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 Ga0207646_10004035

Scaffold Ga0207646_10004035


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10004035 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)16219
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (65.22%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (62.50%)
Associated Families8

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002975Metagenome / Metatranscriptome516Y
F005263Metagenome / Metatranscriptome406Y
F005700Metagenome / Metatranscriptome392N
F007915Metagenome / Metatranscriptome342Y
F030030Metagenome / Metatranscriptome186Y
F042845Metagenome / Metatranscriptome157Y
F046962Metagenome / Metatranscriptome150Y
F061700Metagenome / Metatranscriptome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000403511F046962AGGAMEQIANVAYQGETVNQTVPQDSLTAEQLRGLLAELISSSASLNLRVWLDGVYTDIELTGIRREWMKGREVYFKLEGKVDSQIGLEEAPAGGI
Ga0207646_1000403512F042845GGGGGMESRKWKAFLRMNGETTVNTSQDILNEFKAMVEYLRCLGVDYSMVVQVEAGQREHSHTLALEQTPPRRESGRVGD
Ga0207646_1000403513F030030AGGAGMAKFIMSIGDNAYDILLNEAKNRDVTVQQLLRAVVVPDWITQNAEGKPHGENGSNLIKPSIYGGDTRNSRMLVSPVARLRH
Ga0207646_1000403514F002975GGALADFCSRCGKTLSLIDPLLELKGLRFCEDCYPDVKREHAAASMSDKVDRRQRVAFGDDSSEENLRGSIIKGKQALAVKENDFKWDNPSLSLIASALRILTDQNNIMMKQNELILRELESRPATVKSK
Ga0207646_1000403518F005263N/ALTRRTFALELEVGEKIDALVDGHTLEANLLVNKALRRYIEWGRFVESFKLVTTDPRLMKLFWSHLTVDEARQIGLQNGNGTVIEFILSYFRKFDIDSVLKTFRVIGAEYSNAFVYSELGDDRNRTIILRHSMGRSASAYYGASLKALTSRLGLEVELEESDDQLVCKIRRVEKEQRATPRTPTA
Ga0207646_1000403522F061700N/AMCDKCRRFFVISYEKNEKGEVVEIGHELDIRIISSGAVRVDEGEPHRGFERNPPARRYEEQTCW
Ga0207646_100040353F007915N/AMSLAEAAKPALPSSTVRSYAMIGIVLYAFGLVLNEIGNGLTQLWLVPYADTISALGFVIALYTATLAGLGTRLTVLIGLIYGIGIFYVSEPDATYAASGLRISSYNTTHYVGLGLIGFTMILLIALAFYLTRAKSGHGPLPKQDPGSTS
Ga0207646_100040354F005700AGGTGGLTYRTEYTLGFLALLPLLVTGVAKGTGWLVTIIVVYVGVPLLIWSLLVDRLASLALRLICRLRESSGHQYYFERQVGKPGVSRRILRDIRVLVFVFFLSALIVPQVTQVNPQNLVIVSNAFIYVAIFLLAIPSSIHVLLWVLEDSGLRCHNTTRLTVTVPAAWTSRWLSSLGGIGAFVSFAVAMGGNLDRAISLGFTLMISLLPSCILAPTLFYRRLEPGIIAKIRQSKAAMTMARLFPQVSGPPLPSSSAPTLRSVRVTEETKQTTDPHS
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