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_10013369

Scaffold Ga0222717_10013369


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10013369 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)5638
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (88.24%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

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?
F001588Metagenome / Metatranscriptome667Y
F009668Metagenome / Metatranscriptome314Y
F023086Metagenome / Metatranscriptome211Y
F039087Metagenome / Metatranscriptome164N
F085331Metagenome / Metatranscriptome111N
F100717Metagenome / Metatranscriptome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1001336910F001588AGGAGMQNTNYVFLNAQNAAIVVTVNNVVVATDVQTADALVQVFLTHNINVLTDTIMCSSSIDFAEEEGFATDACAHNIIEDALAQL
Ga0222717_1001336911F039087GAGGMQNTNTKTARSIVRNILKQNNVMYSSQSYTDKCANPALRNLCFLTKNLTPAVVQQISSALNVTKVHATKPMFYNVHPDARYLRIVHCAK
Ga0222717_1001336912F009668AGGAGGMQATVIKTLDSAVRVTLVEDDAEWRAEFEEYGYDTDMWAAYGDGDVWRDNVQVTHTLNDEEYGFICGNSSDRRVYGFTVDVHRAEEADGNFSFWVTEEQYEQIG
Ga0222717_1001336914F085331GAGGMQTINYSTTVADYYEHLTNECADETRFTMDEQCFVLEFLADTLNALTQLNSETLREEGNFARMQDCAEVADNYVMLLNKCNSEYDGEDCYTFTLEDAGAAICSYDTEYRECICEQFEDALNEYFALVQQNKLQKLDIANCLAWRVFNSY
Ga0222717_100133693F100717GAGGMNELLEMIEDLETIQTLTMHPALDETVERILAKYEERREAWEAELERQYEMFKEELV
Ga0222717_100133698F023086GGAGGMQNTQYENAVIAAIENFANSIANCAHDSVVENSDYAITDSIDSINFLFSNYTKYDSVQALANAALDSTLDTVVRESIHAQLT
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