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 Ga0070761_10000030

Scaffold Ga0070761_10000030


Overview

Basic Information
Taxon OID3300005591 Open in IMG/M
Scaffold IDGa0070761_10000030 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
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)102016
Total Scaffold Genes94 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)60 (63.83%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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?
F001718Metagenome / Metatranscriptome647Y
F008368Metagenome / Metatranscriptome334Y
F052072Metagenome / Metatranscriptome143Y
F062016Metagenome / Metatranscriptome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0070761_100000301F062016GGAGMKSFYRLATLTLMMMVLAASAFAQKQVPETALVNLTEGQGTIASSGNPSWDGLSELVLIPGASLMGASSSTTALYLGFTGGSEADIGNMVLYEVPRNGSTVLKVEKVTLGATQSPSIVLTDTSTCPVQPVSVTNPCIVRLDTVKLALSPLDDFYFAIYFTLDTNNEKISGAGQTGSQGALSGFSIYGDQTRVGVKGALPTNEDTDQPPFFLAYIAND*
Ga0070761_100000302F052072GGAGMKTIFKFATLTLTLTIMMFAVSVSSFAAAAKAENLVRGIIGPVASNTSWSGYSTMALIPGAGLIPITSTKAVFYLGFTAGSEADINNMVLYTTARGSSTITASTPVTLGGISNPSIDLASATVCPVVEISDFNPCIVRLDPTTITLSALNDYYLVVYFTADDSNDTALGLTQPSFGQSSLRGSYVTGDESRLSVGGSIPNTPFSNQPYMLMYVMND*
Ga0070761_1000003071F001718N/AMTTAGGILPEGKSGGDVFYYLLAAMSGALAGWLNIKVGDLLLTAMVVLAANMLLGFLSPRQPWRWVVMVGVFVPMVEWLAYYFLSEKPSRAQIYESFLAFLPGFAGAYGASVGRGVIDNLFGKK*
Ga0070761_1000003080F008368N/AMNKENSDRIHELCSLIELERDRQKFLILVKELNQILKAEDARLQGADPGDPETE*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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