NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0208916_10005588

Scaffold Ga0208916_10005588


Overview

Basic Information
Taxon OID3300025896 Open in IMG/M
Scaffold IDGa0208916_10005588 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Spr_0.19_<0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4968
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (69.23%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae → unclassified Chitinophagaceae → Chitinophagaceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003304Metagenome494N
F007467Metagenome / Metatranscriptome350Y
F020665Metagenome / Metatranscriptome222Y
F021063Metagenome / Metatranscriptome220N
F022371Metagenome / Metatranscriptome214Y
F041081Metagenome160N

Sequences

Protein IDFamilyRBSSequence
Ga0208916_1000558810F021063GGAGVRSTQLCRGDYDDRVQQLAGEVALQAIRDLRMLRKRGMVKGMKIVKGHQGVPLNDALEYKNSHEVQKLLRDFKTGVVSWWCRASGVAIDNRTLLRKLKENDYVLPT
Ga0208916_1000558811F022371AGGAMFCLLDIAGIVWVISAFILYTSLTLSALYCAGYLIFKLIEVIRKELDK
Ga0208916_1000558812F020665AGGAMKKRKTGRSIKLVKVEDYDAVKILVDVDDDLFNAMADAGRQHIVKDKVACFEYALNKALLELCEEIK
Ga0208916_100055883F007467N/AVNEKEAWAKFEEGLKDMESFDEAVAWVKKNKKIVEKLTMMAMIRRFNEDISHANKTWRN
Ga0208916_100055888F041081GAGGMIMEDVSIDFEFNGEKYTAYGNAEIDTITEDIGPVGYREHYFAEVVNNVIMSKIEISTATEDIKNPSKELLEKADDLLSIQATEDFDAGK
Ga0208916_100055889F003304N/AMKQALVTQSFGDEWKNIIDLTRPRMEAYCKRHNCDFILIDKPLTHPAQYSKSAIGNIMATKGYDQVTFVDADVLIAADCPKLSDDAGVFCAFDEGAYLDRKPDMVKLAGAFGGIIEPKFYVNTGVFVVHTKAVGILSMPPIGLHPNHFAEQTWLNVMAHLWNIPLTELDPSFNCMTSVESHFGLDRYKDAMIIHYAGQSNDLTKLANQIKADEAKLVELGR
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