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 Ga0210406_10002548

Scaffold Ga0210406_10002548


Overview

Basic Information
Taxon OID3300021168 Open in IMG/M
Scaffold IDGa0210406_10002548 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-30-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)20678
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F000828Metagenome / Metatranscriptome872Y
F001765Metagenome / Metatranscriptome639Y
F003124Metagenome / Metatranscriptome506Y
F034285Metagenome / Metatranscriptome175Y

Sequences

Protein IDFamilyRBSSequence
Ga0210406_1000254810F034285GGAVEAGFAESQAAAVKASVITIEKTMGIIKKYFQSKTVMAAKQRANVHAVPRIFAKDSGGRPAELPRQYRRE
Ga0210406_1000254815F000828N/AMKEPEKSIFDQQYRVVKVEGDRLLVRGVVNGEVLTIVNPEPQTPLTPEEYPPGKLIELTDPSSARPN
Ga0210406_1000254818F001765GAGMPCLSEHLISLRQEITDLRKLNTLCSEKSDPNLQDQSALELRTNRLREIKLELSKMLNPPTDPKIWWDGRPGPNQART
Ga0210406_100025489F003124AGGCGGMVYDGATMPVAKRTHAKTTRSKHVRRSVTLPTKIARQVENLAKQRALSDNRVLVELIEQGIEAQQQKEKTFFQLAERFRAASDPEQVKQLGNQLGRFVFGE
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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