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 JGIcombinedJ13537_10016794

Scaffold JGIcombinedJ13537_10016794


Overview

Basic Information
Taxon OID3300001097 Open in IMG/M
Scaffold IDJGIcombinedJ13537_10016794 Open in IMG/M
Source Dataset NameSaline microbial communities from Lake Vida, Antarctica (Lake Vida Brine Hole Two - Combined Assembly 2 samples, Mar 2013 Assem)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2296
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Non-Marine Saline And Alkaline → Hypersaline → Unclassified → Hypersaline → Hypersaline Microbial Communities From Lake Vida, Antarctica

Source Dataset Sampling Location
Location NameLake Vida, Antarctica
CoordinatesLat. (o)-77.38861Long. (o)161.931111Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003224Metagenome / Metatranscriptome499N
F037978Metagenome167N
F038569Metagenome165N

Sequences

Protein IDFamilyRBSSequence
JGIcombinedJ13537_100167941F003224GGTGGVARSTTTLGTSRKRGTMTESLFDSIGYMQLDRPGHYCTGQLCTYCERYDREDAQVLADIDKNWRVQATIFRKSLAIGGLFTADLLIDAIGLPDGHPNQIGALFRSWSSMGVITSMGNYVTSTRESNN
JGIcombinedJ13537_100167942F037978N/AVLNASXYLFDLDHLDAPSQVFIVIRDGKPTLAYRRFYGDRWSPEIMPNTPE*
JGIcombinedJ13537_100167947F038569N/AQSIARWPMKPNGPGLLSEPNSKGKAVDFTDVVGLVATSLAALAIMGTGLVWLIRNVVRDEIKKATQTIQPGFRNGGESLADVAAKVDLISAKLGL*
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