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 Ga0222717_10000183

Scaffold Ga0222717_10000183


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10000183 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_18D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)55094
Total Scaffold Genes91 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)71 (78.02%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.0966Long. (o)-122.4216Alt. (m)Depth (m)38
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F024794Metagenome / Metatranscriptome204Y
F025611Metagenome201Y
F033869Metagenome / Metatranscriptome176Y
F043676Metagenome / Metatranscriptome156Y
F097117Metagenome / Metatranscriptome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0222717_100001832F043676AGGAGMNIDKLEAGTKVLIKAWDHNISDQVETVATYNGWCDHPDWGTAVNVSYENVDCHMDSFFSNERETETDIPVSQFQKNVIEVMEVA
Ga0222717_1000018333F033869GAGGMLTKSYDVVYWNEQGEKEIINSFPTKEQAQEVYFKCMEGDKEAQVNSSYDIEEGYVGVPG
Ga0222717_1000018344F025611AGGMKIALCFSGQNRTGHVTADNIKRYVGNLLPDCDVFAHFWDSETRGTGYANRVGAVSTDAEWHTAKKTSPEKNVEFFRQWQPRTIMVEEYELQPTKSTWGGRRFDPVEQKWHVSMWRSLYEANKLKQDYAQKNQIEYDYTVRLRSDLVFDESKSLEDDIREIYTDNMFLFGDHYGIWPIHGQGRIEDILWIGPSKIMDQISTYYATYTNTVPNIDNPHQPGYQDWQWHSANWIVNQLGYNFTKLKNNQMRIYTEQDIDDSIDPMHPGFGPGDKPGAFSNKNI
Ga0222717_1000018354F097117AGGAMSDDMFKLPEISDFRRYCDEKWYEYKDEVESWERKQVTGSPKDYFNKYKWFLKEKYKAEN
Ga0222717_1000018376F024794AGGAMKKILISLALLASLTGCAAIDYFDMARFDNNEYLLAVQVRTQANLGARKCGTPEVNAEVSKLWVTTLELKNYAESIPHNEETITMTSELLEIVRGLDKRYNIDMKVASMTYCVNKFGNIEKNATIITNVIGDKPRAR
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