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 Ga0193699_10001917

Scaffold Ga0193699_10001917


Overview

Basic Information
Taxon OID3300021363 Open in IMG/M
Scaffold IDGa0193699_10001917 Open in IMG/M
Source Dataset NameSoil microbial communities from a riparian zone of the East river system, Colorado, United States ? L3c2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8116
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9134Long. (o)-106.8956Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F048619Metagenome148Y
F060375Metagenome / Metatranscriptome133N
F084795Metagenome112N

Sequences

Protein IDFamilyRBSSequence
Ga0193699_1000191710F048619GGAMFTKMKFVLSVAVVLGTACAAQTAAQHPTDRQTESIVRHQVPASAYESDSVAPAPAQSARTTATYFDPNPATFKAFTYCASVQLGPSTSKRVLQGEFRFPIFSATPNVSVQIISSTAAAPMQVYALRIEEISGISGAVGTQIVVEAETIFDVPANGIYYANLVVTGVPVIPPTNGNSAKLPNGPPPFD
Ga0193699_1000191711F060375GGAMHTLVLMVTLATVAVPVLTEAAGSASQAWSLPDAKSRTIAATRHAVLFGLLGMVVALTTLVISQGADAANYNRWNLPPGYGYNTQANPNYGFGPVQRIQPTDVVSGNKIIGRDPDPFIRGQILREYNSGRN
Ga0193699_1000191714F048619GGAMFTNTKSVLYVVIMLGTTSVALAAPRYPTDRQAGAITRTQVPTSTYGSDSLPQAPGQITRMSAEHFNPNPATFNAFTYCASVPLGPSISKRALQGEFRFPAFSATLNVSVQIISSTAAAPMQVYALRIEESFGTSGAAETQIVVEAETIFDVPANGIYYANLVVTGVPVIPP
Ga0193699_100019173F084795GGAGMPAFDAADTRVSKRAHCASKGPIMISQDDARQGPSGHRMLYVLGFGLAGAILSNMLVFIYFAMFYASG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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