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 Ga0070762_10033900

Scaffold Ga0070762_10033900


Overview

Basic Information
Taxon OID3300005602 Open in IMG/M
Scaffold IDGa0070762_10033900 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2748
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F033134Metagenome178Y
F037842Metagenome / Metatranscriptome167N
F044617Metagenome / Metatranscriptome154N
F065986Metagenome127N

Sequences

Protein IDFamilyRBSSequence
Ga0070762_100339003F044617AGGAGMSTSPQPSREKPSVTAITAEERRKLDQRVRDKHQRLRNRYPEIYGKVVDWIHHYIEDGTLYVCIRFQDKTDFALEFNPQIVRVGTELCDSATDNFDVIRNYYREERE*
Ga0070762_100339004F065986GGAMSNIAKKQGRMIRKGKEVRFGSVHIDLIGPVELLHNREAKGAAIDFLRTEILASKDWLKDCARISPTLKRFRLVSIRT*
Ga0070762_100339006F037842AGGAGGLKQKTVKARGEGVEYPALTGKVIRQVRFVNDEDYTALTIEFDDSTLVSFRFKASIAFSIDPELSTVKGGNIVKWRELKTRPVMRQVSGR*
Ga0070762_100339007F033134AGGAMKQEQESKQLITFSSLHIEVLGPRELGNSQQAIRGVTEFLHGVELDVGKLLRERAERLPILEEFRLRFG*
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