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 Ga0315291_10052237

Scaffold Ga0315291_10052237


Overview

Basic Information
Taxon OID3300031707 Open in IMG/M
Scaffold IDGa0315291_10052237 Open in IMG/M
Source Dataset NameSediment microbial communities from Yellowstone Lake, YNP, Wyoming, USA - YL17G12_20
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4602
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (75.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Sediment → Sediment → Extremophilic Microbial Mat Communities From Usa And Mexico

Source Dataset Sampling Location
Location NameUSA: Wyoming
CoordinatesLat. (o)44.5895Long. (o)-110.359Alt. (m)Depth (m)92
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000403Metagenome / Metatranscriptome1177Y
F000903Metagenome / Metatranscriptome843Y
F001897Metagenome / Metatranscriptome620Y
F003182Metagenome / Metatranscriptome502Y
F005503Metagenome / Metatranscriptome398Y

Sequences

Protein IDFamilyRBSSequence
Ga0315291_1005223710F000903GGAGGMIDRIEEVQCMLAAISHCHDRSADHSSRIVKNLSWFEYVAQMGESMLAELVVAKRLGYDYQPGITWDKSKADVGQHIEVKWSANPNSNLWIQASDREDRDIAVLVVGNAPKMHIVGWMPVTIAKKPRYKNTSQDNWTVPQVNLQPIETLIRSNYAHPSI
Ga0315291_1005223711F003182AGGAGMHILQFDCAICKKLYGKPKQRFGLKKGVELTDHEWFAQCMGCGTFGIKIVDDARIAELSQ
Ga0315291_100522377F005503GGAGMTSGEIGLFIFMLVACILWAICSYSVGYKEGHRDGYQRGKAVKRHASSQAVR
Ga0315291_100522378F001897AGGCGGMAFMDSYEGNKERTDRWIATYPQGRLEAHIIEFNSEKGYVLVQAKAWRNQTEMDPAGIDYAHGYLAAYSEKMRRWMVEDTCTSALMRVMALVLGATEKATQEVMAQVNGKSPKAMDYDHWATQFGDVPSYQTREEAEEAVETRTPEAVPSCSHGSMRWNQSKPDAPKPWAGYFCNEKIKEKQCRPAWYVLTSDGTFKPQV
Ga0315291_100522379F000403GAGMEIINPQTRMAKLLFKGKVVAEYRVEQCDKCSKLMKFDQFGYQKGYDRTENIIWFCGGCR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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