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 Ga0209076_1000025

Scaffold Ga0209076_1000025


Overview

Basic Information
Taxon OID3300027643 Open in IMG/M
Scaffold IDGa0209076_1000025 Open in IMG/M
Source Dataset NameVadose zone soil and rhizosphere microbial communities from the Eel River Critical Zone Observatory, Northern California to study diel carbon cycling - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)19255
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)18 (78.26%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameEel River Critical Zone Observatory, California, USA
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001816Metagenome / Metatranscriptome630N
F004426Metagenome438N
F013876Metagenome267Y
F014601Metagenome / Metatranscriptome261Y
F025249Metagenome202Y
F028763Metagenome190N

Sequences

Protein IDFamilyRBSSequence
Ga0209076_100002511F004426N/AVDDELRVSTHKSIIKTLGRQYTDAAQFFVELVVNSWMWGEATKVEIRIPESGSTIEYEEWGNGMDLTGLREFLTKGKLTDEGFSPKYKRPIRESYGMGSLAWLTVGKDLELQVHKGRFDRTITLTESLIDKHWDETDQSTWRPLRLIQAPLDHDGLRIRIRSLTKKPDPVDVRRALLARANVLALRGYGPFEVSVNGELVKPEELRGSTLLPVNIPTEYGKITGEIMIMPISKVRAGISEAGISVQQKHITCLQHQFFGLDQYRTHGLSRIQGWVNADFLRRLPGGNDFEHDSVQWRVFEKAMRGFARNRVHKFLKQTASRRELRSIQYLNREIAERLRRSLRRNVQILSRALVNPRVSPKVKNVPGKTRKEIVLGERRHRKGKKHSREATRSVIHLKDQILAFDVAHGGDRGQAYVETDKSGVRTVFVNMDHPMWYVEAGMTPTKLRYCIRQILERSIAEEILPVSPSTPEETFSTLDALYNDALT
Ga0209076_100002515F013876GAGMSSIDDPLLKELLAALKEDTQHMAADLLGIITTNALIAVFALFLAIATLIRIILFPPRFGPGPGPGLIETTLTFVLFALSVVSIYNLLRLRERYARLQALAEKLGR
Ga0209076_100002516F001816GAGLKMIEVFADKCAKSTLLNGPFGGDDRAFDRLLGPAGILTRTSLVKATMDGRVTYYGRTEAGKIYQQILDTELNFLDPYTGGEVWKK
Ga0209076_10000254F014601AGGAMTGSTGNTGRPSPIPRAVLAGILAGIAAAVISYYVINSILGLIIGFIAGATVGSRTVLLMHKAREQDQ
Ga0209076_10000255F028763AGGMSDPARSKRRIALGAFAIIMGCVSLVGLSSTSYYFGIGLFGGAYGAVMIALGVALIAKKEAVT
Ga0209076_10000256F025249GGAMSSLDSWFNALASENKDGSSGSGARTPPPSVFGIIVVGLLAGLVVGLVVGPNFTLQGFFLGFAGGALITAGLYFYSSERGRPPR

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