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 Ga0210396_10000021

Scaffold Ga0210396_10000021


Overview

Basic Information
Taxon OID3300021180 Open in IMG/M
Scaffold IDGa0210396_10000021 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-17-O
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)360863
Total Scaffold Genes361 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)308 (85.32%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F000540Metagenome / Metatranscriptome1043Y
F001742Metagenome / Metatranscriptome643Y
F002288Metagenome / Metatranscriptome574Y
F003548Metagenome / Metatranscriptome480Y
F010024Metagenome / Metatranscriptome309Y

Sequences

Protein IDFamilyRBSSequence
Ga0210396_10000021110F000540GGAMAKKKAANILPKLTETEQDLLSHIQDGYQLETDSLGGNPILRRLKDDEEIRPLSANRNTIKALERRGLIGPGKGRDPLTILWRLKRKMN
Ga0210396_10000021172F002288GGAMGEIDNVRRRRTFRWPKEARELIRAYQRMSEVQEHSEADRRLLVTRLAGISGNPRDACLRFLRELGVNQKRLYREWTKTEQQRLMDLITTMPVEEAAKSLRRSAGSLRSMLHRLGIGGQTGREWFTKFSLSRALHTRPDEIQKWIDRGWLKSQSLAAAGTKAKIIHADDFCQFVKEHGRAVVGRRLTYDALWFVQNYVFPPGHADLLSVRGTYKKHAGDDTDANSELRPSDSSEGESDPD
Ga0210396_10000021197F010024AGGAVKSEPSFAVVRFNERTYQSGGVVAVIKGIEAAQRTLNDFDWCQSEEHRRAGWHYFLEETELRPGMDPEKATKLRQVRLDLQESPSGIEAAPQ
Ga0210396_10000021221F001742GGAGGMDMPDRTPRNLRRNRQSVPRIGPEEAARVFAQCELLLDGAPVFAENLRRLGFAHFLAPLNEQILELSVQPDSWGERTRARMISYFFPALRGLPAESATVEEVVQVSNVVVPCFLLELGRRRQHIEIEFPKNPCDSGARFEFRAGPSRPVYSIDREQLVRLVTEAGEELVGLCYFGDQPSRKHIESHLAPTGSTNVS
Ga0210396_1000002174F003548AGGAGMPLFCKAVVYLLVALPAVAESQAFAKITIRPTNSADARNMRMKVLPDGDLVANAVPVIMLLSYACDLPVNPSPRLSPLPDWTFRERYDIEGKATANAISPSLQDSDSPSPAVSPAGKV
 ⦗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.