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 Ga0126317_11050199

Scaffold Ga0126317_11050199


Overview

Basic Information
Taxon OID3300011332 Open in IMG/M
Scaffold IDGa0126317_11050199 Open in IMG/M
Source Dataset NameSoil microbial communities from California, USA to study soil gas exchange rates - SR-CA-SC2 metaT (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2088
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Groundwater → Unclassified → Soil → Soil Microbial Communities From Various Locations In Usa And Cambodia To Study Soil Gas Exchange Rates

Source Dataset Sampling Location
Location NameStunt Ranch Reserve, CA
CoordinatesLat. (o)34.0938Long. (o)-118.6572Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011803Metagenome / Metatranscriptome287Y
F042033Metagenome / Metatranscriptome159Y
F044745Metagenome / Metatranscriptome154Y
F061313Metagenome / Metatranscriptome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0126317_110501993F042033AGGAGMNDQNRVLVRRGAHELSAEEMERVGGGLPTDTVCTVPTNSCPNKDGDASIGECGPIC*
Ga0126317_110501994F044745AGGAGMNDQNRVLVRKGARDLNDQEVAMVAGGLRTLTACTLAAAGTLDGDTFHSECGSPDQ*
Ga0126317_110501995F011803AGGAGMNNQNRVLIRRGARELTPTESALVNGGFVTLSLCTNSPSPDGDQHVGEVGC*
Ga0126317_110501996F061313N/AMMKGEKIMNDQNRVLARRGARDLNEKEIDQVCGGLRTATKCSLTAAGSLDGDLHECS*
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