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 Ga0335078_10075630

Scaffold Ga0335078_10075630


Overview

Basic Information
Taxon OID3300032805 Open in IMG/M
Scaffold IDGa0335078_10075630 Open in IMG/M
Source Dataset NameSoil microbial communities from Loxahatchee National Wildlife Refuge, Florida, United States - Lox_Sample_3.2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4913
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Wetlands → Unclassified → Soil → Soil Microbial Communities From Loxahatchee National Wildlife Refuge, Florida, United States

Source Dataset Sampling Location
Location NameUSA: Florida
CoordinatesLat. (o)26.5065Long. (o)-80.2537Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000451Metagenome / Metatranscriptome1124Y
F003186Metagenome / Metatranscriptome502N
F010139Metagenome / Metatranscriptome308Y
F018347Metagenome / Metatranscriptome235Y
F103703Metagenome / Metatranscriptome101N

Sequences

Protein IDFamilyRBSSequence
Ga0335078_100756301F018347AGGMADQAERVILEAEETPVLESVGRANAALDSFEKKSEASHAKVIRISDQTRSSVQRLIASLEKQAETYGKSGVDRLITQRDQLLQRYSREPQAIDAITRSYEKMIAAEEKAAREALAVKAAKEAEEALRKQSEAIKGFGERVTQSIENPLQGARGAVGSFISSLGPFGVGVVAGATALIGL
Ga0335078_100756302F000451N/AMPRFQTVLKSARFVYSPYAATEMQGFAQVLADSIRARIQSGQNIYDQAAAPLKPGLPGRRGYPDYKAARGLGPVRDWTWSGHTLRCLKVLTANENRAAIGFLDEARPGRRMTASQIAAFNNRREAQWGVSPRDRQAVLAAFVARPYVMVKAA
Ga0335078_100756307F010139AGGAGMDSVFMRSPEGEVKEVEATTEKLTPLMVAGWHQVPAPAAAQKPVVVAEEETQHGEHQ
Ga0335078_100756308F003186N/AVINPKTILGEWVTALQSCPDLVTAIGGDANDIRAFMEGLATDNNLRLAILQMPPGSILVAWNGTTPRRLSGGALHFAHRFSIYLRAPEQDSTAMYADLFWLLVSAKPTGAPSWESLLHLQIDPDCYPMDMDLPSAQRNTLVVSADGATLDYFEVQATLVEQGNPGGE
Ga0335078_100756309F103703N/AFSNPPAKGDWVTAWGTQYIVTTVRQPDAYGMLNLALLQRS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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