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 Ga0222712_10001207

Scaffold Ga0222712_10001207


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10001207 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)32849
Total Scaffold Genes53 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)30 (56.60%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000332Metagenome / Metatranscriptome1283Y
F014143Metagenome / Metatranscriptome265Y
F024113Metagenome / Metatranscriptome207Y
F043944Metagenome155Y
F054875Metagenome139Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_1000120713F054875AGGAMTKLSSAFGEKYQAKRKDLLTRSFILNGHTFKVRIPLMIESDAIYKKVSNPDEETVDKIYQEITAPLRQFEGNQNEDFEFTDTDILVEKRSMREAAKNKAITEARITEFFKLLVPEMEGVTLEDLTYADIEEEFPIAVQMLIVEKIGEVISPTYREARGN
Ga0222712_1000120714F043944N/AMIFNGHTLETIEELDDVTLANIQTMYADGMIGNYGVLTQIATLTNGVFNYMRTANSPAYKLANILGSAYDYIYPPLSADKQKAAVNDSLLAFMQQAQGFDKTLFGVKDG
Ga0222712_1000120720F024113GGAMAIFNKNTLAQVSGFDNPILAGELVWNQKTYWNLTFTNSANGLPVNLTGATIDAQIVRRELSNIIDTRNGLTFDIADYNPAPAAIPLTVTNIVALAGSCTLVIDASAWSLMSTDPELEINAADPVGYSGRVKVSFPSSGTTPADDSIIFLLFLVRSDGVIVL
Ga0222712_1000120729F000332GGAMKWLILLFVLVIAGAVAKDGCHVREFYGIGYTIHNPSERHQQMIQWLKNNAPYCKASDYVIIWNNIAEWAGTADSSETRALIIHGYKDALAREKK
Ga0222712_1000120737F014143GGAGMNIRFLKRVRAMFATYDAPPEVIRSYQRQWVRSVRRLGNNWLVAKPIERIEQ
 ⦗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.