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 Ga0315547_1000001

Scaffold Ga0315547_1000001


Overview

Basic Information
Taxon OID3300031553 Open in IMG/M
Scaffold IDGa0315547_1000001 Open in IMG/M
Source Dataset NameSalt marsh sediment microbial communities from the Plum Island Ecosystem LTER, Massachusetts, United States - Salt Marsh Sediment SW1601-240
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1407367
Total Scaffold Genes1610 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1111 (69.01%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Salt Marsh → Salt Marsh Sediment → Salt Marsh Sediment Microbial Communities From The Plum Island Ecosystem Lter, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.722Long. (o)-70.847Alt. (m)Depth (m)2.4
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004454Metagenome / Metatranscriptome437Y
F062435Metagenome130Y
F068505Metagenome124Y
F071917Metagenome121Y
F082079Metagenome / Metatranscriptome113Y

Sequences

Protein IDFamilyRBSSequence
Ga0315547_10000011472F062435GAGLRGVSGVPKRFCEGSNGRKSNTSRVQNGARMKKLQVKGTFILKDKGRWFKVITVRPVGDNRYVFGCRELVSKKSEVLTFRMLGLLEALDAAARVMRDPKDILLVDLDNQGKWKILSKDEVDRISRSARVYTEIFRKRK
Ga0315547_10000011480F082079GAGGMQTKLLHAILSGTIIALVLGFSLIPTAWQMISRQYEEPTFGPITSGRAIMEIIVSCAVMAITLLSFKLVRRVEE
Ga0315547_10000011556F004454GAGGLRLAGGKRTVVEVRDELHREIRKLALLNDLRIYGVANAVIEEFLRDEERVKVLIRRLKL
Ga0315547_10000011569F071917GAGGMKVEKKIISYLYEYGNTRENDIINYGVKKFDYSSEEMKKVIKRMVIKGKIHYIVHSKLEPPEVYISLKELLPPEIVKTLIEAFIQMKAGEEDVQKILDEAASIAEQIKQKYSRK
Ga0315547_1000001600F068505GGGGGLKVRLKIRYRGKRGYDISSVPFKKVEKMGKYRKKKWELKDGWLILEAF
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