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 Ga0222712_10005510

Scaffold Ga0222712_10005510


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10005510 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12796
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (65.52%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000671Metagenome / Metatranscriptome945Y
F008814Metagenome / Metatranscriptome327Y
F011394Metagenome / Metatranscriptome291Y
F014140Metagenome / Metatranscriptome265Y
F066776Metagenome / Metatranscriptome126Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_1000551014F000671GAGGMSEKVLCYCCNKTKNSLSAKKSTLLSINLLLCETCINDKLEPRWVVILAGRQNGHEFVKEYVSKKRYPGDEILASELLI
Ga0222712_1000551016F011394GGAMTFIDKDKNHFKYGINQWTGEPNKPVFYNKEMALKIREIKKPVHDLKMDIIKYPEFLAIRLYEDNFARYDGSIRMQVIEYVEMVKKILESYGVRVELEGKPGNGK
Ga0222712_1000551018F066776AGGMLNLTLEGVEIFIKRSQSKLQESFWNNYELVIWKKDSGGFSDVKGMYRNSSWGKAEKFSVDEDGVWKLPKKYVKYFK
Ga0222712_1000551020F014140N/AMDRYRIKLDVEVEVEAFNPEDASEYINDIFNIDDEIKKVNIVKITKK
Ga0222712_100055108F008814GGAGGLANLTVLEEIIKEIGEELYQRWYNALAIEDRTEEASRAMSVNAGETSVWVIQTFMNKFNAAAEELKNQSIANN
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