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 Ga0222714_10009473

Scaffold Ga0222714_10009473


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10009473 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_3D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8552
Total Scaffold Genes24 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (95.83%)
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)38.0516Long. (o)-121.88Alt. (m)Depth (m)13
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F000450Metagenome / Metatranscriptome1126Y
F000852Metagenome / Metatranscriptome860Y
F007691Metagenome / Metatranscriptome346Y
F047059Metagenome / Metatranscriptome150Y
F085262Metagenome / Metatranscriptome111Y

Sequences

Protein IDFamilyRBSSequence
Ga0222714_1000947314F000450AGGCGGMGDRANFGFVQSNGETIVLYGHWAGHNMLGRLADAVITARPRWTDESYATRIAISQLIGDQWNMETGWGLAVNSILDNEHKIAIVDWNQQTFSLHEEADFRDETNKVRGMKNEAIFTMDLSAFCEKYALDNILVV
Ga0222714_1000947316F007691AGGMTAEQLIELIYEDNFGHVDFMDNMGGDCDCHIHTTLNTMAKYLGIEVDA
Ga0222714_1000947318F047059GGAGGMTRSSRFMEYMKLHKISLEQDLEDARNNVPISEDEYFESDDYYLGAIEATAHLLSVATDIMKSSNERYE
Ga0222714_1000947320F000263GGAGGMQAIPDYNVPAHLQRLIDAGVNGLDIMHGELKNLMFIAERDLDMAIKREEESEEAMDSMERTRCEGILDTLVDLYNLTYQLSFAIAERDKDESI
Ga0222714_1000947323F000852AGGAMTTKREYLKAQGITVGVRGRFSGAAKQVLQEAEAKGIKFSAEKPEKTSK
Ga0222714_100094737F085262GGAGGMSNLYTILAEMHPSGDFTESDLWEAIAESEGVDVYEIIDGDLTEYL
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Institute for Fundamental Biomedical Research
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