NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0070707_100000030

Scaffold Ga0070707_100000030


Overview

Basic Information
Taxon OID3300005468 Open in IMG/M
Scaffold IDGa0070707_100000030 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)122924
Total Scaffold Genes140 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)100 (71.43%)
Novel Protein Genes19 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)14 (73.68%)
Associated Families19

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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005447Metagenome / Metatranscriptome400Y
F006299Metagenome / Metatranscriptome376Y
F006466Metagenome372Y
F008609Metagenome / Metatranscriptome330Y
F009133Metagenome322Y
F010312Metagenome305N
F010607Metagenome / Metatranscriptome301N
F012762Metagenome277Y
F013280Metagenome / Metatranscriptome272Y
F014110Metagenome / Metatranscriptome265Y
F019111Metagenome231Y
F022166Metagenome215Y
F023559Metagenome / Metatranscriptome209N
F028762Metagenome / Metatranscriptome190N
F035230Metagenome / Metatranscriptome172N
F035707Metagenome / Metatranscriptome171N
F039071Metagenome164Y
F073377Metagenome / Metatranscriptome120Y
F081135Metagenome114N

Sequences

Protein IDFamilyRBSSequence
Ga0070707_100000030128F035707GGALSSSKPSRRAKSKTFTLHLDTDTIERLTTEAEEQDLSVNVIANRALRKYVEWEVVSEKFQVVSTFSSLLTKLMTWVPEEEARELGRSQWRHEWRTVATSYYQDHGIEPRIRILELFGRYGRRFQFDQATIGSTRILTLLHGMGRKWSLFYEGMLEAMLSEALESGGTLETMLSESLEGKAKRFSLTSTDNQVVAEIALDPLKSLQPPVDDIFKRIRVPLSRRDRQTYRSSDLSPIA*
Ga0070707_100000030133F005447GAGMLNRKRLVVFALVFAMFLAAIPSSTPRVYGAAAPCNPLKKCSIAILSPGGALNTNHTVNPSFLVSFLVHNFTLIQPGQTSDVNTTSAGNNEGHIHVWVDGQYVTIWTSTNGIPLSLAPGSHTIRLDLVNDLHQTFNPGINATTTVNVLDPNAQLQSTANNAQGNASNAMYYSLGALILSLISVILVAYVAFKPKPKP*
Ga0070707_10000003015F039071GAGGMTEKTTGQESRDDLLLSIRRLAKIVLDKLEQGSSEGTLDQAQIRLLGSIATRSHALWQEALNPRPRRGLRREMREVEDRLADQHTGQ*
Ga0070707_10000003016F019111GGAVSRNLVERNKHDENELRSQIIEQLEQSLAMSREMMMNIKLDPKTRERWTQLHTNTSQVLNTVLRDKQYEDWEKRLKELEAAGHIPRKTTSPTINPTDNSSRSVTI*
Ga0070707_10000003024F073377GGAMRKMALFGTVMALVLALAIAVPVFGAPPTGIPPSHPDQGHRPAPPLATGTTLTISGSGTAFKIGNRSITESASISLTATVIKSSPGRGMLNFTGGTLTIGSNTYTVVSGHGMINYHSDKMILHLVVKNSAGDKFHLNLFGVHAKASSTTAFTVDFRMPQSKLAHLWFLKFSSASVTPK*
Ga0070707_10000003032F010607AGGMVKVDRYRVVARFARLFPDPAVFEDQDRLVERYLVHSGLPKEKAIYLYQPEGEINPVDDSGKPAVASGAASFRFQGKNIMAEFMPNASLTLEYYDFGTGLSSEDHSRLWKKQRVGEMSFQLRDFGHETQGLNLTNVSELYEMMKKQSQTTSLSSIELAKMPENTFQVTVAYLKSQLRKSSEQDGLEVEVYAARDLSASEKDSLEKRLTRPSTGSTVYVILSKPSQLMKIETS*
Ga0070707_10000003034F023559N/AMASLKKRIPKPDLSKYDSSPLYLYTEKDSLNRVTVLKETAKDIYLIAGRYSGVEGDARLYTPLTDEEKGEIERNLRGSHKDALINHL*
Ga0070707_10000003035F008609N/AMNRTLLVLGIVLIILGVAGYYVTSQTNLIGGRTHSTYPLGGIALAVLGALIAVGGVMMGKAGSKTSNQFKCAKCGATFGSQVALDQHSKDKHKI*
Ga0070707_10000003054F035230GAGGMINEGDDLRIVVPKSYFQRLGLERGETLLVTVEEDRSRAKRKHSKTRVHRVHKHN*
Ga0070707_10000003057F022166AGGALKAKLPRVNFLGVIAGILALISTLLPWWGITATGFGSTTSSIWGFFGGPSRNPDVNNASGFSNTIVTYSPIILALVLLTTALAIAGSFTTRFRFLAGGLVTSIAAVVSYAELVSYTVSNNCQGVACITSSTGSESAFGLTLTWGFQLGFYLFIAATILVVIGLVFHQTLTHREARAEASPKK*
Ga0070707_10000003062F009133GGAGMSSDVARLLSKSVDDLYEELGRSLITPDYPSAGSVTRQNAVQRGRSFISGSLEKLRAKICVDWRYCSRRSEYGDFQSLAYAVAPLVSSVVGIPVSTAMIVAIILIKSGLEKLCNCP*
Ga0070707_10000003071F081135GGAMVVGLLDKTSFGSSTLTTPQLAIATTEKIKEVYFTLELWYFSMRQKVRLLLRKAASMIEYDLLEVVNEFVEFYGEFVEKVAEETLQLVAKGDLASLEGEREGFSTFKTRLAELRGRANAFLQSLRDDGLPVSDTKVRALELDPWFKPGTAISEQKESPT*
Ga0070707_10000003074F028762AGGAGMSEALERQERWKQQKEEADRQRMGGAYIQGFIETAAAIVDEEPLFSKGYWKCASGCKPFGFGLAKTPRECPSCHKQLILWVPGP*
Ga0070707_10000003083F006299N/AMTVPAEVVLREVPEIVEFNQLRGRTATEALTELVEEFGVVYVTAMTRQGCSGCETQKPLFKTLAEKLTGENTGRVRFRSLHVNYQGGDRRESWSSKGVFGHAAYPTYMIHVKSHVGPLEIYRSVYPPMEELEKQIKESFELADFYKTEAENESRLISERP*
Ga0070707_10000003084F014110N/AMKAISLKPKTGSKSIGKTKKEQQIVDLGKLPDKVGVAVDFLREHVKGAKGRVSTKGNQIQVEGLKHKEVKLLLHKFLRHNGLDDHRVLSQSGTLEIVPQHLVVHSRPQEGTPPPASATMPYLFPGASTSMPTSRKSRKS*
Ga0070707_10000003086F010312GGAMASPKKELMMLRVFRLTLPAALLISLTWMTLFTDAARQAVINSLGANANIIIFILGLFLVVGLYWVMGVYERKILYENHRSRPAF*
Ga0070707_10000003089F012762AGGAGLPASLDEDPSLGVIDNFPTVLHARASFSFDINPESLQKVLVSALASLQSNPKSREITLADRDGYLKGQLFFKLGVGNGDAFDVLDYKEEERVLQRIENLGPWHVLDLVFQLHYSVNDDIRHRVHEDHYLLRLVFQPGRVEVLVHHLKGVRRVEPDELIRLLIQELNVELVRKRYGQLELEVVDST*
Ga0070707_10000003092F013280AGAAGLKTVRLLIWSAIAYAVLLVLARGVFPSESTPTISLAGIPLIVVVLIIARDLARKSTTPSKKIDAVASKGFQGNPVQFLSGQFRVAATASNSYFEKVVRARLKEILTAKIAIETGQETGIVRRILSDPKRGPMLLQDDSLYRMLYGPTPRAGLARMNMIRDAIDLIGAWKS*
Ga0070707_10000003095F006466N/AMAGVTLVGTAGMLVRNRTAVFTASAALLLVIIWSKIADDLYRLPGPDSAVLLLQFMLVIFLMDASTTVLTFDSSIKELRGKTDELSTVARMRVTKWERVQLLSLGKLTLASFGLSLGLLILGGLISVSVNQIAFSGVLALAAVVAIFVLITFRREPEEGGRSAQQFPLAHSS*
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.