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 Ga0209380_10000669

Scaffold Ga0209380_10000669


Overview

Basic Information
Taxon OID3300027889 Open in IMG/M
Scaffold IDGa0209380_10000669 Open in IMG/M
Source Dataset NameWarmed and freeze-thawed soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire - Hubbard Brook CCASE Soil Metagenome WFT 6 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)24222
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (56.52%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(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?
F001367Metagenome / Metatranscriptome713Y
F010184Metagenome / Metatranscriptome307Y
F010267Metagenome / Metatranscriptome306Y
F032418Metagenome180Y

Sequences

Protein IDFamilyRBSSequence
Ga0209380_100006691F032418GGAGGMLATFAFDVCHDVYRAAREAIDAKIPTLNAEASGKYQWRPDRMPRLAEYVCDFARAGERALGGEVCARKGNGRQAKACPTQFRASPSHKPLRASRMAMFRVYYLGGADYQAARRHLGISELTWADWAEEIRGLVGRELTRAGVFPPSKYFRETTAKIA
Ga0209380_1000066910F010184N/AMRQTIITWLGRRLRGRYVLLLEEELARLRAENRALVNSLLGTAGFPPISPEDDARRGAVGLTPVRRRTWTQIAREREFAAGKNASEK
Ga0209380_1000066923F001367GAGGMPVVGTTAYNTAGQITALVRSLLNDAAGNLFTDAVLLPYVNSAYRKAQRALANVQSGSFLSDDVLLVVPAVTVVDASAQVSITDATAPPNQLPPDLLVPVKLWERANLSCDDFIEMTDLTGRDGMPSEPQALTLRFWEWRADGLYFLGAT
Ga0209380_100006697F010267GGAGMTTTSATTSWQSIGLYVQIAGAGAFVAGIVLSLHHYAIGVCFIAGAAAFYIGKKLRSS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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