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 JGI20250J16331_100460

Scaffold JGI20250J16331_100460


Overview

Basic Information
Taxon OID3300001619 Open in IMG/M
Scaffold IDJGI20250J16331_100460 Open in IMG/M
Source Dataset NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF016
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1514
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

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)42.532967Long. (o)-72.209488Alt. (m)Depth (m)0 to .1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020232Metagenome / Metatranscriptome225Y
F045388Metagenome / Metatranscriptome153N
F066033Metagenome / Metatranscriptome127N

Sequences

Protein IDFamilyRBSSequence
JGI20250J16331_1004602F020232GGAGGMAEPPAEPIPPDFAEAFAYAVLVYEIWTPEEPGRLIQVGPRSYSIVEVCRFVDQFTDRLPERVYLKLRSYMHDYPDAKLKADLAADPTYATAVRCLRGMIERRTEDFKQRGGTAG*
JGI20250J16331_1004603F045388GAGGVRSSELTDDDLWRVIADNTDAMSVLIEKQFELDAEAGTPDPDSRQKLMLFNVQAIDNYNRQYRDCIAEIRRRYPSI*
JGI20250J16331_1004604F066033GGCGGMTTQSRAVLQRILQRRTNWAPAGESFGCPRCHAKYAVIRRQTPPGMIPACEECDQEFPPTQDGEWLLYERADG*
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