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 Ga0210410_10000016

Scaffold Ga0210410_10000016


Overview

Basic Information
Taxon OID3300021479 Open in IMG/M
Scaffold IDGa0210410_10000016 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-4-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)316040
Total Scaffold Genes295 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)221 (74.92%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001426Metagenome / Metatranscriptome697Y
F003382Metagenome / Metatranscriptome490Y
F006204Metagenome / Metatranscriptome379Y
F012600Metagenome / Metatranscriptome279Y
F075135Metagenome / Metatranscriptome119Y

Sequences

Protein IDFamilyRBSSequence
Ga0210410_10000016104F006204GAGMNDPRDIPILTEAVKENAEDSLCFDAKAVHAAILTETLELADSLLHQAAKDIEATLFERVFDRLRAQLPELVDRILHEHAAAHHEDAAAREDPKDHG
Ga0210410_10000016137F075135AGGVHRNSVDHKSLMRESTDRVQRALYSDNPNEQLVASRLLESPAAFRTWESEHSGLMLEVASPSFKRTQAALLKKATFRLIHRKAPFEYLRDARIRGDLRRRIMISLHPAQDYTRSVIAEHGQYVRKACSLLCTSHVGGNVVRDPDFSIR
Ga0210410_10000016240F012600GAGGMANDDKTGSDPESNFSFAVRDLQQANVAQTPTVDPAPTKAANENRGFDPYNTSGSFDRKNNWARVGKR
Ga0210410_10000016242F003382GAGMIGTGLKSFAAANPWSVELGLAALGLLIGVGLMPVLIFYAGAFALGRYEGASLGHLYHSLFVGLGQASIASWAVLLGPYGLYLLFKGLRLWWRASAHLA
Ga0210410_10000016243F001426N/AMRSWTPQSLYDAKPWAFIGIGVVLAIGTMLWSLSAGLWTVWRGLLCLAGAALAIVGGATLQMRQDYRARSKWRRDAPP
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