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 Ga0222713_10121799

Scaffold Ga0222713_10121799


Overview

Basic Information
Taxon OID3300021962 Open in IMG/M
Scaffold IDGa0222713_10121799 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_649D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1838
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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)38.06Long. (o)-121.8Alt. (m)Depth (m)12
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003304Metagenome494N
F020665Metagenome / Metatranscriptome222Y
F021063Metagenome / Metatranscriptome220N
F022371Metagenome / Metatranscriptome214Y
F041081Metagenome160N

Sequences

Protein IDFamilyRBSSequence
Ga0222713_101217991F041081N/AEKYTAYGNAEIDTITEDIGPVGYREHYFAEVVNNVIMSKIEISTATEDIKNPSKELLEKADDLLSIQATEDFDAGK
Ga0222713_101217993F003304GGAMKQALVTQSFGEDWQKIIDLTRPRMEAYCKRHSVDFILIDKPLTHPAQYSKSAIGNIMATKHYDQVTFVDADVLIANDCPKLSDDAGVFCAFDEGAYLDRKPDMVKLAGAFGGVIEPKFYVNTGVFVVHTKAVGILSMPPIGLHPNHFAEQTWLNVMAHLWNIPLTELDPSFNCMTSVESHFGLDRYKDAMIIHYAGQSNDLVKLANQIKEDEAKLVELGR
Ga0222713_101217994F021063GGAGVRSTQLCRGDYDDRVQQLAGEVALQAIRDLRMLRKRGMVKGMKIIKDHQGVPLNDALEYKNSHEVQKLLRDFKTGVVSWWCRASGVQIDNRTLLRKLKENDYVLPT
Ga0222713_101217995F022371AGGAMFCLLDMAGVVWVVCWFVLYSWITLSAIFCALYIIFKLVDYIKKELDL
Ga0222713_101217996F020665AGGAMRKRKAGKHIKLLKVEEYDAVKITVNVDDDLYEAMAEAGRQHIVKDKKACFEYALNQALLELSKGIK
 ⦗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.