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 Ga0207650_10000011

Scaffold Ga0207650_10000011


Overview

Basic Information
Taxon OID3300025925 Open in IMG/M
Scaffold IDGa0207650_10000011 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S6-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)450115
Total Scaffold Genes369 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)275 (74.53%)
Novel Protein Genes11 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)10 (90.91%)
Associated Families11

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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?
F004612Metagenome / Metatranscriptome431Y
F007137Metagenome / Metatranscriptome357Y
F016821Metagenome244Y
F018607Metagenome234Y
F022004Metagenome216Y
F026703Metagenome197Y
F028519Metagenome191Y
F035269Metagenome172Y
F045815Metagenome / Metatranscriptome152Y
F081403Metagenome / Metatranscriptome114Y
F092590Metagenome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0207650_1000001115F018607GAGMLAVHKCTLWIVLVSCLLAYGCTTSKDVAKTLGDLTTVRAELIKKFGEEDVNLHIYTFQHQTNISVTYVNSPLNLKTTEERATRAQETAEVVRQHYPSIKNVSEIWVGFMRVTTRLVVFHWTETIEIRGFDNEARALRAPDTAPSDPDPNRPGIRYSANQNKTEISSGAIQLEGTSEKGVTVFPHFSVAGDANKTKPKPPPEVTLDFAVFSEKPKFPNLTKIVFLSDYKIVYRTEGQFSTSKIADDTYSEFLYLKVPTAAFLKILSGRIVTIKLNEHEYTLTESEVLPMQRMSDYLK
Ga0207650_10000011175F007137AGGAGMSAKATVIKIKVNFQLNTPNGLRRVIFGLEKDTQGDVVSWTINFQLFERTKKTDPFGDPIVSLDVDVDKALNSKAEKASKGLTANQAAFALGPAADDAKAAEDGEIDQDDAQKTVQKTLK
Ga0207650_1000001130F035269AGGMIRHEKERTISYRITEEAWSAIEKRAASSGESPHQWARSVLLEKLSRVDELTPGERVLFHYLIRAQYLVTQGFQLIADHHLTSEEWKKLRANAKHRVPELAEAALASYAEMKC
Ga0207650_1000001131F092590AGGAMASTSAFTEEGRTRIRNFQRRVSSYLILWILVAVAGSVGCVYLRTRYGYRPLQRLYLSQYIKASIKSILPLKRPSTYTLLVRVVRDEVTGKERIFGCTDDQVTPIRDETGRVRFDPKLGPFFELQAGIPHKYFYWRSVPQMDKHMYVWFRDQIYAGRSLIDLYWICFLPLPLIIAPGMFASVKLDMRMNQDYEAGELLRGVRILKPKEYARERRQQEAGIGIPALLPERPEL
Ga0207650_10000011311F026703GGAGMIILRLVAVCVVLLVVFGCRSQNESLTNATPSTDTVVSSTPPFQTKEPERYRAVRTITAVNAEGQTLVTKTSVARNGELRRHESTSGLRTIVYLDVPDGKFVLLTDEKLYADVTDQSQISADPNDEGLESSPDALLHTDAGTTSYQKLGNEVIAGRNTNKYRIVVNSSTAPNVSQSETLMWIDEALQMPIKSETKSNGTHVTMEISEIKLEVDKSLFTIPEGYKKVTFLELRKRLIAPAQPDEN
Ga0207650_10000011324F045815N/AMAISLRNLCALCVSAVKRNEKHINRRDAEDAETTQRNNAALDKDVCWRVDCKPEMDLFSNKAVRLLLGFSVSIWMAGGCLFGCANVAAQTSENVIDSGMSCHTKRPHANGPSFSPSANGMMNECPLVVNSTAVTSKNSTHVPDPGRVPVAALPSFEKQIAHTDNTLVATFLPDRGPTHLRCCVFLI
Ga0207650_10000011325F081403AGGAGMNPRKHTFLILLLGLLLVAFAAVSAQTPSQGDQKKKTESCCAMKSCCNDDSCDMKKEGEANAEGKHDCCGESCDMKKHDEKMKHDKDAKHECCNIKDKNKKKNT
Ga0207650_10000011363F004612GGAGGVSKQCAKLRGRYLVTMQSLVVKISNPDTVHAIAEAAKRQGTTPEAAALELLETAVLAQKPFEEIVEPIARSFDESGMSEAELDDLVKQTEKTIREERRRNK
Ga0207650_10000011369F028519GGAGMEDKSKTFTWEWEDGETGLIRTIKIPMPNLDRDYDPSESREIILDRKPRLDNVEMPDWIEIIPPRKPN
Ga0207650_1000001177F016821AGGMLKITKQAENARNTVSLHGHFTGEYVSEVEKALSENGCKRGNVALDLRNVTFVDRLAMEFLRRAKSKKIRIDNTPSYVTRWIEQEVS
Ga0207650_1000001179F022004AGGAMKPRIRIIKRGAGAQTNNLPVNENEKTDQQLDRETANTVKSWVAEWEARNRLLKAAAFSLVRSLENRSESPTRRLAVVNG
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