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 Ga0207428_10000007

Scaffold Ga0207428_10000007


Overview

Basic Information
Taxon OID3300027907 Open in IMG/M
Scaffold IDGa0207428_10000007 Open in IMG/M
Source Dataset NamePopulus root and rhizosphere microbial communities from Tennessee, USA - Rhizosphere MetaG P. TD hybrid SRZTD1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)463715
Total Scaffold Genes395 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)235 (59.49%)
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
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Populus Rhizosphere → Populus Root And Rhizosphere Microbial Communities From Tennessee, Usa

Source Dataset Sampling Location
Location NameUSA: Tennessee
CoordinatesLat. (o)35.8444Long. (o)-83.9599Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007132Metagenome / Metatranscriptome357Y
F043603Metagenome156Y
F048553Metagenome148Y
F051251Metagenome / Metatranscriptome144Y
F065095Metagenome / Metatranscriptome128Y

Sequences

Protein IDFamilyRBSSequence
Ga0207428_10000007130F048553GAGMIRFTVEERHLTDVDGRPVNGADDLAFHSFEAETLDDAVDIYITKGGAELIGDVLKFPGFHAVATIRKPSGVYTVQFTPASQGFPSL
Ga0207428_10000007296F065095AGGAGMAETDQKQNIERAILRARDGVGERIDELDRHLRTNLDPKVLASNYAPQLVAGGAVLGIVLGFGMPKVFRRLITWGVPLAIVAVTIKNAKERNDLVDDVD
Ga0207428_10000007320F051251AGGAGGMTQPTRTTTVSLDAEPLKLTPEEVIAQLRTLRSQIEDIAPLSKDQRRRIKKRVLLHPKPVLDASINVIGVLDNVSQAIGQPLDDVRRLQDDVLRWDAVVDEARAFLKSIEGSTLTRRERLTIIATQAYAIGTQLAKDPAKAVLLPHVEEIKRLKGVSRRKKAAPAPQPPAPTSASALANDTYRPSKA
Ga0207428_10000007324F043603AGGGGGMNNIAQTRTTRIESALSATYVLPAMLAVNTVALLALDQIGGIPQWVKAAAALFLAF
Ga0207428_10000007382F007132GGAGMNNEQKSRQAVRTTAVKVLRSDDLIGDEKDVAAGLLRANPGFGNPHVVRCNWCRETRTLFRDENDGPFTLTTHGWRCTPCDVSAASQEIKF
 ⦗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.