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 Ga0307507_10003400

Scaffold Ga0307507_10003400


Overview

Basic Information
Taxon OID3300033179 Open in IMG/M
Scaffold IDGa0307507_10003400 Open in IMG/M
Source Dataset NamePopulus trichocarpa ectomycorrhiza microbial communities from riparian zone in the Pacific Northwest, United States - 7_EM
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)31002
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (44.44%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Fungi → Dikarya → Ascomycota → saccharomyceta → Pezizomycotina(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Roots → Unclassified → Unclassified → Ectomycorrhiza → Soil And Ectomycorrhiza Microbial Communities From Populus Trichocarpa Stands In Riparian Zones In The Pacific Northwest, United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)44.5508Long. (o)-123.25Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000630Metagenome971Y
F038017Metagenome166Y
F056201Metagenome137Y
F061416Metagenome131Y
F084969Metagenome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0307507_100034001F000630GGAGMGVKGIEVDLGKGNLSHSIGNTIGGKYLRAPRGPNKGGKYNGNTLKDRNNRTKRLALLGGYPSR
Ga0307507_100034005F056201N/ALASSRSIRLRRLNTLTRKIPYGKMPRQIIVVGVPREHLSIAYRGKEIN
Ga0307507_100034006F038017GAGVVRSTRYRFKLKDKDKLRVNLKHAAHYILLWIAYMDNIYNMHRAPKDKNWKYLVRIY
Ga0307507_100034007F061416AGGAMHFKVVQEGVKLAISLDQVAYAELFLTGRALKWFKPYLTEI
Ga0307507_100034009F084969N/AMPPKAPVITLFTVAITLGLGGDTSIRDINLQLVIVG
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Institute for Fundamental Biomedical Research
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