NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0193709_1000294

Scaffold Ga0193709_1000294


Overview

Basic Information
Taxon OID3300021411 Open in IMG/M
Scaffold IDGa0193709_1000294 Open in IMG/M
Source Dataset NameSoil microbial communities from a riparian zone of the East river system, Colorado, United States ? H3c2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18858
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)26 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9821Long. (o)-107.0102Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002638Metagenome / Metatranscriptome541Y
F008204Metagenome337Y
F034086Metagenome / Metatranscriptome175Y
F044108Metagenome / Metatranscriptome155Y

Sequences

Protein IDFamilyRBSSequence
Ga0193709_100029411F008204GAGGMTLDGIVRMTLLGFLLSGVAAQVSPQSPPSLADGAEQSSRSSQAQSQVELNRFSLLGGTSIDVAPDWIEREQMPLPPSPRLAPFAPHVTFLEFSALENPRMHSALRIATTTNSFLGGDEVALDTQMHSAGGSGNSLADYLFYFFFSPPRDCLDGGSEAFTKAKSHAGTPDQAVSLDLNIPTYCKHAPTLADFYSRELSPGITFQFTNGVERASGIYPEFYLAPMEKVEANGLTFYVFEAQGRRELDLATVDHFNLPDELQGAQADFFLAIGAPSPFPFVLDRQRKNVPLIEVAYGGIGLGPDKRDIFMRLLRQVRSR
Ga0193709_10002943F044108AGGAMIGQYEERWREVCEQVAVEQDPKKLVELTTKIYRLLEEKRRRLQRKLMDATLPTVASSGT
Ga0193709_10002945F034086GAGGMADTYRITPHGPDFMVSQNAGVTVGVYNTAQEAQVTVEDCERDDFMLRTARSLVNAAVEVHMRLHHIDRRAAHDWIREAAD
Ga0193709_10002947F002638AGAAGGVRDVVLKYPIWQEPYRAAVTETNPKLLKHKISSAEQAAILRLKQLENSADHHHELTALTDALTAWKILGETIWAE
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.