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_10029347

Scaffold Ga0209283_10029347


Overview

Basic Information
Taxon OID3300027875 Open in IMG/M
Scaffold IDGa0209283_10029347 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)3423
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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?
F013998Metagenome / Metatranscriptome266N
F014491Metagenome / Metatranscriptome262N
F019978Metagenome226N
F040025Metagenome162N

Sequences

Protein IDFamilyRBSSequence
Ga0209283_100293472F040025GGALSNTRLRIGDRISITWRRCQAVSSEDYESPEQLLLSDPVRRKALELFEQEQEHTGEEYDFGELFTRILWERDWTDKLASVLGKIRDRFRLRNTDTKLSWELSALIPDMNEVAKAYEEMTSGYKEFIRTVLQAKNRGQRDE
Ga0209283_100293473F019978GGAMSEKKRVPPWERAQLSFTLAERRRLRRVEENERPGKARLLDLEENRKRLAEIRKNFCPDCQRYIRSDRLAREERKIGEEQGFCKCAKNAPKP
Ga0209283_100293475F013998GAGGLKMHRLLSLLAFVLALIGGVLVAVSALGGLERLSIGSLAVNGLVFLFGLGAILGGWLIYTRIRKLGGIMTLVAGVLLFLLTGGAGTAVLLVLVAGVLGLVAAEMKPWWAFWR
Ga0209283_100293476F014491N/ARSSLSVMAGKSKSSWHNSAMILLILAALAMFGTIAYIITLQDVTNSAISYITGLLISVTGILLGLSGLTPASKSLERMKLQITLTITTLLWLVAVVMIAQTAGPFAFATSSAALRYLFLVGIALFTILVVMYSTSTIEATRQRLMAEQTAKSSQAGRATG
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