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_10007079

Scaffold Ga0129333_10007079


Overview

Basic Information
Taxon OID3300010354 Open in IMG/M
Scaffold IDGa0129333_10007079 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)10613
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (35.71%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: UniRef50)

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?
F036214Metagenome170Y
F038601Metagenome / Metatranscriptome165Y
F082606Metagenome113N
F097251Metagenome / Metatranscriptome104N
F104787Metagenome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0129333_1000707910F082606N/AMSLVVLTAQCSGMVAPVIPLSQKTYKMSPNSRGVRVERDLWRFHPGMPCYVRGWPQVESTIVAKVEGCSWPTYIVQSFATGANYQVSQLYLSKRPIEQR*
Ga0129333_1000707912F036214N/AMDHEAWDWMTLKPDPTTAFNIEKEARRLENTPNAGPIAAQLYRAWNMQQTLLQQATNRIAALELQLMKDQADA*
Ga0129333_1000707913F097251N/AMQPMIILTDSQVVELNNRIGQIQRLLESAQVIKAGGAAQPKSITEADEKSSVISQRRKGKRKRGALNEQKVAEIKGRLAAGGESAQKIANDYGVHVTTVNLIKYGKTWKNVQASA*
Ga0129333_1000707926F104787GGAMKKAFDLAEVITLLRRGIAANHWTLQDLDIPSRGWVITMEDAKRIPGFTPPTYRNPLRDEPTPTERVEIVSPRDFAVVEAPADPVQRGSAPVLLGTDGPVAESLSDAGLQGHEGSMGDEADHGDQAHLGATWEGGSQSVGGFSDDW*
Ga0129333_1000707927F038601GAGMKLFAPESKGMYVWQVADPKSRAVSYFTTSSRQPPNDACYGHPMGKYDDQGMYLTFCPNVGADDPKSPLAARYVIHPMAAAERDRSETERLWKQI*
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