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 Ga0070714_100000040

Scaffold Ga0070714_100000040


Overview

Basic Information
Taxon OID3300005435 Open in IMG/M
Scaffold IDGa0070714_100000040 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)119253
Total Scaffold Genes112 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)65 (58.04%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000138Metagenome / Metatranscriptome1954Y
F003445Metagenome / Metatranscriptome486Y
F005270Metagenome / Metatranscriptome406Y
F009649Metagenome / Metatranscriptome315Y
F091719Metagenome107N

Sequences

Protein IDFamilyRBSSequence
Ga0070714_10000004015F003445GGAGGMAFPNDDPKVHQGDRTIQLIDWLVGRLEECLGEVLPLQTDDLLKDDAKDAGNSMASAIEQLKRARTKKEQHPE*
Ga0070714_10000004019F000138AGGAGMHMQMVNSFRIPFTTLISYIPIIATVVTTLFSVILARATLRYVEATDKGLALAREEFEREWSPDLHIKIERISATEARVIVTNLAKTSVLLQLLQLRKLSHATPFERCRLNDPLVGGLTWTQEMGKRILACTGQEFEGPIAASMTFYAAGRMFRTDWFRSQIEVRDGRIVSLEPSSMPTRRVRQLERKGPERRREFVQDVTAEPSPEKIDNKPDEKFFVTGA*
Ga0070714_10000004068F091719AGGAGMSGTETKFWPVVGIVAFVALMLSGLGVTLVAIFFVIGAPHAIPPSPGTAAALFLFAAFLVGASIALLRRSIRALTVTQPPEKQKRTRRSLYAVAGGALLVVIGAIIFPRVYEPWWPAMGSSRHGDFMVEPTLLSACAPDAHRIFYKGHVVTKVASNIAFSPRNPARLLYRSACSHDGSESGTFYYSGGRGAPLQVNPLVMDEPGNWFDSFWSPDDKFVVVPALGHATLINLQNGESSKFLSDLFSVKDALSSSVGFLGWSPDGKKLALVVSTTYMRDDRSLFRESDLVAIDPETLTDTYVATMSKPDAWSTGQFIWVDNNGSYDLAVDSTLDNDPTIYRKPR*
Ga0070714_10000004078F005270GGAGGMNPKFNPAHDSDISPEDLASVVASLEPDQLISAKEKHHCPRRNLTRTEMILFWALRFYLVFMFGVVIYQIWTGVR*
Ga0070714_10000004086F009649N/AMKNETLKSTTVHFTESDLHLVESLREKLGLGMIHVVRLAIRRLAESENILPSPSAPKKR*
 ⦗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.