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_10000022

Scaffold Ga0209274_10000022


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000022 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)175868
Total Scaffold Genes161 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)129 (80.12%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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?
F003629Metagenome / Metatranscriptome476Y
F003701Metagenome / Metatranscriptome473Y
F005244Metagenome / Metatranscriptome407Y
F015671Metagenome / Metatranscriptome253Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_1000002219F015671GGAGGMTNKTLLITMLALLFAFPALAHDKKKHADRAMIEKMEAVPCGAKEHGLTGLGSVWASVGITSVNSDEKLCPQYLLRSDDMEYHVRPLDHKHPVILPIGKEAEFKVAKDKFDMRIPDGDRKMRHYQVVAMKPIDHSQTAAPESSKYDVPSKDYGDKPLADKNYQDKNMATPAVQPNEHPQ
Ga0209274_1000002253F003701GAGMKKAGLLLCIFLAGCAAKKTPVAATPPPIRSQLPPSTAELIQHCVVVKQENDNTVTCSCVPMKTVIDSKTGHTTLVCKAVKEDK
Ga0209274_1000002262F003629N/AMKPDPLLNRRVIFKLRGMDPLDSTILKQDATGYWVRGGTLAPQLDQSNCSLPENDVRFLEFTRIEWLRATRQRR
Ga0209274_1000002283F005244AGGMGKKLIFDEKYRVVGVERDRLLLRGVLSGDVVTILNSEPEIPLTPEEYPLGKLIALTDPSSALVN
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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