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_10000031

Scaffold Ga0210394_10000031


Overview

Basic Information
Taxon OID3300021420 Open in IMG/M
Scaffold IDGa0210394_10000031 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)338945
Total Scaffold Genes301 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)205 (68.11%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

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?
F000132Metagenome / Metatranscriptome1972Y
F005245Metagenome / Metatranscriptome407Y
F008565Metagenome / Metatranscriptome331Y
F020590Metagenome / Metatranscriptome223Y
F030181Metagenome / Metatranscriptome186Y
F040257Metagenome / Metatranscriptome162Y

Sequences

Protein IDFamilyRBSSequence
Ga0210394_10000031160F020590GGAMKKPSLHVTKWLGDIPVEIACTSCPEWRFRATSTSHRPSREEYSQQLQRAFDQHFKSVHQSSVHQSDDSGKINS
Ga0210394_10000031178F005245GAGMLGGSLHAHRAQHSDECESGLFDITITVELQQMHGKDLSTTVERLTGVIGPKLARDRASFHIKVKPALNKLDLQPSLFFLEQDAA
Ga0210394_10000031211F030181GGAGGMTRSRNSLSTAAGSLALAVGLGLRVWTHGNFAHFASGFFLGVSIALLILGLARPSRDISR
Ga0210394_1000003169F000132AGGTGGMLIEKLAAGVVQVQTPIGPRYVMPSFLQRIYLLWMFRNFPILPHAVLNGRQQRMIDQMCSEQRFASMAYADGMDEAPVIGTVEHRPPIAADQLPPRRPVTSEAPGLAAEARQRS
Ga0210394_1000003177F040257AGAAGGMKRTVVIAVWLLTVALPVLLMAKQKLAPVDMKGMNKVFLGWVNVSADDYHHQGYATREEYQAVINHANTAFQEACQSKALSGRTMTAAKNQGDENTAGNDVYVKFSDVTYDHKYRLHLSVHFIDLKSNAEIGSIPLKAYSAHMCGLEGCLIKELDQVSEELQKEFAAGK
Ga0210394_1000003178F008565AGGAGMKRLTTAALLLLCISFPLPSLAARHKVPRFLSKESTVDMSHMNRIFVGWVDLGADDWALWGYQSKTEWADIIGSLNSSFSRNLVSGRTITSAKDRGDENAAGNDLYIKFSDVRVDYNNYHLILSIHFIDPTTNAEIATIPVRPYYGNDWGFKNYLKAALDEAGTKIQVEVTGEAPGKKN
 ⦗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.