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 Ga0209405_1000301

Scaffold Ga0209405_1000301


Overview

Basic Information
Taxon OID3300025620 Open in IMG/M
Scaffold IDGa0209405_1000301 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_110516 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)42494
Total Scaffold Genes72 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)64 (88.89%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Pelagic → Unclassified → Pelagic Marine → Pelagic Marine Microbial Communities From North Sea

Source Dataset Sampling Location
Location NameGermany:Helgoland, sampling site Kabeltonne, North Sea
CoordinatesLat. (o)54.1883Long. (o)7.9Alt. (m)Depth (m)1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002322Metagenome / Metatranscriptome571Y
F002542Metagenome / Metatranscriptome550Y
F018181Metagenome / Metatranscriptome236N
F022159Metagenome / Metatranscriptome215N
F037238Metagenome / Metatranscriptome168N

Sequences

Protein IDFamilyRBSSequence
Ga0209405_100030111F002542GGAGMHPTYLGWQVDWPVFIKIPVSANGKNWKRGDHFNWLERSMDEDKVASLYVSGYLHHNKELEVQTKVGDRLSELAGKQLESLVNSLNIEVKKRTSSKSEFDAKKCKKSKVDDKQRGLVRRFLNNNNWVTEDFYNIRDKVLTE
Ga0209405_100030120F002322GGAMSEALPYSKTVENHILECIQGGVAIRQMIASMQHLQAAPRSLSTMYKIYGSFMESERAKINGAVGRKVIDQALDGDFKSQELFLRSKGGWSPTHTVNEVEQEIDPDLDESATDALMSLLGYDNDDNPEKETYCECSEEDYCKCAEGIAAE
Ga0209405_100030132F022159AGGAGMALPSVMVSMVLAENANEFITVKFLTKNDEERTYNGRLNVKKYLAGGERGRKAADVLKAHNLIPMFVGKDGDKPKYKSFFLDRVLAIKAGGRHVFAMGAEIE
Ga0209405_10003018F018181GGGGGMKQRIKVNPSLFKRIDKLEEVVEEVLEAELISIANSAVALSPVDTGAYVTSFSFSTGAGRPRGKSSNNRPKRQNPQAMKQEGLLNLVSDINKLDLLNTTSVTLRNGSPHATDVEDGTHWKRTAGYKVFAKIRNIYG
Ga0209405_10003019F037238AGGGGGMSFRPFDLLGLVKDFGESLTLRKVTTSGTYNPATGAVNNSATTDYTITGYLYDYNVGVPSGNDEVVRGTRKCVISALGLGAVPDFDDLILGSGDAVKITSVVSIFSGGTAMGYICNVGE
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