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 Ga0244777_10000080

Scaffold Ga0244777_10000080


Overview

Basic Information
Taxon OID3300024343 Open in IMG/M
Scaffold IDGa0244777_10000080 Open in IMG/M
Source Dataset NameCombined assembly of estuarine microbial communities from Columbia River, Washington, USA >3um size fraction
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)71570
Total Scaffold Genes105 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)84 (80.00%)
Novel Protein Genes20 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)16 (80.00%)
Associated Families20

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes(Source: UniRef50)

Ecosystem & Geography

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

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

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000258Metagenome / Metatranscriptome1443Y
F000369Metagenome / Metatranscriptome1222Y
F000376Metagenome / Metatranscriptome1216Y
F000473Metagenome / Metatranscriptome1097Y
F000671Metagenome / Metatranscriptome945Y
F000852Metagenome / Metatranscriptome860Y
F001280Metagenome / Metatranscriptome732Y
F007921Metagenome / Metatranscriptome342Y
F008245Metagenome / Metatranscriptome336N
F012975Metagenome / Metatranscriptome275Y
F014017Metagenome / Metatranscriptome266Y
F014140Metagenome / Metatranscriptome265Y
F016396Metagenome / Metatranscriptome247Y
F020166Metagenome / Metatranscriptome225Y
F021988Metagenome / Metatranscriptome216Y
F023341Metagenome / Metatranscriptome210Y
F060898Metagenome / Metatranscriptome132N
F073544Metagenome / Metatranscriptome120Y
F073565Metagenome / Metatranscriptome120Y
F080044Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0244777_10000080105F000852AGGAMTTKREYLKQQGITVGVRGRFSGAAKVALQEAVNKGVTFTDEKTNKAK
Ga0244777_1000008019F000258GGAGGMTTDYNYDVMLDLRKHLWSQLKSNDLFEASDYYSDNLGEELIPIIPVQQQPEMNQFLSGKKHIVYDKIGMSYEDNWVICCEQILFTIYSTDISEINQIRNLMTDLYRRMDESARDANRYSGISQKFKFYSIFVADISPTAPSEELAGFLSADVILEVKYARHVGTDGRFL
Ga0244777_1000008022F060898AGAAGMPELIQTLKSFKKQKSEDRKFAAGLKGIELNIDEDEEEVPQGKTFEDIRRKALGINASGDDILSLQGPLASDAGFGIGAGLGYSRE
Ga0244777_1000008047F080044AGAAGMPNLNEFFDKKIEQKEYSLEKLPGLRACNTCDEDVNGATWDPIELVMSWRCSKGHETIFKVQ
Ga0244777_1000008051F008245AGGMAEDKNTLELISNITEFNDLHEFMKDEHLDKALAIVVKLLMNPDVPSAKAPMLIMELQAMSTKFAVMSSVYSTIAKDKAGTVNNNKKNVYYSVKESIDKLVDALKYVVRYNS
Ga0244777_1000008058F000369N/AMSEIELAQHFDRMNKVVEELLKGNTPTQIATITGFQRKEVLEFIDEWKSVVHSDSGIRDRAREAISGADQHYAMLIKEAWKTVEDADTQGALAVKSGALKLIADIETKRIAMLQSVGVLENNEIASQIVETERKQEVLVRILKEVTATCPKCKMEVAKRLSQITGIIESVPVEEADVV
Ga0244777_1000008060F000376AGGAMSTYQEKAKECKCCGKHVPLPTVLKEYNGIVLCPTTFSNVVEYKRIWIAAGARPMGNIRKHFSEYVQQIVEDTIDKNEDGTL
Ga0244777_1000008071F023341AGGAMPVYEYKCSYDDAHPTMSTHRSIMDEDPGYTCVECESEMIRHFTPFGIQFKGNGFYKTDNPK
Ga0244777_1000008075F014140N/AMNTYTVKLNVELEVQAFNETDAKDYVSDIFNVDEEIKGVNIVKIIQK
Ga0244777_1000008078F012975AGGAMLNLTLKGVEVFMERSKHSKQDSYWENYDLLIWKKDPGGFTNVKGMFRKDSWGITERIPVNENGIWKLPKHYVKYFK
Ga0244777_1000008080F000473AGGMEFINKDKDHFKHGINLWNGEPNKPVFYTKEMSSKIRELKKPVPDLMLDIVQYPEFLAVRLYEDNFVQYEGIKKEQVIDYVGKVKKLIESYGVRCELEGVPSARILRSN
Ga0244777_1000008081F073544AGGVREYYEVINIVFIHELRLWGTCDSLGLYASKIKYQKDGIEYEEMLDNEEFTVMEEIVIEHQEEDN
Ga0244777_1000008082F000671GAGGMEKILCYCCNKTKNKLNLKKSTLIPINLFMCESCISSKFEPRWVIILAGRQLGSDSVKEFIIKKRYCGADIAASELLV
Ga0244777_1000008086F016396GGAMRKSERLRLLEMQVVRLEMMVELYTQTLSNLLESQGLSAPTQLDAGKWYKAKLDQLDKE
Ga0244777_1000008093F014017N/AMDDLGLYLDEKLRRQIADEIRHLELPPEWRPSEVIRYIVRIIEKNNGQTPR
Ga0244777_1000008095F073565AGGAGMSDGQNLTGFNEVKPVTNTSWNGEQYAADPASAFPSTDKSTQDGSGVGNNGK
Ga0244777_1000008096F001280N/AMCIECGCNIFGVADLAPATIVDASRDGESGLTLDMTSTPEQTRQFINE
Ga0244777_1000008097F021988GGAMTTPPAAGAASGAVTSRETPKRYPRQGLKIDTNKHGIRRETNLNQQPKKGRPKKV
Ga0244777_1000008098F020166GGAGVSKEPKIMRMDWRSLGYWPVYKDGKLTWEKDPKND
Ga0244777_1000008099F007921AGGAMIDWLVNRIFRWDPLRKAIFDEVRLYQSVDRSMWEYEKEGPSNLTWSEGDKWYGWTYNSNAKRYYFDDIGNESLMGLWEDQWAREEAESK

 ⦗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.