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 Ga0070708_100000100

Scaffold Ga0070708_100000100


Overview

Basic Information
Taxon OID3300005445 Open in IMG/M
Scaffold IDGa0070708_100000100 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-3 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)56562
Total Scaffold Genes52 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)36 (69.23%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003319Metagenome / Metatranscriptome494Y
F007894Metagenome / Metatranscriptome343Y
F015501Metagenome / Metatranscriptome254Y
F061184Metagenome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0070708_10000010021F007894GGAGMRGTLGRANLGLFAVFTLIASGCASLRPYDPGPGKRVAAGFAQDTYLSGESVNITIANLSDVTLFYPDAFCKTQLQRKSGNAWLKVTDQPASCRPSLGFLEPGQTVVHQFRLPQGIAVGTYRFILPMPVPDDETVREPELLTPAFQIASSSH*
Ga0070708_10000010035F061184N/AMTETSREKLRITPHILIWMLGFVAVAVVGGFLMMDLSGLSAADQYVLARWSFPGLRIYLWLEGALLSAIVIALGVHVISTGFAVARGGASQMFGIALRTHPRMPRQFGYVFVFLGASLVALSLTTLVLLNSCRYMRLL*
Ga0070708_10000010042F015501N/AMHPVYRIDVARKLVTLYWNEFPTMARVREVVEEAIADTEFHPGMNFLWDRKPGEPNTATIEYLREAVYYLQVMAEEIGPHAWAIVTHNPADYGRGRMLEAMSDQGKVTIRAFQSRGDAEEWLRNPVRYDPQVVHFPARSPTLMYPGFA*
Ga0070708_10000010047F003319N/AVKEKRAISFFAGVSASLIIVATIILRTYYRTVDQHNAMLISAGLAFAVQLGSYALLRPARPGHGFPGELLLRWGLGGVLRLFVLVLYAPLARIINLSVEAALVSLVTFFFLTMMAEPLLLEYDR*
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