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 Ga0181417_1000002

Scaffold Ga0181417_1000002


Overview

Basic Information
Taxon OID3300017730 Open in IMG/M
Scaffold IDGa0181417_1000002 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 40 SPOT_SRF_2013-02-13
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)109286
Total Scaffold Genes118 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (17.80%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F063611Metagenome / Metatranscriptome129Y
F077199Metagenome / Metatranscriptome117Y
F078608Metagenome116Y
F104999Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0181417_100000231F077199N/AMAIVKRVQKKVIMSTKDVIKFQLITHCYLNKITVSDSDLECLTLLSSTGPLEISHFCYDAADEQKIFKSQQTVRNCINKCIKFKIVERDVKNKKLIRISPSLNIETVGSIFLDYNFLAK
Ga0181417_100000232F104999N/AMENPENLSPEELKVKKEEMLQFYKESMPYLEAQLDYEKMLSEIDEMRLKRTQIQMAYAQMMAPPEDDGAPMPPEVKPKKRSLKKQSV
Ga0181417_100000263F078608N/AMPLKNKIMQIKKVAVNITERDITSMVETICKETQSTQKANDIADLFTELLLKSTEASTLFVQIMLGNGLPLTLREGDVVRCKWDRLKVGLTNADDTLDRLHENNLINEDNEVVCMVKSFRGYTEYFPYTVEFKYGDDLYASCSMGFEDILS
Ga0181417_100000299F063611N/AMALSTTDLKAEGGSGMPKTIAPGNHELKINSIRLDEFRFIEGAYHLLMEMETKPIEGFEGFLRDRNDESKGRFEGQIGRVKASQYAFADGETKSGIKIQRDRSVLLFLKNLSNALGIADWFAEQDNQHETIEDFVKAFNDTAPYQDKYLHTCLAGKEYENKSGYIAYDCWFAKAQNKKYGYAPNAETMLPYDESKHLRKIENKPVESFGNDEDLSIPMKTSADFDLD
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