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 Ga0187801_10002995

Scaffold Ga0187801_10002995


Overview

Basic Information
Taxon OID3300017933 Open in IMG/M
Scaffold IDGa0187801_10002995 Open in IMG/M
Source Dataset NameWetland sediment microbial communities from Neuse River Estuary, North Carolina, USA - Control_1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5205
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Wetlands → Sediment → Freshwater Sediment → Coastal Wetland Sediment Microbial Communities From The Mid-Atlantic And Southeast Atlantic Coast Of Usa, Responding To Salinity Intrusion.

Source Dataset Sampling Location
Location NameUSA: North Carolina
CoordinatesLat. (o)35.9061Long. (o)-76.1569Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002231Metagenome / Metatranscriptome580Y
F003233Metagenome / Metatranscriptome499Y

Sequences

Protein IDFamilyRBSSequence
Ga0187801_100029954F003233AGGAGMKSRQILIAILILAPMWQAAAQPKKDQVEAPALESVLVLTSGAQSNTVLSDVIAVKPEMPLGPQDVLKSYEIAMSLLADKTSTDFSVIVQAQQANQITREQAEYLLQQTYQTAMMQYQVLSALHDVLKHDIDEANQEAPHTLKATNSDTVLVVPLPGASPGSR
Ga0187801_100029958F002231N/AAQLLDDTQRMAERKARETGRPKVMVEANIHIAPDRFAMNDINEVIWEEDGKDTPGVWNGHWQVENARKIKFLSGEKQFWQPLKYENDRYHCGPRERCIPSPAEQELSIAEAYTFGAATSRNIEGRFLSALIRGEPEAKEAWTAIAQYNHFLVEHQALYHDTKPAARIALLSAEPTNPLADEFLKQSVFFETKVLAHLDKGVPLDQFKVLVMPSDLPKLSAEQKALLAKFTANGGVIIKAGRADPGIAARTRATAEGPSLSLEPRGYVLGQLTGKPDGRTLILHLLNYHQQAPAENVKVRLDLSGLARDLSGWEVRVLSPDASQPQISGLSLHGSVCEFTLGRIEHYTVVTLSARPEGRSFAK
 ⦗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.