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 Ga0208504_1000004

Scaffold Ga0208504_1000004


Overview

Basic Information
Taxon OID3300025358 Open in IMG/M
Scaffold IDGa0208504_1000004 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Crystal Bog, Wisconsin, USA - CBH05Oct08 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Bioenergy Institute (JBEI), DOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)83936
Total Scaffold Genes109 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)74 (67.89%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater → Freshwater Microbial Communities From Crystal Bog Lake, Wisconsin, Usa

Source Dataset Sampling Location
Location NameCrystal Bog, Wisconsin, USA
CoordinatesLat. (o)46.0072Long. (o)-89.6063Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000652Metagenome / Metatranscriptome959Y
F029334Metagenome188Y
F029335Metagenome / Metatranscriptome188Y

Sequences

Protein IDFamilyRBSSequence
Ga0208504_100000443F029334AGGAGMKELETKSAGYFAVAAAIDAQRRNSNNKSSYTQEQIRQAVTARDLLDTAFSYSKLYINYRKKFIAIKAEGARAKDALAREVVKLFESNGYGVVSTPQGMIVRIDK
Ga0208504_100000444F000652AGGAGMKVIVTTTLNQELEVPDNWDRLDVFDFLAECQSFRTAFQGVSNEDQTARIVDLHVVTEEVLELGEEAFDD
Ga0208504_100000458F029335AGGAGGMKTITTLRNGNLYEMSITEAIEIVETYKRVNGHPGVLEAVIEMGDLVALDELPTIQKVAYRRFMKDMQALFAPA

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