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 Ga0315268_10000011

Scaffold Ga0315268_10000011


Overview

Basic Information
Taxon OID3300032173 Open in IMG/M
Scaffold IDGa0315268_10000011 Open in IMG/M
Source Dataset NameSediment microbial communities from Yellowstone Lake, YNP, Wyoming, USA - C1_top
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)204448
Total Scaffold Genes196 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)164 (83.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Sediment → Sediment → Extremophilic Microbial Mat Communities From Usa And Mexico

Source Dataset Sampling Location
Location NameUSA: Wyoming
CoordinatesLat. (o)44.5106Long. (o)-110.3566Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000512Metagenome / Metatranscriptome1064Y
F000696Metagenome / Metatranscriptome931Y
F000885Metagenome / Metatranscriptome849Y

Sequences

Protein IDFamilyRBSSequence
Ga0315268_1000001145F000885AGGAGMTNPKVVFAGEIAQLAGVVAVVAGLVMSLHHWPVAAALIGGGVAFVVGKKLRGVL
Ga0315268_1000001153F000512AGGAMIRIGNESHEAPETVARVLRLAGGVNRFGEANYRAVWGWNRLAWIGGKFEERDAATGALLREVVELRREPKYPQVNRWHIERWLPPEAYGSPRAWYAQTMERANGESVAALGPYPVRGDYEHCFTLEGPRGEFIQLTATVAERIARAMEWARCQPRAVRRESIGERERREERAYEKWAYDALDGEAAAFNGEEFVSVR
Ga0315268_1000001155F000696GAGGMPVVGSSAYNTAGQITSLVRSLLNDAQGNLFTDAVLLPYANAAYRGVQRALANAGAGGFMTDNALLVVAAVSAVDASLQVAITDATAPPNQLPTDLLAPLKLWERPSGSAQEFLEMADLTRHGGLPSEEQGAALSVWEWRADGLYFIGATQDTQIRLRYIKSYPDLTDAASPVLVRHAQEAIAYGTAALAGWARGSPLAEKWDDAARDAVEDLVSAAVRREQQSARRRRPFSSRSGYGTI
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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