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 Ga0129333_10016113

Scaffold Ga0129333_10016113


Overview

Basic Information
Taxon OID3300010354 Open in IMG/M
Scaffold IDGa0129333_10016113 Open in IMG/M
Source Dataset NameFreshwater to marine salinity gradient microbial communities from Chesapeake Bay, USA - CPBay_Sum_0.6_0.8_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7106
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (65.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Freshwater To Marine Saline Gradient → 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: Chesapeake Bay
CoordinatesLat. (o)39.2637Long. (o)-76.0017Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000473Metagenome / Metatranscriptome1097Y
F000671Metagenome / Metatranscriptome945Y
F002060Metagenome / Metatranscriptome597Y
F040629Metagenome / Metatranscriptome161Y

Sequences

Protein IDFamilyRBSSequence
Ga0129333_1001611310F002060N/AMDINYVTVVLSLLAAILSGMGTAIIAGLRDSKKEKIRREEREKDHLKLEIKDLKIDLYKIEKELTEWKDKYYEAIQELIGLKAELENALTQLNHIEMHENIDSELYK*
Ga0129333_1001611311F000671GGAGMERILCYSCNKTKNKLNLKRSSLLPINLFLCQTCIDEKFEPRWVVLIAGRQNGHDSVKDFVQKKKYIGSEITAAELLV*
Ga0129333_1001611313F000473N/AMPSNLYDNKHFKHGVNLWTGEPNKPVFYNEEMRKRLREMNKPLLLEMDVVKYPEFLALRLYEDNFIQFTGSKKEQVIDYVMRVKKMIESYGVRCELEGVPSGRSIN*
Ga0129333_1001611317F040629N/AMNKYSVKLEIITEIEAFDEDDARDYISDIFGIDEEIKAVNLIQIKRVGKK*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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