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 Ga0209283_10005123

Scaffold Ga0209283_10005123


Overview

Basic Information
Taxon OID3300027875 Open in IMG/M
Scaffold IDGa0209283_10005123 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H1.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7518
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
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, 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?
F006236Metagenome378Y
F022381Metagenome214N
F074688Metagenome / Metatranscriptome119N

Sequences

Protein IDFamilyRBSSequence
Ga0209283_100051233F074688GAGMVFVEEIRPLKNDRAFIEPTSPVLDRLLSEEKITELADIAAQNTVDGFIAQDQMEFDRAVLHWSQVFHTIFPEFDSERVMKASEAFITALFAESKLKDDNADPYTRVHDEKWEFIRSQFSKMCILLNLPASFGIETTNAYRYHAIKDDAYVKHLIELHRVLMKRLTGTESVYRELAGLYLTAISLHDQHNRYGVVKGKEIMKAYYTILFEAKNAAHKASY
Ga0209283_100051234F022381GAGLDPTILVVSIIGAALTTGLIYYSLRTVFLFKNNVAARAWVYISLSAIFFGVGVVAFLIESLVPLGLLPVGGVLETVGALFLFLGLRKNFLFWASKDHFA
Ga0209283_100051236F006236AGGLFAGSGLYWVLSGPLIGWFSVLNPTEIHLSPMGLTLVLITGIACLVVGLWIIPTDFQELYKLFSRNDGWVFTIPIVLVVADVYLTLIGLSVGNGELNPFVASAVQIGPWAVVPFVVSYIALSEGLALGMLSVGKWLFGVARPSEYMPFALVCGAASFGPVNNAELLAFPGEGSGNYFVGMTIGMIALSAGIYLHFRSESARLTTSWS

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