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 Ga0164301_10003304

Scaffold Ga0164301_10003304


Overview

Basic Information
Taxon OID3300012960 Open in IMG/M
Scaffold IDGa0164301_10003304 Open in IMG/M
Source Dataset NameUnamended control soil microbial communities from upstate New York, USA - Whitman soil sample_231_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5614
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (63.64%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Amended Soil Microbial Communities From New York, Usa To Study Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: Mt. Pleasant research farm, Cornell University, New York
CoordinatesLat. (o)42.4531Long. (o)-76.3842Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F038885Metagenome / Metatranscriptome165Y
F073923Metagenome / Metatranscriptome120Y
F090222Metagenome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0164301_1000330410F090222GGAMHYVACWTEHDGVYCCGHSHLVVRDAMNCLVPDGGSFIRAHDAGVFRSLTNREFIDFLEALQEMPWSWRNRAQGGELTVPLTVNAG*
Ga0164301_100033046F073923GAGGMSTTPKDLSSEIKHFSSELMRLEQRIKSEPPPDPLALTEFRHRVDNVRLAAWSASELINAERTKKNPDTVLAFLSAERLRRFEQLVKSLCGDMERGLITVRTDGMQALCESVNELQQRLVQAINRRAQKTQGPGGSRPN*
Ga0164301_100033048F038885AGGLVAAKLAPEPPNTRLSIGDYIADILLDARPNGTIYHWIVQRVGSAAIIQWGQEYTFEDAYTAVAAYLESLGRPNKEKA*
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