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 Ga0209580_10000006

Scaffold Ga0209580_10000006


Overview

Basic Information
Taxon OID3300027842 Open in IMG/M
Scaffold IDGa0209580_10000006 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen04_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)637102
Total Scaffold Genes599 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)424 (70.78%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Associated Families8

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F000236Metagenome / Metatranscriptome1499Y
F001511Metagenome / Metatranscriptome680Y
F006821Metagenome / Metatranscriptome364Y
F012297Metagenome / Metatranscriptome282Y
F024849Metagenome / Metatranscriptome204Y
F047881Metagenome / Metatranscriptome149Y
F048612Metagenome148Y
F083320Metagenome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0209580_10000006101F001511AGGAGGVEFVMFEDVQGQEVFVNPKRVIWVRETGDQRTVISCGRDDTFTVRLTPAQAVAALGATAR
Ga0209580_10000006125F048612GGGGGMKDPIEVLRRKEAELEQLQEEVYALRLAGRLLKEKPLKDNEEQARGKVLQMP
Ga0209580_10000006206F006821AGGMLAATAMLPIDLRIDRAQRFLRLIEEDAPLLAVRLAPLSAERQKSAKSYVQRLAERTRLELKELLEEKTLTGVADQNPSAAD
Ga0209580_10000006249F012297GGAGGMNSMHYLYAAYIATWAIHGVYLTILVRKYSQIRREMERLKK
Ga0209580_10000006319F024849GGAGGMEAQVRDWRVLSEAASQEQDPEKLIKLVEELNRALLYREIQTNRRLAMN
Ga0209580_10000006336F083320GAGMWSRIFIFLLLAAGAMAQTAASSSPKIDNDFVHQQFGDFCNLDTQWSPLTADLNSDGIEDLVFVARCKNPLIDQDEKNYRVIDPMDSFYGYGNTTITTGMGQNDPRLHGLCVMVIHGSGADAWRSPNPQAKFVIINISLKTLSLKRMKVSKKRITNAIYVEEATGDEMTAAIFWDGKKYRYDPLGSGME
Ga0209580_10000006492F000236GAGMEKKIFWIVFCILGLVADFVLPLWWALAATIPIAILSWWVAYRSDWF
Ga0209580_10000006599F047881N/AMPAQAGENGAVRVSPMDQRGRPISTPVLRAAEEVSRRAIHHAEKLLVDPAVAANLLEEAAATVSRALKAKNTDERPVQDLGSYLFRAFLRRLNRTKKRQSLSADAADLDAFLSRMSSDPRRALEMKIFIDELLMQCDPAMRDMLCRRLGGSSWKEVGRAYRISSHAAESKFSQALQKVRKKLRLK
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