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_10010863

Scaffold Ga0222718_10010863


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10010863 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)6777
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (86.67%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(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?
F005590Metagenome / Metatranscriptome395N
F005843Metagenome / Metatranscriptome388Y
F009460Metagenome / Metatranscriptome317N
F010322Metagenome / Metatranscriptome305N
F054773Metagenome139N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1001086311F054773AGGAGGMTKQENIISIVSEAVEKAWEGSASAKEASEKYLAMLQQDDVLREEATRRHLERIAYLDVVAQPRGYRARLKRAAHQTVLSKGETSTPAVSLKNMAPAYAKDMFERWLLPNTGICLGDATSEDLEQAIMHETSRSKHHEGQRSFYSAIKARVTDDKVVRDVWDISEVKAEYEQALVE
Ga0222718_100108633F010322AGCAGGMHAVASNTMAEVNALMRDMLAITERTELPDLAKVYTLGAGLQSVVGYMRQHDCDVQDAIAMCMGIIFETYSTPDKEDMH
Ga0222718_100108635F005590GGAGVTEHMTPLERWKELAIIENARMKRRLIGRDDMHAYAHKPWPLEKLRKEIKRCLSRHGELSVGDLCSMIEQDAVHIDIGLKTMRERRTIVKTSFIEGQQLYRLRTQEEFAF
Ga0222718_100108637F009460AGGAGMAKWDLSKLEDCASVGAYIDEDDSTPTQPTPLMLVMSIRRKADIMRMDAGRGPERRTMKQRAEEIMALCEMLEKRL
Ga0222718_100108638F005843GGTGGMTLAEPVFMAFVIFSSADECKAFAKYYDLARIFEPQCVQMGGEADYRRPWPDVRPQPRPTQESNNG
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Institute for Fundamental Biomedical Research
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