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 Ga0209274_10000001

Scaffold Ga0209274_10000001


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000001 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)464482
Total Scaffold Genes388 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)299 (77.06%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

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?
F000954Metagenome / Metatranscriptome822Y
F002181Metagenome / Metatranscriptome586Y
F005887Metagenome / Metatranscriptome387Y
F008092Metagenome / Metatranscriptome339Y
F008565Metagenome / Metatranscriptome331Y
F040257Metagenome / Metatranscriptome162Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_10000001116F002181GGAGMEDSLKKDPGLSSRLRKTNEELKNLQSSVKTGMINVKVLMDFRAATERARQASAAVQQWLDAQGKGGDPYKLLEQVIRQRVEMATQLIKDVTIDLESIDVDYDTPGLPALNEAVRTLDERLEKLFPH
Ga0209274_10000001166F000954N/AMKKGLFILVAVVLAPVLLVGFVALAAGDWRQVGATPGGDQVLVSSVTAQKNGLRTAWIRVEYKEPAKLPQGGPFVELRARARFNCGSGVAVPGVVTNSEWFYSRDHGGKLVVSKKAHRDDQFGQLSEGGFGELAKDFVCNQK
Ga0209274_10000001365F005887AGAAGGMGVTDRELALRAIDIEFQREVLDKLVRLETKMDALVGNGQPGRMKTAEDKVAVLERNDLRNSVHNRIVNGAISAAISVAIALHKYWLK
Ga0209274_10000001366F008092AGGAGMTTVPSTTIITNLKNATAPTANTLADATAAGLDMPGMLALSLTKAYELKVCLTLIVGKTDSADPNLATLDDVLASLT
Ga0209274_1000000156F008565AGGMSGIKRLVVVAALLLLCISFPPPSLAARHKVPRYLTKETTVDMKDMNHVFLGWVDLGADEWAYRGYSTKDEWVNVIDSLNAEFARSLQVTYLPGRTITAAKNKLEENTAGNDLYIKFSDVRVDYDNYHLILSIHFIDPKTNAEIGSIPTRPYYGNDWGLKNYLKAALDEVGTKLQVEVTGESQGKKKK
Ga0209274_1000000157F040257GGAGMKRTILIAVCLFSVALPASLIAKQKAAPLDLRGMNRIFLGWVDISADEYHRQGYSSREEYLAVINHANVWFQTRCQSTAFAGRTMTAAKDRSDESTAGNDLYVKFSDVVYDHQYRLHISVHFIDLKTNTEIGSIPLKIYTAHVCGLEGCLDKELEKVNEELQKEFAGGK
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