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 Ga0210394_10000003

Scaffold Ga0210394_10000003


Overview

Basic Information
Taxon OID3300021420 Open in IMG/M
Scaffold IDGa0210394_10000003 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-12-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)695562
Total Scaffold Genes641 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)486 (75.82%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (42.86%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000036Metagenome / Metatranscriptome4352Y
F002363Metagenome / Metatranscriptome567Y
F003137Metagenome / Metatranscriptome505Y
F003240Metagenome / Metatranscriptome498Y
F006705Metagenome / Metatranscriptome366Y
F017174Metagenome / Metatranscriptome242Y
F051882Metagenome / Metatranscriptome143Y

Sequences

Protein IDFamilyRBSSequence
Ga0210394_10000003233F006705N/AMPYILEHLTSLRQEITDLRNMNQRSALKTADSQIDQSAVEMRANRLAEIKKELSQMLNRPEDPQVWWEKGGRRNRVA
Ga0210394_10000003281F003240N/AVLTEEDKQWISDRLEKVETTLLSEFHKWASPVELRQRSHAAAIRALDTEVEALSDRLKNIEGR
Ga0210394_10000003296F000036N/AMGMDYKETFWMACDSTEQLRAEYGPFHTRVEAEAEARRLGFSYLLRYEHMLDENEEIQEVRCIFLELPGTVTAEVALISLHTRCATCGVSATHDKAWQAEVWADIHEFENSRHRVRLFEHARGKGLKEIAGWRG
Ga0210394_10000003432F017174AGGAGMYSWENPDDRVAIVTLNSELRHAQLELLSAHSAAHQLRVRFSAEDLARFGQRDILRKSVHAALALSEYYSSIERKIPAAEAASEAPTRLSEDRILEAIDLVCSFLREQRERYFHSAAPLTQHQKALIGGYFSPDMLERVQIVKLDGSRVPNPPFYEQARALGFTSLPEITHMHSLTFLDVIVFNEAVTERTLFHGLVHAVQFELLGLARYSSLFVRSFVNTRLHFSVPLEAHAFSLESKFVGTPAHLFSVEDQVRLWMKQGRY
Ga0210394_10000003499F051882GGAGGMKSSILAVLAFAMICTAGAIAQYGQDQHDQQAQSSHRVKNTNVTGYVRKDGDNYVVEDDKDKQRYRVQNSEAVREHEGHHVKIKAKLHEDDRSLEVNRVNRLREDGHHQ
Ga0210394_10000003557F002363GGAMNILGLCLVVQLSLAFGVAGLFWPQKIMPFFDVLMFPWAASHRSVRANSIAALGLSALLLARLLAIMR
Ga0210394_10000003570F003137N/AMAQKKKIKRFEAVQAVKELARERVGAPPVEKVVPHKNKKADKHRATLGRLLGERETE
 ⦗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.