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 Ga0244775_10004968

Scaffold Ga0244775_10004968


Overview

Basic Information
Taxon OID3300024346 Open in IMG/M
Scaffold IDGa0244775_10004968 Open in IMG/M
Source Dataset NameWhole water sample coassembly
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13610
Total Scaffold Genes34 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (67.65%)
Novel Protein Genes12 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (58.33%)
Associated Families12

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Crocinitomicaceae → unclassified Crocinitomicaceae → Crocinitomicaceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003750Metagenome / Metatranscriptome470Y
F004476Metagenome / Metatranscriptome436Y
F004583Metagenome / Metatranscriptome432Y
F006220Metagenome378Y
F007310Metagenome353Y
F008552Metagenome331Y
F013084Metagenome274Y
F024112Metagenome207Y
F033432Metagenome177Y
F043399Metagenome156N
F085699Metagenome / Metatranscriptome111N
F095475Metagenome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0244775_1000496815F024112AGGAMKIEDYDKERATVLNALYCSVRSAIQTENLHNNHRIEWIQDDFEVCRKKLEAIEAEMRVLLGDPFAEEEK
Ga0244775_1000496818F095475GGAGMKNKYGKQCCYCGCYVSAGEGRCWMWDETKRWYVSCEDCFQEKKEERKNQG
Ga0244775_1000496819F004583AGGAGMRTTRNSDRLREILVSTRQQIVSLKDIQMDILRNDSKVANQVATQISALEEVYKHQLSLVKMTEDIEPKRDGWFTGHFKTKEDRLANIMD
Ga0244775_100049682F085699GAGGMKPCLNVGHNGAAGVNSEKQMQNLKDVTDHVKEFFSANDDTFTLVRNVSGSMIPGGLSSFKFARAGEGIFYSNGLPVVFVTRLSSENGYDANVGKWYRKQWYYENYLRKLNPNCTHLTFIHASESAGLLNALVSGVSMVMAQDFNQHTYNTSNPGGNTIYCYDTDMQTDTWYDIQQKLIAMVKQSKPDPFK
Ga0244775_1000496820F006220GAGGMKKFKKFIEELVIASGTEMMRASQMRPSTFKDKSKYTRKTKHKNRQDKNSDDSFI
Ga0244775_1000496821F007310N/AMRTVLWNNTERWFNHHHYELLIEDVTGFDLTQNLCSESVKYMAKRLSETKYQRRFKTLYTIYENEYNALVEKFNNQAENNGKIEVER
Ga0244775_1000496822F013084N/AMGILSILGLMEETKNTVLSRGHDVKNWLVLGNDCYALECKDCKMTVMIKENPLPNEIKVGGEAVAVNCVKPEKKKLRK
Ga0244775_1000496824F043399N/AMLLDDYTMVIWTIVKKNNNYILLDSCGVEVFRRKENRKKEIYQYCEDNGIDVQEEF
Ga0244775_1000496829F008552N/AMIISFEASANVDTTLFGYFSMEYDPELFSDIKENLTEISKNEPLSFKLDTNDVKLLQGAFHNIRRIICIPDVEQNKFTDVLKREFDTSTFKKFKQCKLHIDKDYFYFTGNYETGNNPIEFQSLNFDTRFIESLEYKYKKHQESVVN
Ga0244775_100049684F004476AGAAGMLFSKNGFKSVESTEEFVKQAIEFGQKDIVLSVAHGNGVIDIVISPTMDAIEADVYHFLNDDTELKYSMPIKTLTDNNISSLALTSAIYAYLSEAFKVAEMLRSTTRQSTDYAK
Ga0244775_100049685F003750N/AMNEEILHRVMQVAIYSGGIVAFWQITKHMPKALYTLLECIIVMTFSVLLLTPFSMIIEYILGGNIETTMMFVGCLATVSLLSTMWMVMVQSSRELQGKKQYKYVVL
Ga0244775_100049686F033432AGGMSDYRKKFLSLWSSIMAEERWHSFISQACVSSCKGWNAWAPLCECGSNFCTFKPSGNAEDMILAIEVRPVEV

 ⦗Top⦘



© 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.