NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0308392_1001650

Scaffold Ga0308392_1001650


Overview

Basic Information
Taxon OID3300031517 Open in IMG/M
Scaffold IDGa0308392_1001650 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20050624_m2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8878
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (91.67%)
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 → Thermal Springs → Hot (42-90C) → Unclassified → Hot Spring Phototrophic Mat → Phototrophic Mat Microbial And Viral Communities From Various Hot Springs In Yellowstone National Park, Wyoming, United States

Source Dataset Sampling Location
Location NameUSA: Wyoming
CoordinatesLat. (o)44.5341Long. (o)-110.798Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006252Metagenome / Metatranscriptome377Y
F007404Metagenome / Metatranscriptome351Y
F012577Metagenome / Metatranscriptome279Y
F014738Metagenome / Metatranscriptome260Y
F019420Metagenome / Metatranscriptome229Y

Sequences

Protein IDFamilyRBSSequence
Ga0308392_100165011F012577AGGAGMLVAITKPHQQFPVPLTVADYEFSTSDDGDERGRVTLPPTFARSGVMTQIGDELIVYCTQLSKTVWRGQIERIEEARDGGITWHALGFGALQRDARISIVYNMSDLSRWQPVGSGFMTGSGYDSRGDLWEYEIVEVGGFPNIRIRTKRAFTISNTTLFFLAYLYDQPERYASLTGSERLSVLSVATTGLATGVWVAPVTAIPQPDAYTLTLGAFTGLNNAGAVTVTTCYGWVIGVNASGVETIAGATSATFRATINISTLPGPNAELLSTALIGRGGCCNIHIPSPSHIQLAKSDANLRDIIEQSVVTFVRYHRKRFLRDRPLPVIDFRTDSTLVWRFPETTRVVDISKAPSRIFAQYRGYWTDHLTATTTIQSLESRRRLARRVAGVGEYSSKTTADARRDEAAVALDRQIAPLTVELDNSRYELMTREGVTVPNWAADVSDYAIVPGYYRNAKITARVITRERTTYTVSFNPDDFVTALR
Ga0308392_10016502F006252GGAVKSFDEQAAFGLPYERLIAQTAALLLYPQRLDMTLVRLDAYAPLDYLLLDGEQPVAALEVKRRSVRSDTYRTTILPQSVVDAARRLTIPVYAAILFTDGLAVFDVLRTPSTVRWLRTRRGVLRKHREYDVRERMVRLEEVHQPPRRSA
Ga0308392_10016503F019420AGGGGGMATYRDVTFWSGATDGDREATVIRARLLGMVIELGDDDERPDKMTAFYEVDGGGIIVYEVDCFEADGRMTARWQRVASLEEVRRNRAYAACLERLGL
Ga0308392_10016507F014738GGAGGMKLDVLLLISAFALAFVHPDAAQVATTAVLLLLVTRIERGRRARKKKSAPVVH
Ga0308392_10016508F007404GGAGGMDIIEILQLLATGHNGLTAVDYIWNAVFGAIGAATAYLADKEGVVLLPRYDAEQHSVELGALGRVLVGAGAGTLVGYSGYIPFIAGVVAPTLLPALIDKIAWFVERRRK
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.