMWDTFEQLIQNGTISDKNTEEL*
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