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 Ga0058897_10069485

Scaffold Ga0058897_10069485


Overview

Basic Information
Taxon OID3300004139 Open in IMG/M
Scaffold IDGa0058897_10069485 Open in IMG/M
Source Dataset NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaT HF230 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1749
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies

Source Dataset Sampling Location
Location NameHarvard Forest LTER, Petersham, MA, USA
CoordinatesLat. (o)42.531427Long. (o)-72.189946Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F017460Metagenome / Metatranscriptome240Y
F061718Metagenome / Metatranscriptome131N
F090080Metagenome / Metatranscriptome108N

Sequences

Protein IDFamilyRBSSequence
Ga0058897_100694851F090080N/AMGLYRRFVHAKKGMSTVFGGLFFVILILMGFNLMTWNFLQFDAYNGVVTTMTQRDQLSGS
Ga0058897_100694852F061718GAGGVTTARWAKSRVKKYRRSRKGISTIMANLTMLIIVVSLSGLLFVWATSSFGAYTGGAGYWFSSRSIANQERVSLEAVYFGNTGPSNNLVTLYVRNVGTTPFTVASVYENSTLYQISQSPIPVNQVQSIQIVLSGQTWAHGDLQSIRVATIRGTTVTATWVS*
Ga0058897_100694854F017460N/ALMVVIVVVASVMVYAWSTGLLGTLLVTPSTGKESMISEFSGFNSGTNVTINLRNTGSVSITLNSYYVKDSTGNQWSRLNWQTDAGANHPATFAPNALGIVYITIGAGASGPGGQCGSSCSLSGSGFTTMQSGFSYTIVVVTSRNNQFTFTVTR*
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