NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0193750_1000015

Scaffold Ga0193750_1000015


Overview

Basic Information
Taxon OID3300021413 Open in IMG/M
Scaffold IDGa0193750_1000015 Open in IMG/M
Source Dataset NameSoil microbial communities from a riparian zone of the East river system, Colorado, United States ? L1c1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)124391
Total Scaffold Genes143 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)59 (41.26%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.8924Long. (o)-106.9111Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000116Metagenome2132Y
F001737Metagenome / Metatranscriptome644Y
F003719Metagenome / Metatranscriptome472Y
F013578Metagenome270Y
F041921Metagenome / Metatranscriptome159N

Sequences

Protein IDFamilyRBSSequence
Ga0193750_1000015113F003719AGGMKAIVQTANVEGETILLKELIPFWFAVSSPLVGILLGLLGAWLITWLSA
Ga0193750_100001516F001737AGGAGVKALIFVFVLCFFDGLILRADTASPGKAAVQSNGDIPKEYEIGEKSLSPDGRFAILYPIRGDDSAELPPNLLVCLKPYSVLTRIGTEGGRWQGARDQPLAKWNGNSIVAIWIAARWGMKDLAIYEIEADEIKRIQPVWRRVWLLFDHDFRERFLSKYPDEKGSGVIFVSKGGPDSKPELEFNGHKMLLNLFADNKPDLSVTPHWTASLHAVWNLDTAELEHVDFRPGPIELRPNY
Ga0193750_10000156F041921GAGMIDVRLTSEAKYRIPFTFIEALNEGTLFDRPAHAFLEAARERRLFHVLNRTTDNIIGTGIIQSASGDERSPKEAEVGALMFHPAARGFGLCSLLVKIMMVYAIKESGRDSPDEEYLAHVVDGNGLPQLTARGRLQANRALSMCTGVISMR
Ga0193750_100001582F000116N/AMPKRPETTTSKATRQIRPPPLSQHLREFASRPGAWVVLARNMIPVVGIYAFGWSAAVAVFNYWFDGLSALAAIVAAIIPRAMRESQSKREHATWVGNVVRGAFVWLLLVVVVGLPYWIVLIPLHDLLLGDELRRQLAHSPALCFTFGSIAASHFWKAFRMGYDTMPDQELKQRARWDLYLLILRAVAMFFMAAHGLYFILVPLMALLLSYLEIWPDRAIGAVFGDPSRLWEYDPGDPTSNRRLP
Ga0193750_100001587F013578N/AMKIEFRLITAAVIAVILIAPIVARAGSRSHTLSEDAALDLLQRTLKRDRVYEKRISLGCIAYGTEETTNAYFEFVLREIHNAKCGGDLETSPAIDRYRVYRRSGKIQQWEAFDDKWQPYERAAN
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.