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 Ga0070707_100000048

Scaffold Ga0070707_100000048


Overview

Basic Information
Taxon OID3300005468 Open in IMG/M
Scaffold IDGa0070707_100000048 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)103194
Total Scaffold Genes111 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)68 (61.26%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (50.00%)
Associated Families8

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000186Metagenome1702Y
F000611Metagenome / Metatranscriptome987Y
F008485Metagenome332Y
F008873Metagenome / Metatranscriptome326Y
F009674Metagenome / Metatranscriptome314Y
F027476Metagenome / Metatranscriptome194N
F033736Metagenome176N
F036188Metagenome / Metatranscriptome170Y

Sequences

Protein IDFamilyRBSSequence
Ga0070707_100000048101F033736GAGGMRRWFTNQIVMGALVVLAVIVAGFAGYALGHSGGYAAGYSAGYTDGNPDYAKIQASVKSSEVNYFGYVQQVLSKLAVESQNRSVKSPSAGFDKLYSVFKAANDSSTMFGQNMTFCNPTAKGYFQATATNTGNANFTNLYQTICLYYTKLANDYTGPLTSFTLQNLSNDFTLLSIDLLKLDSVIQSFPQ*
Ga0070707_10000004856F008485GAGGLGKLQTPKENAEATLLALKEFRRYLEGLEKDLSRTSKKYSNREVAQGVGFVAAGIHEALNYLEIVKKVIVKTERVVAKRNASTENATLPSGPS*
Ga0070707_10000004865F008873AGTAGMTERKKEDEKKPVKLAPFVEPQLFVAVEEANRRLKEIMKVTDPTTGLYRSIQRITEVSEMMLRRQDQLRKLYEPSESVRKYLERIRQLVEQLTRTKMDELPSMSRTLIPQLEGEVSGYVETFERALAEKEKEIEALKAELEALKSKTKNQHPV*
Ga0070707_10000004869F000611N/AMNFPTYVFATVNPGRATKVVDELKRNSQIDIIAPVSGRYDLVLRLKPNTPHNIYQTVKEIREISDVRTTDTHTGFDGMQPTRKLESQMALGVSVLTCEHNTSESIIKQLSNIPGFIEASTVPGQFDIVALWQAKTSEEIVKNSVERVTTLPGIFKSETLLAYAPFFKA*
Ga0070707_10000004874F000186N/AMSGQRSDWRERLHANPSRMEQELAFNLENDRIHYLTQVEIPITTVDFYFPIEPRPLIVFVDGRVHLKTSQLTKDEELRGLLRKRGYRILELYYDGYSDKRRDELYEEIMYTLGKE*
Ga0070707_10000004879F036188GGTGGLLQDRQRSGGKISPGLLREARLRQRDGEWLSSAKSVVLRRYRGKYVAIRNKRVIAASTTMKGLYAKIDKLNPGMVLITKVEKPTLLVYVQLH*
Ga0070707_10000004887F009674N/ALNELVRDLVRQMLRLQWDDATIVFHLKSAKIRNARKILDSVLDEAKQEAIARLNV*
Ga0070707_10000004897F027476N/AMVGWGFAFGRGIVVLLWSIVWAIVAGIIGALIIGGSLTSLISNPTAVASNPTGVVTGFLAASFLGIFLIIFIAVIGLYATIVKVAVDGALSQLEKSGQYNRSSYATASMGSQPTMVAPAMRKFCANCGNALPGGTAKCSNCGASL*
 ⦗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.