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 Ga0210394_10003539

Scaffold Ga0210394_10003539


Overview

Basic Information
Taxon OID3300021420 Open in IMG/M
Scaffold IDGa0210394_10003539 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-12-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)19421
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (61.90%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

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?
F007233Metagenome / Metatranscriptome355Y
F033134Metagenome178Y
F037842Metagenome / Metatranscriptome167N
F044617Metagenome / Metatranscriptome154N
F065986Metagenome127N

Sequences

Protein IDFamilyRBSSequence
Ga0210394_1000353912F044617AGGAMNTSPKESRQMPTVTALTAEERRKLDERIRDKHQKLRNKYPEIYGKVVDWIHHSVEDGTLYICIRFQDKTDFALEFSPQIVRVGTELCDSATGDFDVIRNYYQEERE
Ga0210394_1000353913F065986GGAMSNIAKRQGRIIRKGKEVRFGSVHIDLIGPTELLHNREAKGAAIDFLRTEVLASKDWLKDCAKISPSLKRFRLISIRTQNRLKV
Ga0210394_1000353915F037842AGGAGGLKQKTVKARAEGLEYPALIGKVIRHLRFVNDEDYTALTIEFGDGTLVSFRFKASIAFSINPELSTVKGGNIVRWRELKTRPVMRRVART
Ga0210394_1000353916F033134AGGAMKHEQESKQVITFNSLHIEVRGPRELGNNQLAIRAVTEFLDAVEHDVRNLLRERAETSPILEGFRLLFG
Ga0210394_1000353917F007233GGAGMANWKPKEHKRQLNLGTFSDGIKGKVLEAVNISNELECRYISLEFRDKTELTISLDTRLTGKLELFDCKTGDHRLVRKIGLIPDDAPVWRPKD
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