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_10001098

Scaffold Ga0222718_10001098


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10001098 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)27214
Total Scaffold Genes50 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)39 (78.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Associated Families7

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?
F010091Metagenome / Metatranscriptome308Y
F014085Metagenome / Metatranscriptome266Y
F020902Metagenome / Metatranscriptome221Y
F023355Metagenome / Metatranscriptome210Y
F037248Metagenome / Metatranscriptome168Y
F050774Metagenome / Metatranscriptome145N
F062777Metagenome / Metatranscriptome130Y

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1000109819F037248AGGAGMLPDGMKQANPPDKYGGRTGKKPTLLTDEKVKVLLSMPGEWFIIGTRDKWISGVKANIESMTQTNISHLATKGKFEIQQRKNEDGQIDVYCRFVMSTLEEE
Ga0222718_1000109822F010091AGGVREEAELPTDIFISLIKIISMTIMKYMNIDKLLEEAETGKRSAIVDRITDEAKPFWQGCEERVAAGRELKPYVVSRLLRDEFGIKISESAVRNHFQNIAEANE
Ga0222718_100010983F020902GGAMDEFYDGEFWDMVYQEYGVVDELDILSENVLEIIQPQPGLIILITKDFYDQK
Ga0222718_1000109836F014085N/AMDNLSEMREQALKRAGNVCEWAYCTDNKWLELAHIKGIGMGGSKKRKFDFDNVAILCKHHHDIYDGRQRVGTSIAYRELLMGYLQRESKTI
Ga0222718_1000109842F023355N/AMALPGAYVNRSNIPGQYCANCKYYSNNYCIAFKEQVAPYGWCKAWKGVEDEIRST
Ga0222718_1000109845F050774AGGMSQIKIDTKTLVPIVLSALVAVIGWLFNTIEELQVAHAAMMEQLRILEKDLDMQESLFSELLFKIGG
Ga0222718_1000109848F062777N/AMDFIIGFLLGYFFKETVSYLKRLAISTPKDWDKEWDWMSPIQEDDLP

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