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_10008073

Scaffold Ga0222718_10008073


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10008073 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)8135
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (65.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F002594Metagenome / Metatranscriptome545Y
F062710Metagenome130N
F084306Metagenome / Metatranscriptome112N
F095507Metagenome / Metatranscriptome105N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1000807313F095507AGGAGMDAKYRGFDIKYIGGGFKLYEGDSLKETHSCQDDTATKRYKSMQRIDAIHRHRRQEDDRSIERVDAQVRATRDMGV
Ga0222718_100080732F084306GGAGGMSKALLDKLSQKRNLEAQWASEFIANGSVTVKMVELKKKINQIAQELKNDSENK
Ga0222718_100080733F002594GGAMAKIPTSRLNTAPKEYNETDFDQLIEDLQDMIKILNTTYPKDIIDEEDRKQWFFMR
Ga0222718_100080739F062710AGGAGMASTIKVKFRISLPAEKEFKIFDNDLWQKSKNDFVAAANDEDGQQILANDYIELYGLSPVDNSYFEDDPNREVESIEQIIDETGKSI
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