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 Ga0326512_10000052

Scaffold Ga0326512_10000052


Overview

Basic Information
Taxon OID3300032038 Open in IMG/M
Scaffold IDGa0326512_10000052 Open in IMG/M
Source Dataset NameBovine rumen microbial communities from UC Davis, California, United States - 1_2617_0518
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)99276
Total Scaffold Genes128 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)101 (78.91%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Mammals → Digestive System → Foregut → Rumen → Rumen → Rumen Microbial Communities From Sheep, Dairy Cows And Beef Cattle From Various Locations

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.5357Long. (o)-121.7593Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F041054Metagenome / Metatranscriptome160Y
F042737Metagenome / Metatranscriptome157Y
F052997Metagenome / Metatranscriptome141Y
F104182Metagenome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0326512_10000052124F041054AGGGGGMNVRNLIDIGRNGQKIVKRLMANQNLVKLLYYTDKDPLSHEDLTEEQLQNEVFEKLIKIVPRVGPKETAHSIISVRFTRGRQNIVNNEFKDVTISVEVFVPLTQWIIKDINLRPFAIMSEIQKSLDGKTIDGLGKMTGGDFDLNFLTEEISDYEQIFKLTSYD
Ga0326512_10000052125F052997GGAGGMGYYHDVYLKRLNRYGVDFQSRMQRQREENFALQLKKSVFYTTFRIDGEEVKHEGELTPRSQNETKTMQYLLTDVHFDMDSGTLIWVPDKNGIEQPWLIYFLESRKASGYNRYIVIEMTHYLTWTDREGNEQHCWAYLYGQEDNMLKDELRSRSRSRTLYTEPLKLSFFITTMNPHIRKDDYLEVEFGGLTEAYVVTGYDILSTPGVEFVSVDPQYIRDLTPPPQQTPEDDDEDFFWINKGGEGE
Ga0326512_1000005280F104182AGGAGMYYFVTELQTRPDGVVNSTITARSNRAMGLALYYQRAAAAVASTQFLKVALTLQDQYGTPILNECFETLYEEGNEE
Ga0326512_1000005298F042737AGGAGMKLTEKSTQVLDYVKANGGKVSIPELAEALDRGPRSVGANVTDLTKKGLAVREKVEVEGADKPVTYVVLTDEGANFVPSDDEE
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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