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 Ga0207428_10000013

Scaffold Ga0207428_10000013


Overview

Basic Information
Taxon OID3300027907 Open in IMG/M
Scaffold IDGa0207428_10000013 Open in IMG/M
Source Dataset NamePopulus root and rhizosphere microbial communities from Tennessee, USA - Rhizosphere MetaG P. TD hybrid SRZTD1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)346742
Total Scaffold Genes374 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)268 (71.66%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Populus Rhizosphere → Populus Root And Rhizosphere Microbial Communities From Tennessee, Usa

Source Dataset Sampling Location
Location NameUSA: Tennessee
CoordinatesLat. (o)35.8444Long. (o)-83.9599Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002327Metagenome / Metatranscriptome570Y
F022606Metagenome / Metatranscriptome213Y
F038870Metagenome / Metatranscriptome165Y
F069027Metagenome / Metatranscriptome124N
F074539Metagenome / Metatranscriptome119Y

Sequences

Protein IDFamilyRBSSequence
Ga0207428_1000001323F002327N/AVTLYFFERISDDDFIGPVIVAAPDEATAWTVLAARERAEIDALKTLGWQIAQDLASIPSRAGIVYPSHYRRAILS
Ga0207428_10000013254F038870GGAGGMLRHHPTSFAALVAAHIWLAACASSSSDTWTKPGVTEQERGRDTLDCLNNARRVTPGPGGPVEQVNQDRYRRCMTDRGYTSGPAK
Ga0207428_10000013340F074539GAGGMSRSRRLSKTMSAQAKRRQRSAKAAIRRGSTLDQSQVPRRIESRMAPPKYAERRHAKPGAGVKRSKASMAPRSR
Ga0207428_10000013371F069027AGGAGMRIRSTALVGVALVLASGCGGRVGAGSVDAARAACIEAARNKGDQPIETENVRVLGEGRYEMSVRNKGALGSSVKTCTYDKNIGAAVK
Ga0207428_1000001349F022606GAGGMIMRRTTLLLLLAALTMGCATAAPEALSPQLEEHQRLANAIRPRVLVHGGWAPEDNLGLVQAMSFWKGFGGLDIWLRGDIVGTPCGQYIVASLLALRENPKADARTVDAEAIRTLLSVGWSGPGAEAARASCPGASQGGGTR
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