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 Ga0063455_100000493

Scaffold Ga0063455_100000493


Overview

Basic Information
Taxon OID3300004153 Open in IMG/M
Scaffold IDGa0063455_100000493 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from Hopland, California, USA (version 2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5019
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

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?
F012927Metagenome / Metatranscriptome276Y
F015272Metagenome / Metatranscriptome256Y
F017897Metagenome / Metatranscriptome238Y

Sequences

Protein IDFamilyRBSSequence
Ga0063455_1000004933F017897N/AMKGPQITIVLLADRRNSQTATTLKGLGYRLMTTFTPDHAVAICVNNQVDAVILDQEHFIQTEGWSVAQSLKLIRNNLCVILVVRGKIVGSDLPAGVDAVVPDHDALALTATLKHLLKGF*
Ga0063455_1000004934F012927GAGGMTAYALLLVILALISATALYFFLGRLSSFPCRTIRDVPAFLQPVDSAGMMQLLNPQTEEFLHSAMTGVALRLEQRKSLHFMREHLLRMSHNAHILLEWSNAELKRQIVGQSEQDGECYRDCARQLHAAAIEFRLFAILSLIKINLWLAFRTQSWLPFSAPSLAELNHLGSLRFFELYSNLTRAVSELGRHYGTEFRDELLRAWAVAA*
Ga0063455_1000004935F015272N/AMWLSNVLWLVPPVLQSFLAILMVRRGAQKRFKFFFAYTLFAIAAETTKFSLLNPHVTTWPFFLAAWGSEAIYAVLGYLAIYEVFRDVFENFHHLRWFKYLLPITAAIMLGIAILIPLVHRAVDTEPLLEGIFALQVAVRCLQFGVFFLIFLLARIFELDYRQYAFGIAAGFGIAVAGILLGTLVRTGLGLKLVMYFRYVPSVAYCMAVTVWLVSFVRAETEDPFHDFQHLFTPELFLGRIEKYKQDVRGMFRP*
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