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 Ga0209274_10000049

Scaffold Ga0209274_10000049


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000049 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)120878
Total Scaffold Genes135 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)112 (82.96%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (100.00%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000275Metagenome / Metatranscriptome1391Y
F001247Metagenome / Metatranscriptome737Y
F007478Metagenome / Metatranscriptome350Y
F019863Metagenome / Metatranscriptome227Y
F026323Metagenome / Metatranscriptome198Y
F044621Metagenome / Metatranscriptome154Y
F067999Metagenome / Metatranscriptome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_10000049115F067999AGGAGMNYDKVPEISSELRTLLNEQTPVMTNSVRITLAESPQPEIDASQARNERLRELSEELSNLDGRLLRSYRFHSAWLIRIVRPHTNIFSWIASHWRIGAAIAHAVRIAVTSTRSIETDETRAEHAQRTTEEAKEVRAIADKISNYARRVHRRYPSGEVVVGENDLAAQLRKRRDRVGTALNLLLGEQKVKKASLGGYWKLNI
Ga0209274_1000004927F044621GAGGMRHYTVKMMNTFSTFKCLLCKYSVTTREFSSQNGNCRTQAARTMNEHATAAHGGAKALSPHDTQVWHAH
Ga0209274_1000004938F001247GAGGMRTKTWTVVTNTGKQADLESGLDKKEVQKPTHISAREFVHWLAPESHIDDDSLRSLFKL
Ga0209274_1000004942F019863GGAMSYSEARNHFEKGKSNTIDKSTIEMLDGLKHLSHALEEDIRTLQQGIRDVRDIQSKQASTGPF
Ga0209274_1000004974F000275GGAGGVAEFVSSGMRRSEFCQSRGLSFSTLDRHLKKLRWKRRRKPISPVGRLVPVELVARKSPKQHEPSCGLAVVVPGGHRIEVHPDFDTNTFERLVGILERA
Ga0209274_1000004990F026323GGAGGMDNQELQNSVAKIAETLITTQRNLVTVSRSLWAVRISIRELHPDFEQMYLKHFAEPEQAFDKMRDDLLNYGRDLADLARRLRGES
Ga0209274_1000004991F007478GAGMIRLPILKDELAFLEKILPDLEERPDLGHLAIEIKGRMEKIRQQIRDLERELNRAAPHRKPR
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