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 Ga0065706_1000696

Scaffold Ga0065706_1000696


Overview

Basic Information
Taxon OID3300005269 Open in IMG/M
Scaffold IDGa0065706_1000696 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere bacterial communities from Rose Lake, Michigan, USA - RL3 Bulk Soil
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)5444
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (62.50%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrososphaeria → Nitrososphaerales → Nitrososphaeraceae → Nitrososphaera → Candidatus Nitrososphaera evergladensis(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Switchgrass Rhizosphere → Switchgrass Rhizosphere Microbial Communities From Michigan, Usa

Source Dataset Sampling Location
Location NameEast Lansing, MI
CoordinatesLat. (o)42.794771Long. (o)-84.393804Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009342Metagenome / Metatranscriptome319Y
F063818Metagenome / Metatranscriptome129N

Sequences

Protein IDFamilyRBSSequence
Ga0065706_10006966F063818AGGMFYNDXETIFGKSYPDWVVKWWQSWGYADWRRNRGDVFMVPAKMQNDDIKERSFKINKDKPILLSVINWIGPDLKEAKEEIDIVAKERLDVSLDGKQIGQDSSRILTPXFXLRGKDYISDGYWLFFKPNVLEEGRHEISSYGSCRSGKIQIAMNYHXSIS*
Ga0065706_10006968F009342N/ADSTINLNLYILLSLSATYYITVPIATGYNVDFYSKGXSPFGISYGDWVAKYWNWDLSIPQDPKSNNLLGLNENGCLVHRENSMVMLVDTAAGGIWNQKXTISHNAGILIPIWTGECDQGTKAFETYSFKELSDCARGYDLGKVKGQVKVDGIPVATLDALDXKTNISNNVTEVYTKGFNXTVPINSHFIVERYGTFPGAAHGWFVFLKPLQAGNHTVYYQNSVEPTTLSGAGNVNSAQFTYHFKVE*
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