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 Ga0308412_1004017

Scaffold Ga0308412_1004017


Overview

Basic Information
Taxon OID3300031513 Open in IMG/M
Scaffold IDGa0308412_1004017 Open in IMG/M
Source Dataset NameHot spring phototrophic mat microbial communities from Octopus Spring, Yellowstone National Park, Wyoming, United States - 20070728_OST1-BottomLayer
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7722
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (81.25%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (100.00%)
Associated Families7

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?
F000642Metagenome / Metatranscriptome965Y
F000855Metagenome / Metatranscriptome859Y
F001381Metagenome / Metatranscriptome709Y
F002229Metagenome / Metatranscriptome580Y
F002795Metagenome / Metatranscriptome529Y
F004024Metagenome / Metatranscriptome456N
F009403Metagenome / Metatranscriptome318Y

Sequences

Protein IDFamilyRBSSequence
Ga0308412_10040171F004024AGGAMPSERDYLRQPSSLADDDMMFLDARATLAAALSRAVVGYSDSRVRALAWLAIATPRLYDRIAPIIESAAIRQSPGASRALRDALRALSLEEYVRRRDERRSDR
Ga0308412_100401711F009403AGGVFRITRRGRGRGRAPALSVIRAGSRLEVREGRYGQGALYAYCDVDDSLAAHTLLLTYADMRARDIYIHTDIPVISERRFFRICSGDVNPDSLPDSDSDSDA
Ga0308412_100401713F000855GAGGMDWLEDFFSKIVGWLDELSASIHNGVISWVNSLIDIWNGWMDSLLHPAQVMPSVPALRFVVDWLGGIVDYTRLMYMLVDYVAYAQIVQQALAAQLAIVFVGLGFRAWLVIRRVVLVS
Ga0308412_100401714F001381GAGMQYVIAVLYVLVWLALAAGAALVLPIWALPVALVQLAVAYVMLRAFWLTVARDD
Ga0308412_100401715F000642AGGVQEISIALALCAVGAAVWYMRRREASGRVRGWLLLYDDLGGWRALPAVYGDSGIVADGVTYPASLPALRVGRELVWVARCESAALIDHQALERAREAAALASLWRGGGQWLDFLRIVGVVLPAAFAYFTWSQVAALQSLVAQILALVGER
Ga0308412_10040173F002229GGAGGMVTLLTLDGVEEVDYTPSDAEIRASLDDAGLYAMMLGVVTWIRLASGAGWWTVLFGRRIVVTLAPVGWCWVMDGLGARGYWSPALSAVVADVCAMYGAVED
Ga0308412_10040175F002795GGAGGMATNGLVLRGMIAAYREFTSRKDGRVYRVVTVYGDLVAGEDVLCQIDGYDVFVDSPDYSRGEMVAFPARLQFARDGSGKPIVRLYVDEGVR
 ⦗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.