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 Ga0070739_10000421

Scaffold Ga0070739_10000421


Overview

Basic Information
Taxon OID3300005532 Open in IMG/M
Scaffold IDGa0070739_10000421 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen14_06102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)82301
Total Scaffold Genes97 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)72 (74.23%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire.

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Centralia
CoordinatesLat. (o)40.7999Long. (o)-76.3402Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003735Metagenome / Metatranscriptome471Y
F025368Metagenome / Metatranscriptome202Y
F050600Metagenome / Metatranscriptome145Y

Sequences

Protein IDFamilyRBSSequence
Ga0070739_1000042145F003735GGAMDPLVDEPAISLFVRQHDEPGIEVRVNFGVFAGRHATPAEIDELAAALRDFLPSFAIVSEERHEFGGAVEASVHQVVVEVPQEQVAGGADVLAQQIVLAANGWALECIASRQGAGDL*
Ga0070739_1000042159F025368GAGMSSLRGIVPARRETLVAPSPEERVGRFTLRQLSIVQWIGVVVAPLAWTAQHVVGYGVGEARCNVAGAHWGIGYDTWQLAILAAAALLVLVSEAAAVAVFLATREANYGDGPPEDGRWGGAVPYTRLHFFATAAMVANVLFLTVILMDGLAAVFDTLCVQS*
Ga0070739_1000042195F050600GGCGGVALLRAEEETKVRAWFAELERPVELLVALGPEETPAAGVRDVDFGAEMVRVCEGLAELGDRVTCRVQHEPEGFPRFPSVSIRPEGRDAGIPYDGLPWGYELGFEGS*
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