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 Ga0222718_10016222

Scaffold Ga0222718_10016222


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10016222 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5292
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (64.71%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → Winogradskyella → unclassified Winogradskyella → Winogradskyella sp.(Source: UniRef50)

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)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009521Metagenome / Metatranscriptome316Y
F021404Metagenome219Y
F022084Metagenome216Y
F024920Metagenome204Y
F038854Metagenome / Metatranscriptome165Y
F056177Metagenome138Y
F080492Metagenome115N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1001622212F009521N/AMKYKIIINNGTLKGFLAFRGSCLATMQDKYKRLEQQGHKLKLIRGK
Ga0222718_1001622214F080492AGGAGMSKVHHTQYKKNYKNYILDCLETEDELIGKNLSDDEKINYLFDRFGNEYGFQIERIGEHRAMTEWLSGLAINIPYTYSDIIELAIDMGSIDNNPSEALKDRVIENYFSFMANVILSFKSKWVA
Ga0222718_1001622215F022084GAGGMTHQKYLKELFKLIEGKGYTIECECEGEEITKDEALTQVDETAIYVIDKDGHSLGWIYFLFWNDWDESISDYTLELDTILNLDGFIKSYTYNY
Ga0222718_1001622216F021404GAGGMTYKINDKINYFFKGDEDNEPCEDVMIVKALKDLDNDEVFKLKPTTNNKNVLVKGDYDKSTGKYWATKWHDINNETLKDGNTLVFTSFIF
Ga0222718_100162226F038854AGGAGGMSNPRRIVSTTILVEWNDNPKPVVLNNNMPNGLANDFDDWLTECEDEENVKXAK
Ga0222718_100162227F056177AGGAGMKTITKEYTVYDFEDLKQDDELCEMIYQKFWIDNPNNINPWADENINSFKKFAETLQMNFDYSLSNDEYETRQCYIKLSPSYDLDNKDYKYLLQNYKGNDYCFCDELQAFTKKLLSKKEYKVLCEWSTNDFVLEIQNKMFDMWFADNQDYFSKEMFLDYVESNGYEFDENGYLI
Ga0222718_100162228F024920GGAGMIEELLDKYHEDDFDDLLIQIIKHMKEVKELREYEKEQD
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