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 Ga0209304_1000123

Scaffold Ga0209304_1000123


Overview

Basic Information
Taxon OID3300025577 Open in IMG/M
Scaffold IDGa0209304_1000123 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_100423 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)53734
Total Scaffold Genes75 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)68 (90.67%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

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?
F000375Metagenome / Metatranscriptome1217Y
F004646Metagenome / Metatranscriptome429Y
F015716Metagenome / Metatranscriptome252Y
F016668Metagenome / Metatranscriptome245Y
F017120Metagenome / Metatranscriptome242Y
F028770Metagenome / Metatranscriptome190N

Sequences

Protein IDFamilyRBSSequence
Ga0209304_100012330F015716GGAGGMSDEGMYFLGGAFAMYVLALPLLYHMVEPEDEEMDNSGPIKFTFLWPLIALEVIYRIFVGEKDNDGTGPN
Ga0209304_100012332F016668AGGAMIPVGQLRLLLTKAGLDFVITRVEGNVAHVNILVAEGSDVHS
Ga0209304_100012335F000375GGAGMPKLYDLEPMIMDCWHVCDDLQVVFRQIGDGEREPTHDEMMNTLMGMQQLYQWKFEQLFFKYEEVLRDRQ
Ga0209304_100012348F004646GGAGGMIYAIADVPHKDYDNYDTLNKLFHAIMPHGWRVSIWKKGELPSLYKKEKHGNICRIFVDYSSTAMRQHPDDSVLSYQCHDAEGCLTFHEVFDNVDKLIIYLTGKV
Ga0209304_100012357F028770N/AVSIGTLGVMMVCMSALAEHCQVLTSPYVFSSVEECQASIVAEARKIKEQYSHATIVPNCVALSYNGEPA
Ga0209304_100012370F017120N/AVSKGLLVMSLKKLVNDKQIWDAFIEELDGCISSTHRSMENISDTAELYRHQGAIKALRQLKYLRDKVNG
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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