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 Ga0070765_100000014

Scaffold Ga0070765_100000014


Overview

Basic Information
Taxon OID3300006176 Open in IMG/M
Scaffold IDGa0070765_100000014 Open in IMG/M
Source Dataset NameWarmed and freeze-thawed soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire - Hubbard Brook CCASE Soil Metagenome WFT 5
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)148873
Total Scaffold Genes142 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)103 (72.54%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000238Metagenome / Metatranscriptome1494Y
F000260Metagenome / Metatranscriptome1431Y
F000359Metagenome / Metatranscriptome1236Y
F001885Metagenome / Metatranscriptome622Y
F073828Metagenome / Metatranscriptome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0070765_100000014139F001885AGAAGMSQEFLSLAIWQPLPGMEAASLASIRELNAIVLKKGYGRDLLYRGSDSHYMLLRYWNSEQARGTAQEDPELLRCWARLGNEIQILKVYEKLEEVGV*
Ga0070765_10000001418F073828N/AMNRKTRLRILLAFLVAAVLLLAGAACKKKEAPEEVLPMDRVAPSPVGESQPILHKTFTVSASVNFPFEVPAHAAMPRLHGNYKSFVKQLGVQSNDDTANVDFLILNEDQYADFVQGHTGEALFSADASHDQDVNVSLPTSQNLPQKYYLVFRNPPGGESKKVVQADFTLDF*
Ga0070765_10000001426F000260GAGGMNWKSKLVLGMLTALAMMLLTYALPRGGTLRDAALVQFPVTVGIWAIFVLLFVKLK*
Ga0070765_10000001467F000238AGGMPTPHPPRWYAIPVRVLLVTFIGTLITFAVSLLAGIIGTVAVSALRHVHPNMTVAYRQIAVPAAAVAGSIIFVLALAMEIRHYRQSRTLAAIERMS*
Ga0070765_10000001484F000359GGGGGMSGQVILYFEDQADALRFALAAGSVMAGDGTRATEDLVQETGRVSRIRLDAANAGKMKKPTPERAA*
 ⦗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.