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_10038041

Scaffold Ga0222714_10038041


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10038041 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)3479
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (54.55%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Crocinitomicaceae → unclassified Crocinitomicaceae → Crocinitomicaceae bacterium(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)38.0516Long. (o)-121.88Alt. (m)Depth (m)13
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004583Metagenome / Metatranscriptome432Y
F006220Metagenome378Y
F007310Metagenome353Y
F033432Metagenome177Y

Sequences

Protein IDFamilyRBSSequence
Ga0222714_100380411F007310N/AMRTVLWNNTERWFNHHHYELLIEDITGFSLKQSLCSESVKYMAKRLSDTKYHRMFRIKYSIYEDEYKTLVEKFNYQADNNGKIEVA
Ga0222714_100380413F006220AGGMKKFKKFVEELAIASGTEMMRASQMRPTSFKDKSKYSRKTKHKKAGNNEA
Ga0222714_100380416F004583GAGGMKNKNSARLRDIMTSTRHQIVSMKDIQIDIIDTDIKLANQIAQQISALEEVYKHQLTLVKLAESIEPKKSSWFSGQIKSKEDRLANIMD
Ga0222714_100380419F033432N/AMDSPRWGQVLHPKRREQMTNYRKKFLSLWSSIMAEERWHKFDSPACIQSCKGWNAWAPLCECGKNYCTFKPSGTIEDMQMVIEARPLDF
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