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 Ga0102960_1000148

Scaffold Ga0102960_1000148


Overview

Basic Information
Taxon OID3300009000 Open in IMG/M
Scaffold IDGa0102960_1000148 Open in IMG/M
Source Dataset NameSalt pond water microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_B_H2O_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)24981
Total Scaffold Genes49 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (67.35%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Associated Families6

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Non-Marine Saline And Alkaline → Saline → Unclassified → Pond Water → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Source Dataset Sampling Location
Location NameSouth San Francisco, USA
CoordinatesLat. (o)37.4972Long. (o)-122.1293Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004209Metagenome / Metatranscriptome448Y
F026255Metagenome / Metatranscriptome198Y
F065691Metagenome127Y
F080648Metagenome115Y
F082608Metagenome / Metatranscriptome113Y
F088822Metagenome / Metatranscriptome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0102960_100014819F080648AGAAGGMTDLHAYDEKTWLETVWEGLHLIHPQATTEEQHDDLMTAMHWITEHMGYEFDTQPDSPTNGELIQCSTE*
Ga0102960_10001482F026255GAGVGQQQKGNNMVWVLVWIQMTASQGVEYYQINSFPKKEECTTALDKAQVMLNHQGEAVVCLEVKVK*
Ga0102960_100014828F088822GAGMDQKAIISVLFAAVMGLIGWNIKTTNDLQLAVQRLEIILLNDAMIK*
Ga0102960_100014831F004209N/AMWIGILLVCFDPMALSCKIIAKPEPFYSEQACLEEAGQVATTIRQGGAYATPHCHKVEGDSA*
Ga0102960_100014848F082608GAGLKQILKCSQKIFDTIVLPLDNINSVNDNLQDHAFENTLKKSIELKGMLHPILVCLDKDFKQTDISKFERRPVPQDIKEKYRCLIGNNRYKFAVENGYTHIECHVVKTFEEVKRAQHKTQIEPRKM*
Ga0102960_10001485F065691GAGGLNIYIPEPTTILLVVLSFLAGFLYRKYNDKEELADAFDEGFEKGAHSVVEAVEQITGKEIQLDFGKDRMDR*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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