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 Ga0157376_10000020

Scaffold Ga0157376_10000020


Overview

Basic Information
Taxon OID3300014969 Open in IMG/M
Scaffold IDGa0157376_10000020 Open in IMG/M
Source Dataset NameMiscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - M4-5 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)246318
Total Scaffold Genes203 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)115 (56.65%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002064Metagenome597Y
F007491Metagenome / Metatranscriptome350Y
F008640Metagenome330Y
F016413Metagenome / Metatranscriptome247Y
F101402Metagenome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0157376_10000020105F016413GGAMKLVSMKGSVAGQDPATETIFLSQRHASFLSKMSGEINPEMPKAFGWPHAIRTILDRIEESNIDLTVASSEYEIAQLAAGELRAKGRRRTATSRA*
Ga0157376_10000020107F007491N/AMTIRFSSAASALLICGALLTHCTGGQEGKAAEEQAPKKNGITATTTSTTDTAAQPPQVDAKAALKSISPAIPIYAGARYRDDLTRRDSVMIRNQYGPNAEVYTLATDDSFPQVYHYYTTYLAQFRAFPAQSPYPAPQTWRTLEVQLNQAMQDPFIPGDMLKPGDKQVTLQVAETEAEPKTVIRYVITQKPIASAEVQAPKGSGSPNAFDRE*
Ga0157376_10000020169F101402GAGGMIKRLAIAVLLFSAFGVFAQESPYTPTRPLPLGDTLLTLPTSHIPSEGTWEVKFTHRFNQSLDQGSFSDRVHSLWGLDSNADVGIGFSYAMTRDLQATFLRNNASDDIESSLKYVIVQEAPAIPFSLAVRGGMDWRTERDITDRTSFFAQAIVSKQFGGRAEVFAMPTYVTNAGQQVSGTTSSALFKHAFNVPVGAALMVRPGLSVVVELTAKNRDLPSSMNGGDFAWALGLKRAIGGHYFEILLTNSNATHADQYVTSTYQGTPLNKSDIHLGFNIERRFGRRAPKD*
Ga0157376_10000020195F002064GGAMTAIETTPATLTNQQLNTVFQYTVEAYKTFEKLAENLPNPLTANMFKQFAVDERATRDLIEMKIAATGTSRSKVTLANDLAFQDILEGDLSYRETTEFLIARERTMERKLAELGRGVSAIERAFLVYLGASKRAHIVELERELELTKLDRDWFKREDAETRLVRGAATE*
Ga0157376_1000002054F008640AGGAGMDEATCNDIRHIFLSPRPSFALMTAALLIGVSLKELKKEIEDGAIVAVSTRMGQRISKEEMMVVAMRLWDLAIIEEALGDEAASVLPEAIRMVELHARIPRYQREMLRWFAKRDETTVDAVLSRELEDVACAHSEELASAVPGFASALAWPG*
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