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_10000006

Scaffold Ga0209274_10000006


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000006 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)275297
Total Scaffold Genes247 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)160 (64.78%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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?
F000378Metagenome / Metatranscriptome1211Y
F002108Metagenome / Metatranscriptome592Y
F002320Metagenome / Metatranscriptome571Y
F014644Metagenome / Metatranscriptome261Y
F087514Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_10000006117F002108N/AMSETPESVAVGPSSATSARVQDRPFRVKLRGSVLTLMRLPNRREVRGKLHQLSTTGGLMHLEKPLDEKLKVELIFHLGETTIREKVEMMFPMWATQGWLQPFRFVDLTEASKSALEASLQQFIQGLQAPTT
Ga0209274_10000006143F000378GGAGGMEDRAPVVSSSVSQQSVSQSTPAGKQREGRGAWVLTAYGISGLALFGILAYFFSDYIAH
Ga0209274_10000006223F014644N/AMDKKEINSTKMTVNFLVWIGGVFMLLLFAVLAHFVWRVI
Ga0209274_1000000627F087514GGAGLRSEPVCRIRATTMEGGTENRALSARPAGRARGWEVLWFLVHVAVVYAIANFCTTWLAGWTRGTLLPLLHQPTSLSSFEFLFSHIFAFSFVPAFVVGLINARFKHRVAQFVWLVPAVVLTYKFLTFPAPSVFHGQFSAAFHQYFGGGFLIPDSRDWHDFWTIVRSNPDMARGMAQLNFTAPLYAGIGYSVAAWIGRRTNVNQRASEKVKTWEDSRFGPRA
Ga0209274_1000000634F002320GAGMPRSVKIAPEIDAKLYQELVSVAKENGQSQRFVLERALEHYLHNVVPSQRMVRPEVMAAYRRSSEKYRELYKKLAK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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