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 Ga0181414_1001002

Scaffold Ga0181414_1001002


Overview

Basic Information
Taxon OID3300017759 Open in IMG/M
Scaffold IDGa0181414_1001002 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 37 SPOT_SRF_2012-11-28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8543
Total Scaffold Genes38 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (86.84%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → unclassified Rhodobacteraceae → Rhodobacteraceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F018267Metagenome236Y
F034211Metagenome175N
F037480Metagenome168Y
F041168Metagenome160Y
F064211Metagenome129Y
F074152Metagenome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0181414_100100213F018267GAGMRVGDLISFKPKTFGDDDWSNPCIVLDAFVNDDRRGGGFRDVIWIVWCDGYKHMVNPRNDDIMYLTSSSQLKA
Ga0181414_100100230F074152GGALAYHREKRMIKVLTTFVLIGTVDSKDDFFATVEINMNPQTEQVGHAVMPLHAFPCKVDEGDIFYILKLTDESLPVIICKDSQTNAGE
Ga0181414_100100236F064211AGGAGGMRPGQVKVWLDQGPAVLLAQCEVEGESVAIEEVDDVVPTTEKGWVIHLLQTGELLTVHEETLHNGERDV
Ga0181414_10010024F034211AGGAGGMAYLKKDDLVIIPSAAGSDIQARVVDMQFRRFRRSWKDKATGETKSRWKSVPYAVCECFLGAPIGTEFVIPGYKLKNETKDGEKLLVLRNEYAAEFGGHWIDKMIEDSRAKREVAQ
Ga0181414_10010025F041168GGAGMKRAKVRRRTVGFFRRDAEVPFINLSMFETIKDATGIPHYWRDSKGDVSQFWHAGVIPKGTGVMCAHRERGMKHTFWTVTDPESELIGKMFIIGHTFKDRRENEDERFEYSNISPTLKYSILSEKP
Ga0181414_10010028F037480GGAGMQVGDLVIMPGSIEPVTGIILRMKSDGDKHGRRVQVYWIEDAEAAWEPKKWLEVISENR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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