NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0209229_10000068

Scaffold Ga0209229_10000068


Overview

Basic Information
Taxon OID3300027805 Open in IMG/M
Scaffold IDGa0209229_10000068 Open in IMG/M
Source Dataset NameFreshwater and sediment microbial communities from dead zone in Sandusky Bay, Ohio, USA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)35608
Total Scaffold Genes49 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)40 (81.63%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater And Sediment → Freshwater And Sediment Microbial Communities From A Dead Zone In Lake Erie, Usa

Source Dataset Sampling Location
Location NameSandusky Bay, Ohio, USA
CoordinatesLat. (o)41.474889Long. (o)-82.854137Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001182Metagenome755Y
F001424Metagenome / Metatranscriptome698Y
F003662Metagenome / Metatranscriptome474Y
F074415Metagenome119N

Sequences

Protein IDFamilyRBSSequence
Ga0209229_1000006842F074415GGAMPSRIPDGLTVAQTSRGIVITSDPAKVKIIDQGSEKDVGMALFGYAYDQAKGFDNVAVAMDRGGIPVAELAIKPGQERRAMRAASLLAPDTGSTNMMSRGDVVNTRLKGLLD
Ga0209229_1000006847F001182AGGAMNQTPNCPRGLFQFDCTVEDVDLICFLEYSPEEKGSTDSHGSPYEPDLDESMTLNNAYIAGTDVDIAHMILQGLVDHIEVSALEKYNDQ
Ga0209229_100000685F001424GAGGMGQEVIKLSTGYPQSDKWVEDERVFCHQCSKAVEVDMKQSMPAEQMERHRKVNSKPLQWMFDEAKIRNGWATITWSEHQCSQTGLATFPTDVKHRCHLFQPKATAVESESWWLT
Ga0209229_100000688F003662GGAGMKSKLATVILKGQEWIVIDTDEEKDGKVFCTLMSPDGTTVLHAWVNVNDIVGII
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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